UniProt Knowledgebase
Names
More detailed information about this field from each metasource.
UniProt Knowledgebase
metasource: Fairsharing.org
version: FAIRsharing.org: UniProtKB; UniProt Knowledgebase; DOI: https://doi.org/10.25504/FAIRsharing.s1ne3g; Last edited: March 19, 2021, 11:50 a.m.; Last accessed: Jan 03 2022 7:08 p.m.
UniProtKB
metasource: Fairsharing.org
version: FAIRsharing.org: UniProtKB; UniProt Knowledgebase; DOI: https://doi.org/10.25504/FAIRsharing.s1ne3g; Last edited: March 19, 2021, 11:50 a.m.; Last accessed: Jan 03 2022 7:08 p.m.
metasource: bio.tools
version: extracted_at: 2022-11-04T11:31:46.405831
UniProt
metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657
metasource: re3data.org
version: re3data.org: The Universal Protein Resource; editing status 2020-05-27; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R3BW2M last accessed: 2022-11-04
metasource: BiŌkeanós-Medsourcing
version: 0.0.1:2022-11-04T13:34:25.975929
The Universal Protein Resource
metasource: re3data.org
version: re3data.org: The Universal Protein Resource; editing status 2020-05-27; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R3BW2M last accessed: 2022-11-04
uniprotkb
metasource: bio.tools
version: extracted_at: 2022-11-04T11:31:46.405831
Names
More detailed information about this field from each metasource.
UniProt Knowledgebase
metasource: Fairsharing.orgversion: FAIRsharing.org: UniProtKB; UniProt Knowledgebase; DOI: https://doi.org/10.25504/FAIRsharing.s1ne3g; Last edited: March 19, 2021, 11:50 a.m.; Last accessed: Jan 03 2022 7:08 p.m.
UniProtKB
metasource: Fairsharing.orgversion: FAIRsharing.org: UniProtKB; UniProt Knowledgebase; DOI: https://doi.org/10.25504/FAIRsharing.s1ne3g; Last edited: March 19, 2021, 11:50 a.m.; Last accessed: Jan 03 2022 7:08 p.m.
metasource: bio.tools
version: extracted_at: 2022-11-04T11:31:46.405831
UniProt
metasource: Nucleic Acid Research database catalogueversion: extracted_at: 2022-11-04T11:16:25.468657
metasource: re3data.org
version: re3data.org: The Universal Protein Resource; editing status 2020-05-27; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R3BW2M last accessed: 2022-11-04
metasource: BiŌkeanós-Medsourcing
version: 0.0.1:2022-11-04T13:34:25.975929
The Universal Protein Resource
metasource: re3data.orgversion: re3data.org: The Universal Protein Resource; editing status 2020-05-27; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R3BW2M last accessed: 2022-11-04
uniprotkb
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:31:46.405831
Other names: UniProtKB, UniProt, The Universal Protein Resource, uniprotkb
Names
More detailed information about this field from each metasource.
UniProt Knowledgebase
metasource: Fairsharing.orgversion: FAIRsharing.org: UniProtKB; UniProt Knowledgebase; DOI: https://doi.org/10.25504/FAIRsharing.s1ne3g; Last edited: March 19, 2021, 11:50 a.m.; Last accessed: Jan 03 2022 7:08 p.m.
UniProtKB
metasource: Fairsharing.orgversion: FAIRsharing.org: UniProtKB; UniProt Knowledgebase; DOI: https://doi.org/10.25504/FAIRsharing.s1ne3g; Last edited: March 19, 2021, 11:50 a.m.; Last accessed: Jan 03 2022 7:08 p.m.
metasource: bio.tools
version: extracted_at: 2022-11-04T11:31:46.405831
UniProt
metasource: Nucleic Acid Research database catalogueversion: extracted_at: 2022-11-04T11:16:25.468657
metasource: re3data.org
version: re3data.org: The Universal Protein Resource; editing status 2020-05-27; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R3BW2M last accessed: 2022-11-04
metasource: BiŌkeanós-Medsourcing
version: 0.0.1:2022-11-04T13:34:25.975929
The Universal Protein Resource
metasource: re3data.orgversion: re3data.org: The Universal Protein Resource; editing status 2020-05-27; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R3BW2M last accessed: 2022-11-04
uniprotkb
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:31:46.405831
Universal Protein resource. A database of protein sequence and functional information, many entries being derived from genome sequencing projects. It contains a large amount of information about the biological function of proteins derived from the research literature. a central repository of protein data created by combining the Swiss-Prot, TrEMBL and PIR-PSD databases.
Description
More detailed information about this field from each metasource.
Universal Protein resource. A database of protein sequence and functional information, many entries being derived from genome sequencing projects. It contains a large amount of information about the biological function of proteins derived from the research literature. a central repository of protein data created by combining the Swiss-Prot, TrEMBL and PIR-PSD databases.
metasource: BiŌkeanós-Medsourcingversion: 0.0.1:2022-11-04T13:34:25.975929
The UniProt Knowledgebase (UniProtKB) is the central hub for the collection of functional information on proteins, with accurate, consistent and rich annotation. In addition to capturing the core data mandatory for each UniProtKB entry (mainly, the amino acid sequence, protein name or description, taxonomic data and citation information), as much annotation information as possible is added. This includes widely accepted biological ontologies, classifications and cross-references, and clear indications of the quality of annotation in the form of evidence attribution of experimental and computational data. The UniProt Knowledgebase consists of two sections: a reviewed section containing manually-annotated records with information extracted from literature and curator-evaluated computational analysis (aka "UniProtKB/Swiss-Prot"), and an unreviewed section with computationally analyzed records that await full manual annotation (aka "UniProtKB/TrEMBL").
metasource: Fairsharing.orgversion: FAIRsharing.org: UniProtKB; UniProt Knowledgebase; DOI: https://doi.org/10.25504/FAIRsharing.s1ne3g; Last edited: March 19, 2021, 11:50 a.m.; Last accessed: Jan 03 2022 7:08 p.m.
The aim of the UniProt Knowledgebase is to provide users with a comprehensive, high-quality and freely accessible set of protein sequences annotated with functional information. In this article, we describe significant updates that we have made over the last two years to the resource. The number of sequences in UniProtKB has risen to approximately 190 million, despite continued work to reduce sequence redundancy at the proteome level. We have adopted new methods of assessing proteome completeness and quality. We continue to extract detailed annotations from the literature to add to reviewed entries and supplement these in unreviewed entries with annotations provided by automated systems such as the newly implemented Association-Rule-Based Annotator (ARBA). We have developed a credit-based publication submission interface to allow the community to contribute publications and annotations to UniProt entries. We describe how UniProtKB responded to the COVID-19 pandemic through expert curation of relevant entries that were rapidly made available to the research community through a dedicated portal. UniProt resources are available under a CC-BY (4.0) license via the web at https://www.uniprot.org/.
metasource: Nucleic Acid Research database catalogueversion: extracted_at: 2022-11-04T11:16:25.468657
The Universal Protein Resource (UniProt) is a comprehensive resource for protein sequence and annotation data. The UniProt databases are the UniProt Knowledgebase (UniProtKB), the UniProt Reference Clusters (UniRef), and the UniProt Archive (UniParc). The UniProt Metagenomic and Environmental Sequences (UniMES) database is a repository specifically developed for metagenomic and environmental data.
metasource: re3data.orgversion: re3data.org: The Universal Protein Resource; editing status 2020-05-27; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R3BW2M last accessed: 2022-11-04
The central hub for the collection of functional information on proteins with accurate, consistent and rich annotation. It consists of: UniProtKB/Swiss-Prot (manually-annotated records and curator-evaluated computational analysis) and UniProtKB/TrEMBL (computationally analyzed records awaiting manual annotation).
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:31:46.405831
Webpage:
https://www.uniprot.orgWebpage
More detailed information about this field from each metasource.
https://www.uniprot.org
metasource: BiŌkeanós-Medsourcingversion: 0.0.1:2022-11-04T13:34:25.975929
http://www.uniprot.org/uniprot/
metasource: Fairsharing.orgversion: FAIRsharing.org: UniProtKB; UniProt Knowledgebase; DOI: https://doi.org/10.25504/FAIRsharing.s1ne3g; Last edited: March 19, 2021, 11:50 a.m.; Last accessed: Jan 03 2022 7:08 p.m.
metasource: bio.tools
version: extracted_at: 2022-11-04T11:31:46.405831
http://www.uniprot.org/
metasource: Nucleic Acid Research database catalogueversion: extracted_at: 2022-11-04T11:16:25.468657
https://www.uniprot.org/
metasource: re3data.orgversion: re3data.org: The Universal Protein Resource; editing status 2020-05-27; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R3BW2M last accessed: 2022-11-04
Licence:
Name: Creative Commons Attribution v4.0Licence name
More detailed information about this field from each metasource.
Creative Commons Attribution v4.0
metasource: BiŌkeanós-Medsourcingversion: 0.0.1:2022-11-04T13:34:25.975929
Creative Commons Attribution 4.0 International (CC BY 4.0)
metasource: Fairsharing.orgversion: FAIRsharing.org: UniProtKB; UniProt Knowledgebase; DOI: https://doi.org/10.25504/FAIRsharing.s1ne3g; Last edited: March 19, 2021, 11:50 a.m.; Last accessed: Jan 03 2022 7:08 p.m.
CC
metasource: re3data.orgversion: re3data.org: The Universal Protein Resource; editing status 2020-05-27; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R3BW2M last accessed: 2022-11-04
CC-BY-ND-3.0
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:31:46.405831
Licence URL
More detailed information about this field from each metasource.
https://www.uniprot.org/help/license
metasource: BiŌkeanós-Medsourcingversion: 0.0.1:2022-11-04T13:34:25.975929
https://creativecommons.org/licenses/by/4.0/
metasource: Fairsharing.orgversion: FAIRsharing.org: UniProtKB; UniProt Knowledgebase; DOI: https://doi.org/10.25504/FAIRsharing.s1ne3g; Last edited: March 19, 2021, 11:50 a.m.; Last accessed: Jan 03 2022 7:08 p.m.
metasource: re3data.org
version: re3data.org: The Universal Protein Resource; editing status 2020-05-27; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R3BW2M last accessed: 2022-11-04
Publications:
(25)
Publications
More detailed information about this field from each metasource.
UniProt: a worldwide hub of protein knowledge
PMID: 30395287
metasource: BiŌkeanós-Medsourcing
version: 0.0.1:2022-11-04T13:34:25.975929
metasource: Fairsharing.org
version: FAIRsharing.org: UniProtKB; UniProt Knowledgebase; DOI: https://doi.org/10.25504/FAIRsharing.s1ne3g; Last edited: March 19, 2021, 11:50 a.m.; Last accessed: Jan 03 2022 7:08 p.m.
UniProt: a hub for protein information
PMID: 25348405
metasource: BiŌkeanós-Medsourcing
version: 0.0.1:2022-11-04T13:34:25.975929
metasource: Fairsharing.org
version: FAIRsharing.org: UniProtKB; UniProt Knowledgebase; DOI: https://doi.org/10.25504/FAIRsharing.s1ne3g; Last edited: March 19, 2021, 11:50 a.m.; Last accessed: Jan 03 2022 7:08 p.m.
metasource: bio.tools
version: extracted_at: 2022-11-04T11:31:46.405831
UniProt: the universal protein knowledgebase
PMID: 27899622
metasource: BiŌkeanós-Medsourcing
version: 0.0.1:2022-11-04T13:34:25.975929
metasource: Fairsharing.org
version: FAIRsharing.org: UniProtKB; UniProt Knowledgebase; DOI: https://doi.org/10.25504/FAIRsharing.s1ne3g; Last edited: March 19, 2021, 11:50 a.m.; Last accessed: Jan 03 2022 7:08 p.m.
metasource: Fairsharing.org
version: FAIRsharing.org: UniProtKB; UniProt Knowledgebase; DOI: https://doi.org/10.25504/FAIRsharing.s1ne3g; Last edited: March 19, 2021, 11:50 a.m.; Last accessed: Jan 03 2022 7:08 p.m.
The SWISS-PROT protein knowledgebase and its supplement TrEMBL in 2003
PMID: 12520024
metasource: BiŌkeanós-Medsourcing
version: 0.0.1:2022-11-04T13:34:25.975929
UniProt: the Universal Protein knowledgebase
PMID: 14681372
metasource: BiŌkeanós-Medsourcing
version: 0.0.1:2022-11-04T13:34:25.975929
UniProt Knowledgebase: a hub of integrated protein data
PMID: 21447597
metasource: Fairsharing.org
version: FAIRsharing.org: UniProtKB; UniProt Knowledgebase; DOI: https://doi.org/10.25504/FAIRsharing.s1ne3g; Last edited: March 19, 2021, 11:50 a.m.; Last accessed: Jan 03 2022 7:08 p.m.
UniProt: the universal protein knowledgebase
PMID: 29425356
metasource: BiŌkeanós-Medsourcing
version: 0.0.1:2022-11-04T13:34:25.975929
metasource: Fairsharing.org
version: FAIRsharing.org: UniProtKB; UniProt Knowledgebase; DOI: https://doi.org/10.25504/FAIRsharing.s1ne3g; Last edited: March 19, 2021, 11:50 a.m.; Last accessed: Jan 03 2022 7:08 p.m.
Activities at the Universal Protein Resource (UniProt)
PMID: 24253303
metasource: Fairsharing.org
version: FAIRsharing.org: UniProtKB; UniProt Knowledgebase; DOI: https://doi.org/10.25504/FAIRsharing.s1ne3g; Last edited: March 19, 2021, 11:50 a.m.; Last accessed: Jan 03 2022 7:08 p.m.
The Universal Protein Resource (UniProt)
PMID: 15608167
metasource: Fairsharing.org
version: FAIRsharing.org: UniProtKB; UniProt Knowledgebase; DOI: https://doi.org/10.25504/FAIRsharing.s1ne3g; Last edited: March 19, 2021, 11:50 a.m.; Last accessed: Jan 03 2022 7:08 p.m.
The Universal Protein Resource (UniProt) in 2010
PMID: 19843607
metasource: BiŌkeanós-Medsourcing
version: 0.0.1:2022-11-04T13:34:25.975929
metasource: Fairsharing.org
version: FAIRsharing.org: UniProtKB; UniProt Knowledgebase; DOI: https://doi.org/10.25504/FAIRsharing.s1ne3g; Last edited: March 19, 2021, 11:50 a.m.; Last accessed: Jan 03 2022 7:08 p.m.
The Universal Protein Resource (UniProt): an expanding universe of protein information
PMID: 16381842
metasource: BiŌkeanós-Medsourcing
version: 0.0.1:2022-11-04T13:34:25.975929
metasource: Fairsharing.org
version: FAIRsharing.org: UniProtKB; UniProt Knowledgebase; DOI: https://doi.org/10.25504/FAIRsharing.s1ne3g; Last edited: March 19, 2021, 11:50 a.m.; Last accessed: Jan 03 2022 7:08 p.m.
The universal protein resource (UniProt)
PMID: 18045787
metasource: Fairsharing.org
version: FAIRsharing.org: UniProtKB; UniProt Knowledgebase; DOI: https://doi.org/10.25504/FAIRsharing.s1ne3g; Last edited: March 19, 2021, 11:50 a.m.; Last accessed: Jan 03 2022 7:08 p.m.
Update on activities at the Universal Protein Resource (UniProt) in 2013
PMID: 23161681
metasource: Fairsharing.org
version: FAIRsharing.org: UniProtKB; UniProt Knowledgebase; DOI: https://doi.org/10.25504/FAIRsharing.s1ne3g; Last edited: March 19, 2021, 11:50 a.m.; Last accessed: Jan 03 2022 7:08 p.m.
The Universal Protein Resource (UniProt) 2009
PMID: 18836194
metasource: BiŌkeanós-Medsourcing
version: 0.0.1:2022-11-04T13:34:25.975929
metasource: Fairsharing.org
version: FAIRsharing.org: UniProtKB; UniProt Knowledgebase; DOI: https://doi.org/10.25504/FAIRsharing.s1ne3g; Last edited: March 19, 2021, 11:50 a.m.; Last accessed: Jan 03 2022 7:08 p.m.
The Universal Protein Resource (UniProt)
PMID: 17142230
metasource: BiŌkeanós-Medsourcing
version: 0.0.1:2022-11-04T13:34:25.975929
UniProtKB/Swiss-Prot
PMID: 18287689
metasource: BiŌkeanós-Medsourcing
version: 0.0.1:2022-11-04T13:34:25.975929
metasource: Fairsharing.org
version: FAIRsharing.org: UniProtKB; UniProt Knowledgebase; DOI: https://doi.org/10.25504/FAIRsharing.s1ne3g; Last edited: March 19, 2021, 11:50 a.m.; Last accessed: Jan 03 2022 7:08 p.m.
The UniProt-GO Annotation database in 2011
PMID: 22123736
metasource: Fairsharing.org
version: FAIRsharing.org: UniProtKB; UniProt Knowledgebase; DOI: https://doi.org/10.25504/FAIRsharing.s1ne3g; Last edited: March 19, 2021, 11:50 a.m.; Last accessed: Jan 03 2022 7:08 p.m.
Swiss-Prot: juggling between evolution and stability
PMID: 15153305
metasource: BiŌkeanós-Medsourcing
version: 0.0.1:2022-11-04T13:34:25.975929
High-quality protein knowledge resource: SWISS-PROT and TrEMBL
PMID: 12230036
metasource: BiŌkeanós-Medsourcing
version: 0.0.1:2022-11-04T13:34:25.975929
SWISS-PROT: connecting biomolecular knowledge via a protein database
PMID: 11488411
metasource: BiŌkeanós-Medsourcing
version: 0.0.1:2022-11-04T13:34:25.975929
UniProt archive
PMID: 15044231
metasource: Fairsharing.org
version: FAIRsharing.org: UniProtKB; UniProt Knowledgebase; DOI: https://doi.org/10.25504/FAIRsharing.s1ne3g; Last edited: March 19, 2021, 11:50 a.m.; Last accessed: Jan 03 2022 7:08 p.m.
The SWISS-PROT protein sequence database: its relevance to human molecular medical research
PMID: 9181472
metasource: Fairsharing.org
version: FAIRsharing.org: UniProtKB; UniProt Knowledgebase; DOI: https://doi.org/10.25504/FAIRsharing.s1ne3g; Last edited: March 19, 2021, 11:50 a.m.; Last accessed: Jan 03 2022 7:08 p.m.
UniProt Tools
PMID: 27010333
metasource: Fairsharing.org
version: FAIRsharing.org: UniProtKB; UniProt Knowledgebase; DOI: https://doi.org/10.25504/FAIRsharing.s1ne3g; Last edited: March 19, 2021, 11:50 a.m.; Last accessed: Jan 03 2022 7:08 p.m.
http://dx.doi.org/10.1093/nar/gkaa1100
metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657
http://dx.doi.org/10.1093/nar/gkt1140
metasource: bio.tools
version: extracted_at: 2022-11-04T11:31:46.405831
Publications
More detailed information about this field from each metasource.
UniProt: a worldwide hub of protein knowledge
PMID: 30395287
metasource: BiŌkeanós-Medsourcing
version: 0.0.1:2022-11-04T13:34:25.975929
metasource: Fairsharing.org
version: FAIRsharing.org: UniProtKB; UniProt Knowledgebase; DOI: https://doi.org/10.25504/FAIRsharing.s1ne3g; Last edited: March 19, 2021, 11:50 a.m.; Last accessed: Jan 03 2022 7:08 p.m.
UniProt: a hub for protein information
PMID: 25348405
metasource: BiŌkeanós-Medsourcing
version: 0.0.1:2022-11-04T13:34:25.975929
metasource: Fairsharing.org
version: FAIRsharing.org: UniProtKB; UniProt Knowledgebase; DOI: https://doi.org/10.25504/FAIRsharing.s1ne3g; Last edited: March 19, 2021, 11:50 a.m.; Last accessed: Jan 03 2022 7:08 p.m.
metasource: bio.tools
version: extracted_at: 2022-11-04T11:31:46.405831
UniProt: the universal protein knowledgebase
PMID: 27899622
metasource: BiŌkeanós-Medsourcing
version: 0.0.1:2022-11-04T13:34:25.975929
metasource: Fairsharing.org
version: FAIRsharing.org: UniProtKB; UniProt Knowledgebase; DOI: https://doi.org/10.25504/FAIRsharing.s1ne3g; Last edited: March 19, 2021, 11:50 a.m.; Last accessed: Jan 03 2022 7:08 p.m.
metasource: Fairsharing.org
version: FAIRsharing.org: UniProtKB; UniProt Knowledgebase; DOI: https://doi.org/10.25504/FAIRsharing.s1ne3g; Last edited: March 19, 2021, 11:50 a.m.; Last accessed: Jan 03 2022 7:08 p.m.
The SWISS-PROT protein knowledgebase and its supplement TrEMBL in 2003
PMID: 12520024
metasource: BiŌkeanós-Medsourcing
version: 0.0.1:2022-11-04T13:34:25.975929
UniProt: the Universal Protein knowledgebase
PMID: 14681372
metasource: BiŌkeanós-Medsourcing
version: 0.0.1:2022-11-04T13:34:25.975929
UniProt Knowledgebase: a hub of integrated protein data
PMID: 21447597
metasource: Fairsharing.org
version: FAIRsharing.org: UniProtKB; UniProt Knowledgebase; DOI: https://doi.org/10.25504/FAIRsharing.s1ne3g; Last edited: March 19, 2021, 11:50 a.m.; Last accessed: Jan 03 2022 7:08 p.m.
UniProt: the universal protein knowledgebase
PMID: 29425356
metasource: BiŌkeanós-Medsourcing
version: 0.0.1:2022-11-04T13:34:25.975929
metasource: Fairsharing.org
version: FAIRsharing.org: UniProtKB; UniProt Knowledgebase; DOI: https://doi.org/10.25504/FAIRsharing.s1ne3g; Last edited: March 19, 2021, 11:50 a.m.; Last accessed: Jan 03 2022 7:08 p.m.
Activities at the Universal Protein Resource (UniProt)
PMID: 24253303
metasource: Fairsharing.org
version: FAIRsharing.org: UniProtKB; UniProt Knowledgebase; DOI: https://doi.org/10.25504/FAIRsharing.s1ne3g; Last edited: March 19, 2021, 11:50 a.m.; Last accessed: Jan 03 2022 7:08 p.m.
The Universal Protein Resource (UniProt)
PMID: 15608167
metasource: Fairsharing.org
version: FAIRsharing.org: UniProtKB; UniProt Knowledgebase; DOI: https://doi.org/10.25504/FAIRsharing.s1ne3g; Last edited: March 19, 2021, 11:50 a.m.; Last accessed: Jan 03 2022 7:08 p.m.
The Universal Protein Resource (UniProt) in 2010
PMID: 19843607
metasource: BiŌkeanós-Medsourcing
version: 0.0.1:2022-11-04T13:34:25.975929
metasource: Fairsharing.org
version: FAIRsharing.org: UniProtKB; UniProt Knowledgebase; DOI: https://doi.org/10.25504/FAIRsharing.s1ne3g; Last edited: March 19, 2021, 11:50 a.m.; Last accessed: Jan 03 2022 7:08 p.m.
The Universal Protein Resource (UniProt): an expanding universe of protein information
PMID: 16381842
metasource: BiŌkeanós-Medsourcing
version: 0.0.1:2022-11-04T13:34:25.975929
metasource: Fairsharing.org
version: FAIRsharing.org: UniProtKB; UniProt Knowledgebase; DOI: https://doi.org/10.25504/FAIRsharing.s1ne3g; Last edited: March 19, 2021, 11:50 a.m.; Last accessed: Jan 03 2022 7:08 p.m.
The universal protein resource (UniProt)
PMID: 18045787
metasource: Fairsharing.org
version: FAIRsharing.org: UniProtKB; UniProt Knowledgebase; DOI: https://doi.org/10.25504/FAIRsharing.s1ne3g; Last edited: March 19, 2021, 11:50 a.m.; Last accessed: Jan 03 2022 7:08 p.m.
Update on activities at the Universal Protein Resource (UniProt) in 2013
PMID: 23161681
metasource: Fairsharing.org
version: FAIRsharing.org: UniProtKB; UniProt Knowledgebase; DOI: https://doi.org/10.25504/FAIRsharing.s1ne3g; Last edited: March 19, 2021, 11:50 a.m.; Last accessed: Jan 03 2022 7:08 p.m.
The Universal Protein Resource (UniProt) 2009
PMID: 18836194
metasource: BiŌkeanós-Medsourcing
version: 0.0.1:2022-11-04T13:34:25.975929
metasource: Fairsharing.org
version: FAIRsharing.org: UniProtKB; UniProt Knowledgebase; DOI: https://doi.org/10.25504/FAIRsharing.s1ne3g; Last edited: March 19, 2021, 11:50 a.m.; Last accessed: Jan 03 2022 7:08 p.m.
The Universal Protein Resource (UniProt)
PMID: 17142230
metasource: BiŌkeanós-Medsourcing
version: 0.0.1:2022-11-04T13:34:25.975929
UniProtKB/Swiss-Prot
PMID: 18287689
metasource: BiŌkeanós-Medsourcing
version: 0.0.1:2022-11-04T13:34:25.975929
metasource: Fairsharing.org
version: FAIRsharing.org: UniProtKB; UniProt Knowledgebase; DOI: https://doi.org/10.25504/FAIRsharing.s1ne3g; Last edited: March 19, 2021, 11:50 a.m.; Last accessed: Jan 03 2022 7:08 p.m.
The UniProt-GO Annotation database in 2011
PMID: 22123736
metasource: Fairsharing.org
version: FAIRsharing.org: UniProtKB; UniProt Knowledgebase; DOI: https://doi.org/10.25504/FAIRsharing.s1ne3g; Last edited: March 19, 2021, 11:50 a.m.; Last accessed: Jan 03 2022 7:08 p.m.
Swiss-Prot: juggling between evolution and stability
PMID: 15153305
metasource: BiŌkeanós-Medsourcing
version: 0.0.1:2022-11-04T13:34:25.975929
High-quality protein knowledge resource: SWISS-PROT and TrEMBL
PMID: 12230036
metasource: BiŌkeanós-Medsourcing
version: 0.0.1:2022-11-04T13:34:25.975929
SWISS-PROT: connecting biomolecular knowledge via a protein database
PMID: 11488411
metasource: BiŌkeanós-Medsourcing
version: 0.0.1:2022-11-04T13:34:25.975929
UniProt archive
PMID: 15044231
metasource: Fairsharing.org
version: FAIRsharing.org: UniProtKB; UniProt Knowledgebase; DOI: https://doi.org/10.25504/FAIRsharing.s1ne3g; Last edited: March 19, 2021, 11:50 a.m.; Last accessed: Jan 03 2022 7:08 p.m.
The SWISS-PROT protein sequence database: its relevance to human molecular medical research
PMID: 9181472
metasource: Fairsharing.org
version: FAIRsharing.org: UniProtKB; UniProt Knowledgebase; DOI: https://doi.org/10.25504/FAIRsharing.s1ne3g; Last edited: March 19, 2021, 11:50 a.m.; Last accessed: Jan 03 2022 7:08 p.m.
UniProt Tools
PMID: 27010333
metasource: Fairsharing.org
version: FAIRsharing.org: UniProtKB; UniProt Knowledgebase; DOI: https://doi.org/10.25504/FAIRsharing.s1ne3g; Last edited: March 19, 2021, 11:50 a.m.; Last accessed: Jan 03 2022 7:08 p.m.
http://dx.doi.org/10.1093/nar/gkaa1100
metasource: Nucleic Acid Research database catalogueversion: extracted_at: 2022-11-04T11:16:25.468657
http://dx.doi.org/10.1093/nar/gkt1140
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:31:46.405831
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UniProt: a worldwide hub of protein knowledge
PubMed citations: 2354.
2354 articles citing: UniProt: a worldwide hub of protein knowledge
Mapping the cell-membrane proteome of the SKBR3/HER2+ cell line to the cancer hallmarks. PMID:35913978
Purification and Characterization of a Novel Extracellular Haloprotease Vpr from Bacillus licheniformis Strain KB111. PMID:35910276
Identification of Vesicle Transport Proteins via Hypergraph Regularized K-Local Hyperplane Distance Nearest Neighbour Model. PMID:35910197
Mutations in SORL1 and MTHFDL1 possibly contribute to the development of Alzheimer's disease in a multigenerational Colombian Family. PMID:35905044
JAK2 Alterations in Acute Lymphoblastic Leukemia: Molecular Insights for Superior Precision Medicine Strategies. PMID:35903543
Systematic in silico discovery of novel solute carrier-like proteins from proteomes. PMID:35901096
An accurate prediction model of digenic interaction for estimating pathogenic gene pairs of human diseases. PMID:35891796
Development of a Novel Multi-Epitope Vaccine Candidate against Streptococcus Iniae Infection in Fish: An Immunoinformatics Study. PMID:35891737
In Silico Genomic and Metabolic Atlas of Limosilactobacillus reuteri DSM 20016: An Insight into Human Health. PMID:35889060
Novel Insights on Human Carbonic Anhydrase Inhibitors Based on Coumalic Acid: Design, Synthesis, Molecular Modeling Investigation, and Biological Studies. PMID:35887299
Identification of New Toxicity Mechanisms in Drug-Induced Liver Injury through Systems Pharmacology. PMID:35886075
The Fate of IgE Epitopes and Coeliac Toxic Motifs during Simulated Gastrointestinal Digestion of Pizza Base. PMID:35885243
Oxidative stress differentially impacts apical and basolateral secretion of angiogenic factors from human iPSC-derived retinal pigment epithelium cells. PMID:35882889
Structural signatures: a web server for exploring a database of and generating protein structural features from human cell lines and tissues. PMID:35881481
N- glycoproteomic profiling revealing novel coronavirus therapeutic targets potentially involved in Cepharanthine's intervention. PMID:35879945
KSTAR: An algorithm to predict patient-specific kinase activities from phosphoproteomic data. PMID:35879309
Dynamic changes in O-GlcNAcylation regulate osteoclast differentiation and bone loss via nucleoporin 153. PMID:35879285
Quantitative In Silico Evaluation of Allergenic Proteins from Anacardium occidentale, Carya illinoinensis, Juglans regia and Pistacia vera and Their Epitopes as Precursors of Bioactive Peptides. PMID:35877438
Combined Theoretical and Experimental Study to Unravel the Differences in Promiscuous Amidase Activity of Two Nonhomologous Enzymes. PMID:35875595
Mechanism of Action of Yin Nourishing and Heat Clearing Prescription in Treating Cough Variant Asthma Based on Network Pharmacology and Molecular Docking Verification. PMID:35866040
Mini-review: Recent advances in post-translational modification site prediction based on deep learning. PMID:35860402
Neuropilin 1 and its inhibitory ligand mini-tryptophanyl-tRNA synthetase inversely regulate VE-cadherin turnover and vascular permeability. PMID:35858913
JAK2-CHK2 signaling safeguards the integrity of the mitotic spindle assembly checkpoint and genome stability. PMID:35851582
Total Flavonoids of Drynariae Rhizoma Improve Glucocorticoid-Induced Osteoporosis of Rats: UHPLC-MS-Based Qualitative Analysis, Network Pharmacology Strategy and Pharmacodynamic Validation. PMID:35846330
The genome sequences of the male and female green-veined white, Pieris napi (Linnaeus, 1758). PMID:35846179
SARS-CoV-2-Induced Immunosuppression: A Molecular Mimicry Syndrome. PMID:35846107
DCBLD1 Overexpression Is Associated With a Poor Prognosis in Head and Neck Squamous Cell Carcinoma. PMID:35844572
Computational analysis of potential candidate genes involved in the cold stress response of ten Rosaceae members. PMID:35842574
Systematic prediction of degrons and E3 ubiquitin ligase binding via deep learning. PMID:35836176
Deep learning frameworks for protein-protein interaction prediction. PMID:35832624
In-silico screening and in-vitro assay show the antiviral effect of Indomethacin against SARS-CoV-2. PMID:35809412
Analyzing BMP2, FGFR, and TGF Beta Expressions in High-Grade Osteosarcoma Untreated and Treated Autografts Using Proteomic Analysis. PMID:35806417
iPCD: A Comprehensive Data Resource of Regulatory Proteins in Programmed Cell Death. PMID:35805101
Characterization of a novel thermophilic metagenomic GH5 endoglucanase heterologously expressed in Escherichia coli and Saccharomyces cerevisiae. PMID:35799200
Toward a base-resolution panorama of the in vivo impact of cytosine methylation on transcription factor binding. PMID:35799193
Biomimetic generation of the strongest known biomaterial found in limpet tooth. PMID:35798724
Biochemical characterization and peptide mass fingerprinting of two glutathione transferases from Biomphalaria alexandrina snails (Gastropoda: Planorbidae). PMID:35792934
Genomic and phenotypic comparison of Prevotella intermedia strains possessing different virulence in vivo. PMID:35791444
The Role of m6A RNA Methylation in Cancer: Implication for Nature Products Anti-Cancer Research. PMID:35784761
A consensus view of the proteome of the last universal common ancestor. PMID:35784055
PHILM2Web: A high-throughput database of macromolecular host-pathogen interactions on the Web. PMID:35776535
Repositioning of Anti-Inflammatory Drugs for the Treatment of Cervical Cancer Sub-Types. PMID:35770086
Deep generative models for peptide design. PMID:35769205
Discovering molecular features of intrinsically disordered regions by using evolution for contrastive learning. PMID:35767567
Biosynthesis of saponin defensive compounds in sea cucumbers. PMID:35761075
The SKBR3 cell-membrane proteome reveals telltales of aberrant cancer cell proliferation and targets for precision medicine applications. PMID:35760832
Laboratory evolution of synthetic electron transport system variants reveals a larger metabolic respiratory system and its plasticity. PMID:35760776
DeepGOZero: improving protein function prediction from sequence and zero-shot learning based on ontology axioms. PMID:35758802
Structural Elucidation of Rift Valley Fever Virus L Protein towards the Discovery of Its Potential Inhibitors. PMID:35745579
Proteomic Analysis of Human Milk Reveals Nutritional and Immune Benefits in the Colostrum from Mothers with COVID-19. PMID:35745243
Novel Insight into the Potential Role of Acylglycerophosphate Acyltransferases Family Members on Triacylglycerols Synthesis in Buffalo. PMID:35743005
The Repeating, Modular Architecture of the HtrA Proteases. PMID:35740918
P Starvation in Roses Leads to Strongly Genotype-Dependent Induction of P-Transporter Genes during Black Spot Leaf Disease. PMID:35736032
Insight Into the Properties and Immunoregulatory Effect of Extracellular Vesicles Produced by Candida glabrata, Candida parapsilosis, and Candida tropicalis Biofilms. PMID:35734578
Transcriptomic and proteomic profiling of peptidase expression in Fasciola hepatica eggs developing at host's body temperature. PMID:35725898
Revealing the human mucinome. PMID:35725833
Towards the First Multiepitope Vaccine Candidate against Neospora caninum in Mouse Model: Immunoinformatic Standpoint. PMID:35722460
Proteome-Wide and Protein-Specific Multi-Epitope Vaccine Constructs Against the Rift Valley Fever Virus Outbreak Using Integrated Omics Approaches. PMID:35711778
Mass spectrometry-based draft of the mouse proteome. PMID:35710609
Genome-wide association study and selection for field resistance to cassava root rot disease and productive traits. PMID:35709238
Evaluation of the Mechanism of Jiedu Huazhuo Quyu Formula in Treating Wilson's Disease-Associated Liver Fibrosis by Network Pharmacology Analysis and Molecular Dynamics Simulation. PMID:35707473
Spatial and temporal proteomics reveals the distinct distributions and dynamics of O-GlcNAcylated proteins. PMID:35705054
Menthol carbonates as potent antiparasitic agents: synthesis and in vitro studies along with computer-aided approaches. PMID:35698116
merlin, an improved framework for the reconstruction of high-quality genome-scale metabolic models. PMID:35694833
SM-COLSARSPROT: Highly Immunogenic Supramutational Synthetic Peptides Covering the World's Population. PMID:35693819
Conserved coronavirus proteins as targets of broad-spectrum antivirals. PMID:35691424
SALARECON connects the Atlantic salmon genome to growth and feed efficiency. PMID:35687595
40S hnRNP particles are a novel class of nuclear biomolecular condensates. PMID:35687109
Metformin Prevents Key Mechanisms of Obesity-Related Complications in Visceral White Adipose Tissue of Obese Pregnant Mice. PMID:35684088
Variations in Blood Platelet Proteome and Transcriptome Revealed Altered Expression of Transgelin-2 in Acute Coronary Syndrome Patients. PMID:35683019
Isogenic GAA-KO Murine Muscle Cell Lines Mimicking Severe Pompe Mutations as Preclinical Models for the Screening of Potential Gene Therapy Strategies. PMID:35682977
Control of CRK-RAC1 activity by the miR-1/206/133 miRNA family is essential for neuromuscular junction function. PMID:35676269
The genome sequence of the grizzled skipper, Pyrgus malvae (Linnaeus, 1758). PMID:35673393
Integrative analysis and prediction of human R-loop binding proteins. PMID:35666183
In silico SARS-CoV-2 vaccine development for Omicron strain using reverse vaccinology. PMID:35665465
A Network Pharmacology Analysis of Cytotoxic Triterpenes Isolated from Euphorbia abyssinica Latex Supported by Drug-likeness and ADMET Studies. PMID:35664578
Protposer: The web server that readily proposes protein stabilizing mutations with high PPV. PMID:35664235
MIAOME: Human microbiome affect the host epigenome. PMID:35664224
Uncovering cryptic pockets in the SARS-CoV-2 spike glycoprotein. PMID:35660160
Computational design of an amidase by combining the best electrostatic features of two promiscuous hydrolases. PMID:35655887
Expediting knowledge acquisition by a web framework for Knowledge Graph Exploration and Visualization (KGEV): case studies on COVID-19 and Human Phenotype Ontology. PMID:35655307
The sanitary indoor environment-a potential source for intact human-associated anaerobes. PMID:35650275
Flexible protein database based on amino acid k-mers. PMID:35650262
Resveratrol Ameliorates Lipopolysaccharide-Induced Sudden Sensorineural Hearing Loss in In Vitro Model through Multitarget Antiapoptotic Mechanism Based on Network Pharmacology and Molecular Docking. PMID:35646137
Annotation Query (AnnoQ): an integrated and interactive platform for large-scale genetic variant annotation. PMID:35640593
mebipred: identifying metal binding potential in protein sequence. PMID:35639953
Conditional generative modeling for de novo protein design with hierarchical functions. PMID:35639661
ColabFold: making protein folding accessible to all. PMID:35637307
Subcellular localization of Type VI secretion system assembly in response to cell-cell contact. PMID:35634969
Prediction of the Medicinal Mechanisms of Pinellia ternata Breitenbach, a Traditional Medicine for Gastrointestinal Motility Disorders, through Network Pharmacology. PMID:35631773
Targeting Nuclear Receptors in Lung Cancer-Novel Therapeutic Prospects. PMID:35631448
Bioactive Phytoconstituents as Potent Inhibitors of Tyrosine-Protein Kinase Yes (YES1): Implications in Anticancer Therapeutics. PMID:35630545
Bioprospecting for Thermozymes and Characterization of a Novel Lipolytic Thermozyme Belonging to the SGNH/GDSL Family of Hydrolases. PMID:35628544
Venomics of the Central European Myrmicine Ants Myrmica rubra and Myrmica ruginodis. PMID:35622604
PepNN: a deep attention model for the identification of peptide binding sites. PMID:35618814
Yaobishu Regulates Inflammatory, Metabolic, Autophagic, and Apoptosis Pathways to Attenuate Lumbar Disc Herniation. PMID:35615578
The genome sequence of the European water vole, Arvicola amphibius Linnaeus 1758. PMID:35600244
An Electrostatically-steered Conformational Selection Mechanism Promotes SARS-CoV-2 Spike Protein Variation. PMID:35595165
Revealing the novel complexity of plant long non-coding RNA by strand-specific and whole transcriptome sequencing for evolutionarily representative plant species. PMID:35590257
Conformational spread drives the evolution of the calcium-calmodulin protein kinase II. PMID:35589775
Clinical Evidence and Potential Mechanisms of Complementary Treatment of Ling Gui Zhu Gan Formula for the Management of Serum Lipids and Obesity. PMID:35586687
SARS-CoV-2 in silico binding affinity to human leukocyte antigen (HLA) Class II molecules predicts vaccine effectiveness across variants of concern (VOC). PMID:35577837
Temperature and Geographic Location Impact the Distribution and Diversity of Photoautotrophic Gene Variants in Alkaline Yellowstone Hot Springs. PMID:35575591
Combination of Genome-Scale Models and Bioreactor Dynamics to Optimize the Production of Commodity Chemicals. PMID:35573743
Comparative proteomics analysis of Pichia pastoris cultivating in glucose and methanol. PMID:35572767
Apolipoprotein E4 Effects a Distinct Transcriptomic Profile and Dendritic Arbor Characteristics in Hippocampal Neurons Cultured in vitro. PMID:35572125
Transcriptome profiling and proteomic validation reveals targets of the androgen receptor signaling in the BT-474 breast cancer cell line. PMID:35568821
A haploid pseudo-chromosome genome assembly for a keystone sagebrush species of western North American rangelands. PMID:35567476
The Mantle Transcriptome of Chamelea gallina (Mollusca: Bivalvia) and Shell Biomineralization. PMID:35565623
Potential of Inflammatory Protein Signatures for Enhanced Selection of People for Lung Cancer Screening. PMID:35565275
Placental Transcription Profiling in 6-23 Weeks' Gestation Reveals Differential Transcript Usage in Early Development. PMID:35562897
CrowdGO: Machine learning and semantic similarity guided consensus Gene Ontology annotation. PMID:35560159
Deep learning of a bacterial and archaeal universal language of life enables transfer learning and illuminates microbial dark matter. PMID:35545619
Profiling the Human Phosphoproteome to Estimate the True Extent of Protein Phosphorylation. PMID:35532924
Structure-Activity Predictions From Computational Mining of Protein Databases to Assist Modular Design of Antimicrobial Peptides. PMID:35531270
Earliest Photic Zone Niches Probed by Ancestral Microbial Rhodopsins. PMID:35524714
Rheumatoid arthritis T cell and muscle oxidative metabolism associate with exercise-induced changes in cardiorespiratory fitness. PMID:35523821
The first laminin G-like domain of protein S is essential for binding and activation of Tyro3 receptor and intracellular signalling. PMID:35518197
SPIN enables high throughput species identification of archaeological bone by proteomics. PMID:35513387
Functional and Structural Changes in the Membrane-Bound O-Acyltransferase Family Member 7 (MBOAT7) Protein: The Pathomechanism of a Novel MBOAT7 Variant in Patients With Intellectual Disability. PMID:35509994
Analysis of host-pathogen gene association networks reveals patient-specific response to streptococcal and polymicrobial necrotising soft tissue infections. PMID:35505341
Biotechnological formation of dairy flavor inducing δ-lactones from vegetable oil. PMID:35498959
Machine learning model for fast prediction of the natural frequencies of protein molecules. PMID:35498827
Metaproteomic Profile of the Colonic Luminal Microbiota From Patients With Colon Cancer. PMID:35495697
Comparative Analysis of the Chalcone-Flavanone Isomerase Genes in Six Citrus Species and Their Expression Analysis in Sweet Orange (Citrus sinensis). PMID:35495138
Genome evolution of a nonparasitic secondary heterotroph, the diatom Nitzschia putrida. PMID:35486731
Altered abundances of human immunoglobulin M and immunoglobulin G subclasses in Alzheimer's disease frontal cortex. PMID:35484384
A systems genomics approach to uncover patient-specific pathogenic pathways and proteins in ulcerative colitis. PMID:35484353
Evolution of the murine gut resistome following broad-spectrum antibiotic treatment. PMID:35484157
The return of the rings: Evolutionary convergence of aromatic residues in the intrinsically disordered regions of RNA-binding proteins for liquid-liquid phase separation. PMID:35481633
In Silico Identification and Characterization of a Hypothetical Protein From Rhodobacter capsulatus Revealing S-Adenosylmethionine-Dependent Methyltransferase Activity. PMID:35478993
GraPES: The Granule Protein Enrichment Server for prediction of biological condensate constituents. PMID:35474477
HORDB a comprehensive database of peptide hormones. PMID:35469024
Mechanism of Phellodendron and Anemarrhena Drug Pair on the Treatment of Liver Cancer Based on Network Pharmacology and Bioinformatics. PMID:35463358
Carbon Nanotube-Mediated Plasmid DNA Delivery in Rice Leaves and Seeds. PMID:35456898
Surfactin Shows Relatively Low Antimicrobial Activity against Bacillus subtilis and Other Bacterial Model Organisms in the Absence of Synergistic Metabolites. PMID:35456828
Molecular Evolutionary Rate Predicts Intraspecific Genetic Polymorphism and Species-Specific Selection. PMID:35456514
Deep Neural Network-Assisted Drug Recommendation Systems for Identifying Potential Drug-Target Interactions. PMID:35449922
Application of quantitative protein mass spectrometric data in the early predictive analysis of target engagement by monoclonal antibodies. PMID:35445800
Coral holobiont cues prime Endozoicomonas for a symbiotic lifestyle. PMID:35444262
Development of first linkage map for Silphium integrifolium (Asteraceae) enables identification of sporophytic self-incompatibility locus. PMID:35437327
SARS-CoV-2 3CLpro whole human proteome cleavage prediction and enrichment/depletion analysis. PMID:35429835
Expanding the clinical-pathological and genetic spectrum of RYR1-related congenital myopathies with cores and minicores: an Italian population study. PMID:35428369
Phenylalanyl tRNA synthetase (PheRS) substrate mimics: design, synthesis, molecular dynamics and antimicrobial evaluation. PMID:35425259
Identification of aldehyde oxidase 3 as a binding protein for squid ink polysaccharides using magnetic nanoparticles. PMID:35424304
The inhibition of Mpro, the primary protease of COVID-19, by Poria cocos and its active compounds: a network pharmacology and molecular docking study. PMID:35423770
A proteolytic nanobiocatalyst with built-in disulphide reducing properties. PMID:35423716
Analysis of human brain tissue derived from DBS surgery. PMID:35418104
Filling gaps in bacterial catabolic pathways with computation and high-throughput genetics. PMID:35417463
REIA: A database for cancer A-to-I RNA editing with interactive analysis. PMID:35414795
Linnemannia elongata (Mortierellaceae) stimulates Arabidopsis thaliana aerial growth and responses to auxin, ethylene, and reactive oxygen species. PMID:35413060
Variants in mitochondrial amidoxime reducing component 1 and hydroxysteroid 17-beta dehydrogenase 13 reduce severity of nonalcoholic fatty liver disease in children and suppress fibrotic pathways through distinct mechanisms. PMID:35411667
Bioinformatics Screening of Potential Biomarkers from mRNA Expression Profiles to Discover Drug Targets and Agents for Cervical Cancer. PMID:35409328
Repurposing Multiple-Molecule Drugs for COVID-19-Associated Acute Respiratory Distress Syndrome and Non-Viral Acute Respiratory Distress Syndrome via a Systems Biology Approach and a DNN-DTI Model Based on Five Drug Design Specifications. PMID:35409008
Potential Immunogenic Activity of Computationally Designed mRNA- and Peptide-Based Prophylactic Vaccines against MERS, SARS-CoV, and SARS-CoV-2: A Reverse Vaccinology Approach. PMID:35408772
A high-quality genome assembly and annotation of the dark-eyed junco Junco hyemalis, a recently diversified songbird. PMID:35404451
SARS-CoV-2 spike protein-, main protease- and papain-like-protease-targeting peptides from seed proteins following gastrointestinal digestion: An in silico study. PMID:35403082
Learning meaningful representations of protein sequences. PMID:35395843
Assembly of a Hybrid Formica aquilonia × F. polyctena Ant Genome From a Haploid Male. PMID:35394540
Modification of BRCA1-associated breast cancer risk by HMMR overexpression. PMID:35393420
Predicted mouse interactome and network-based interpretation of differentially expressed genes. PMID:35390003
Providing Adverse Outcome Pathways from the AOP-Wiki in a Semantic Web Format to Increase Usability and Accessibility of the Content. PMID:35388368
Effects of Astragalus Polysaccharides on CD8+ Tissue-Resident Memory T Cells in Mice with Herpes Simplex. PMID:35388305
Potential Therapeutic Targets of Rehmannia Formulations on Diabetic Nephropathy: A Comparative Network Pharmacology Analysis. PMID:35387335
Unsupervised Mining of HLA-I Peptidomes Reveals New Binding Motifs and Potential False Positives in the Community Database. PMID:35386688
SuperDendrix algorithm integrates genetic dependencies and genomic alterations across pathways and cancer types. PMID:35382456
Exome sequencing of individuals with Huntington's disease implicates FAN1 nuclease activity in slowing CAG expansion and disease onset. PMID:35379994
Investigation and Functional Enrichment Analysis of the Human Host Interaction Network with Common Gram-Negative Respiratory Pathogens Predicts Possible Association with Lung Adenocarcinoma. PMID:35366267
AF2Complex predicts direct physical interactions in multimeric proteins with deep learning. PMID:35365655
Current progress and open challenges for applying deep learning across the biosciences. PMID:35365602
A network biology approach to identify crucial host targets for COVID-19. PMID:35364279
The D2R-DISC1 protein complex and associated proteins are altered in schizophrenia and normalized with antipsychotic treatment. PMID:35361701
Kinase domain autophosphorylation rewires the activity and substrate specificity of CK1 enzymes. PMID:35353987
Comprehensive spectral libraries for various rabbit eye tissue proteomes. PMID:35351915
Computational mining of MHC class II epitopes for the development of universal immunogenic proteins. PMID:35349604
Transcriptomic changes during the establishment of long-term methyl jasmonate-induced resistance in Norway spruce. PMID:35348221
Mechanism of Zhen Wu Decoction in the Treatment of Heart Failure Based on Network Pharmacology and Molecular Docking. PMID:35341142
Structural analysis of M1AP variants associated with severely impaired spermatogenesis causing male infertility. PMID:35341049
Deciphering functional redundancy and energetics of malate oxidation in mycobacteria. PMID:35337802
Whole-Genome Sequencing and Comparative Genomic Analysis of Antimicrobial Producing Streptococcus lutetiensis from the Rumen. PMID:35336126
Whole Proteome-Based Therapeutic Targets Annotation and Designing of Multi-Epitope-Based Vaccines against the Gram-Negative XDR-Alcaligenes faecalis Bacterium. PMID:35335094
Donor Splice Site Variant in SLC9A6 Causes Christianson Syndrome in a Lithuanian Family: A Case Report. PMID:35334527
Machine learning-assisted identification of bioindicators predicts medium-chain carboxylate production performance of an anaerobic mixed culture. PMID:35331330
AutoCoEv-A High-Throughput In Silico Pipeline for Predicting Inter-Protein Coevolution. PMID:35328772
Draft Sequencing Crested Wheatgrass Chromosomes Identified Evolutionary Structural Changes and Genes and Facilitated the Development of SSR Markers. PMID:35328613
Whole-genome sequence and methylome profiling of the almond [Prunus dulcis (Mill.) D.A. Webb] cultivar 'Nonpareil'. PMID:35325123
Reconstruction of a generic genome-scale metabolic network for chicken: Investigating network connectivity and finding potential biomarkers. PMID:35316277
Genomic Fishing and Data Processing for Molecular Evolution Research. PMID:35314663
Computational Tools for the Analysis of Uncultivated Phage Genomes. PMID:35311574
(+)-Catharanthine potentiates the GABAA receptor by binding to a transmembrane site at the β(+)/α(-) interface near the TM2-TM3 loop. PMID:35304861
Predicting residues involved in anti-DNA autoantibodies with limited neural networks. PMID:35303216
Age-Related Differences in Structure and Function of Nasal Epithelial Cultures From Healthy Children and Elderly People. PMID:35296085
The AOP-DB RDF: Applying FAIR Principles to the Semantic Integration of AOP Data Using the Research Description Framework. PMID:35295213
Leukemia Inhibitory Factor Promotes Survival of Hematopoietic Progenitors Ex Vivo and Is Post-Translationally Regulated by DPP4. PMID:35293568
Large-scale design and refinement of stable proteins using sequence-only models. PMID:35286324
Network Analysis Reveals Different Cellulose Degradation Strategies Across Trichoderma harzianum Strains Associated With XYR1 and CRE1. PMID:35281818
Unravelling the Biology of EhActo as the First Cofilin From Entamoeba histolytica. PMID:35281106
The expanded inhibitor of apoptosis gene family in oysters possesses novel domain architectures and may play diverse roles in apoptosis following immune challenge. PMID:35279090
Computational identification of host genomic biomarkers highlighting their functions, pathways and regulators that influence SARS-CoV-2 infections and drug repurposing. PMID:35277538
Molecular physiology of pumiliotoxin sequestration in a poison frog. PMID:35275922
Protein Expression of AEBP1, MCM4, and FABP4 Differentiate Osteogenic, Adipogenic, and Mesenchymal Stromal Stem Cells. PMID:35269711
Tryptophan depletion results in tryptophan-to-phenylalanine substitutants. PMID:35264796
Inhibition of the hexamerization of SARS-CoV-2 endoribonuclease and modeling of RNA structures bound to the hexamer. PMID:35264667
Genomic patterns of homozygosity and inbreeding depression in Murciano-Granadina goats. PMID:35264251
Glycosyltransferases: Mining, engineering and applications in biosynthesis of glycosylated plant natural products. PMID:35261926
SCORPION is a stacking-based ensemble learning framework for accurate prediction of phage virion proteins. PMID:35260777
Identification of the potential mechanism of Radix pueraria in colon cancer based on network pharmacology. PMID:35260672
Comparative analysis of the Mercenaria mercenaria genome provides insights into the diversity of transposable elements and immune molecules in bivalve mollusks. PMID:35260071
Aberrant hippocampal transmission and behavior in mice with a stargazin mutation linked to intellectual disability. PMID:35256745
In-Depth Serum Proteomics by DIA-MS with In Silico Spectral Libraries Reveals Dynamics during the Active Phase of Systemic Juvenile Idiopathic Arthritis. PMID:35252692
The genome sequence of the peach blossom moth, Thyatira batis (Linnaeus, 1758). PMID:35252591
A comprehensive WGS-based pipeline for the identification of new candidate genes in inherited retinal dystrophies. PMID:35246562
Network pharmacology analysis and experimental study strategy reveals the potential mechanism of puerarin against rotavirus. PMID:35242859
The Role of Intestinal Microbiota in Regulating the Metabolism of Bile Acids Is Conserved Across Vertebrates. PMID:35242120
Network pharmacology-based predictions of active components and pharmacological mechanisms of Artemisia annua L. for the treatment of the novel Corona virus disease 2019 (COVID-19). PMID:35241045
An Integrated Pharmacology-Based Strategy to Investigate the Potential Mechanism of Xiebai San in Treating Pediatric Pneumonia. PMID:35237157
VPS29 Exerts Opposing Effects on Endocytic Viral Entry. PMID:35229640
Unheeded SARS-CoV-2 proteins? A deep look into negative-sense RNA. PMID:35229157
DNA topoisomerase inhibition with the HIF inhibitor acriflavine promotes transcription of lncRNAs in endothelial cells. PMID:35228897
Genome-wide linkage analysis combined with genome sequencing in large families with intracranial aneurysms. PMID:35228681
PubChem Protein, Gene, Pathway, and Taxonomy Data Collections: Bridging Biology and Chemistry through Target-Centric Views of PubChem Data. PMID:35227770
Transcriptome changes in the developing sugarcane culm associated with high yield and early-season high sugar content. PMID:35224663
Inferring Retinal Degeneration-Related Genes Based on Xgboost. PMID:35223997
Antifungal activity of an artificial peptide aptamer SNP-D4 against Fusarium oxysporum. PMID:35223198
Forgotten Actors: Glycoside Hydrolases During Elongation Growth of Maize Primary Root. PMID:35222452
BEND4 as a Candidate Gene for an Infection-Induced Acute Encephalopathy Characterized by a Cyst and Calcification of the Pons and Cerebellar Atrophy. PMID:35221871
Assessing species coverage and assembly quality of rapidly accumulating sequenced genomes. PMID:35217859
Scaling laws in enzyme function reveal a new kind of biochemical universality. PMID:35217602
Comparative proteomics profiling revealed the involvement of GRB2-ROCK2 axis in Lyme neuroborreliosis caused by Borrelia Burgdorferi. PMID:35212166
Identification of intrinsically disorder regions in non-structural proteins of SARS-CoV-2: New insights into drug and vaccine resistance. PMID:35211823
Student biocuration projects as a learning environment. PMID:35211294
Identification of distinct cytotoxic granules as the origin of supramolecular attack particles in T lymphocytes. PMID:35210420
Effect of Physical Exercise and Genetic Background on Glucose Homeostasis and Liver/Muscle Proteomes in Mice. PMID:35208192
Characterization of the pVHL Interactome in Human Testis Using High-Throughput Library Screening. PMID:35205757
DOTA: Deep Learning Optimal Transport Approach to Advance Drug Repositioning for Alzheimer's Disease. PMID:35204697
Evolutionary information helps understand distinctive features of the angiotensin II receptors AT1 and AT2 in amniota. PMID:35202400
Comparative Genomic Analysis Reveals Preserved Features in Organohalide-Respiring Sulfurospirillum Strains. PMID:35196120
Convergent consequences of parthenogenesis on stick insect genomes. PMID:35196080
Top-down stepwise refinement identifies coding and noncoding RNA-associated epigenetic regulatory maps in malignant glioma. PMID:35194922
Metaproteomic profiling of fungal gut colonization in gnotobiotic mice. PMID:35193703
Evaluation of the Whole Proteome of Achromobacter xylosoxidans to Identify Vaccine Targets for mRNA and Peptides-Based Vaccine Designing Against the Emerging Respiratory and Lung Cancer-Causing Bacteria. PMID:35186980
Wei2GO: weighted sequence similarity-based protein function prediction. PMID:35186498
Network Pharmacology-Based and Experimental Identification of the Effects of Paeoniflorin on Major Depressive Disorder. PMID:35185541
Autonomous Reaction Network Exploration in Homogeneous and Heterogeneous Catalysis. PMID:35185305
New insights on familial colorectal cancer type X syndrome. PMID:35181726
In silico Analysis of SARS-CoV-2 ORF8-Binding Proteins Reveals the Involvement of ORF8 in Acquired-Immune and Innate-Immune Systems. PMID:35178414
Peptide-Based Vaccines for Tuberculosis. PMID:35173740
METABOLIC: high-throughput profiling of microbial genomes for functional traits, metabolism, biogeochemistry, and community-scale functional networks. PMID:35172890
Identification of a New Cholesterol-Binding Site within the IFN-γ Receptor that is Required for Signal Transduction. PMID:35166455
Thyroid-Stimulating Hormone Favors Runx2-Mediated Matrix Mineralization in HOS and SaOS2 Cells: An In Vitro and In Silico Approach. PMID:35163879
Characterisation of Endogenous Peptides Present in Virgin Olive Oil. PMID:35163634
Whole-Genome Sequencing and RNA-Seq Reveal Differences in Genetic Mechanism for Flowering Response between Weedy Rice and Cultivated Rice. PMID:35163531
Whole-Exome Sequencing Identifies a Novel Germline Variant in PTK7 Gene in Familial Colorectal Cancer. PMID:35163215
Phylogenetic and Expression Analysis of CENH3 and APOLLO Genes in Sexual and Apomictic Boechera Species. PMID:35161368
Are Cell Junctions Implicated in the Regulation of Vitellogenin Uptake? Insights from an RNAseq-Based Study in Eel, Anguilla australis. PMID:35159359
Fabrication of a New, Low-Cost, and Environment-Friendly Laccase-Based Biosensor by Electrospray Immobilization with Unprecedented Reuse and Storage Performances. PMID:35154910
Network Pharmacology Analysis on the Mechanism of Huangqi Sijunzi Decoction in Treating Cancer-Related Fatigue. PMID:35154614
A System Bioinformatics Approach Predicts the Molecular Mechanism Underlying the Course of Action of Radix Salviae Reverses GBM Effects. PMID:35154340
Genomic Insights Into Cadmium Resistance of a Newly Isolated, Plasmid-Free Cellulomonas sp. Strain Y8. PMID:35154027
Integration of Network Pharmacology and Experimental Validation to Explore the Pharmacological Mechanisms of Zhuanggu Busui Formula Against Osteoporosis. PMID:35154014
PSTPIP1-LYP phosphatase interaction: structural basis and implications for autoinflammatory disorders. PMID:35152348
Multimodal reasoning based on knowledge graph embedding for specific diseases. PMID:35150235
Multi-insecticide resistant malaria vectors in the field remain susceptible to malathion, despite the presence of Ace1 point mutations. PMID:35143477
Diosgenin From Dioscorea Nipponica Rhizoma Against Graves' Disease-On Network Pharmacology and Experimental Evaluation. PMID:35140607
The genome of the Paleogene relic tree Bretschneidera sinensis: insights into trade-offs in gene family evolution, demographic history, and adaptive SNPs. PMID:35137004
The genome sequence of the heath fritillary, Melitaea athalia (Rottemburg, 1775). PMID:35136843
Co-circulation of two SARS-CoV-2 variant strains within imported pet hamsters in Hong Kong. PMID:35135441
A chromosome-level genome assembly and annotation of the desert horned lizard, Phrynosoma platyrhinos, provides insight into chromosomal rearrangements among reptiles. PMID:35134927
Combined assessment of MHC binding and antigen abundance improves T cell epitope predictions. PMID:35128348
The aqueous humor proteome is intrinsically disordered. PMID:35128080
A Preliminary Inquiry Into the Potential Mechanism of Huang-Lian-Jie-Du Decoction in Treating Rheumatoid Arthritis via Network Pharmacology and Molecular Docking. PMID:35127697
Moths passing in the night: Phenological and genomic divergences within a forest pest complex. PMID:35126654
Mouse genomic and cellular annotations. PMID:35124726
SPSED: A Signal Peptide Secretion Efficiency Database. PMID:35118058
Agent-based models for detecting the driving forces of biomolecular interactions. PMID:35115584
Systems pharmacology-based drug discovery and active mechanism of natural products for coronavirus pneumonia (COVID-19): An example using flavonoids. PMID:35114443
High-Performance Deep Learning Toolbox for Genome-Scale Prediction of Protein Structure and Function. PMID:35112110
Deep learning program to predict protein functions based on sequence information. PMID:35111575
Autism genes converge on asynchronous development of shared neuron classes. PMID:35110736
K-29 linked ubiquitination of Arrdc4 regulates its function in extracellular vesicle biogenesis. PMID:35106941
Amphioxus muscle transcriptomes reveal vertebrate-like myoblast fusion genes and a highly conserved role of insulin signalling in the metabolism of muscle. PMID:35105312
SEQUENCE SLIDER: integration of structural and genetic data to characterize isoforms from natural sources. PMID:35104880
Epidemiology of Mutations in the 65-kDa Retinal Pigment Epithelium (RPE65) Gene-Mediated Inherited Retinal Dystrophies: A Systematic Literature Review. PMID:35098484
Potential Clinical Value of Biomarker-Guided Emergency Triage for Thoracic Aortic Dissection. PMID:35096998
DisEnrich: Database of Enriched Regions in Human Dark Proteome. PMID:35094056
Integrin-linked kinase (ILK): the known vs. the unknown and perspectives. PMID:35089438
3'mRNA sequencing reveals pro-regenerative properties of c5ar1 during resolution of murine acetaminophen-induced liver injury. PMID:35087052
Bioactive peptides from broccoli stems strongly enhance regenerative keratinocytes by stimulating controlled proliferation. PMID:35086428
Matrin3: Disorder and ALS Pathogenesis. PMID:35083279
Identification of shared tumor epitopes from endogenous retroviruses inducing high-avidity cytotoxic T cells for cancer immunotherapy. PMID:35080970
AMPlify: attentive deep learning model for discovery of novel antimicrobial peptides effective against WHO priority pathogens. PMID:35078402
Distribution, organization and expression of genes concerned with anaerobic lactate utilization in human intestinal bacteria. PMID:35077342
Native proline-rich motifs exploit sequence context to target actin-remodeling Ena/VASP protein ENAH. PMID:35076015
Identification of Constituents and Exploring the Mechanism for Toutongning Capsule in the Treatment of Migraine. PMID:35075364
Metabolic signatures of regulation by phosphorylation and acetylation. PMID:35072016
Antioxidant Effects and Potential Molecular Mechanism of Action of Limonium aureum Extract Based on Systematic Network Pharmacology. PMID:35071383
Establishment and characterization of NCC-DMM1-C1, a novel patient-derived cell line of desmoplastic malignant pleural mesothelioma. PMID:35069873
Genome-wide association study of beef bull semen attributes. PMID:35065600
Extracellular vesicles produced by the human commensal gut bacterium Bacteroides thetaiotaomicron affect host immune pathways in a cell-type specific manner that are altered in inflammatory bowel disease. PMID:35064769
A noncanonical chaperone interacts with drug efflux pumps during their assembly into bacterial outer membranes. PMID:35061668
Regenerating zebrafish scales express a subset of evolutionary conserved genes involved in human skeletal disease. PMID:35057801
Towards an Ideal In Cell Hybridization-Based Strategy to Discover Protein Interactomes of Selected RNA Molecules. PMID:35055128
A Novel GEMIN4 Variant in a Consanguineous Family Leads to Neurodevelopmental Impairment with Severe Microcephaly, Spastic Quadriplegia, Epilepsy, and Cataracts. PMID:35052432
Deciphering the evolution of composite-type GSKIP in mitochondria and Wnt signaling pathways. PMID:35051222
Stingray Venom Proteins: Mechanisms of Action Revealed Using a Novel Network Pharmacology Approach. PMID:35049882
Differential target multiplexed spinal cord stimulation programming modulates proteins involved in ion regulation in an animal model of neuropathic pain. PMID:35048719
Identification of putative essential protein domains from high-density transposon insertion sequencing. PMID:35046497
Gut microbiome alterations and gut barrier dysfunction are associated with host immune homeostasis in COVID-19 patients. PMID:35045853
Impaired catabolism of free oligosaccharides due to MAN2C1 variants causes a neurodevelopmental disorder. PMID:35045343
Proteome-scale mapping of binding sites in the unstructured regions of the human proteome. PMID:35044719
Minimal Information about MHC Multimers (MIAMM). PMID:35042788
Association between Arsenic Level, Gene Expression in Asian Population, and In Vitro Carcinogenic Bladder Tumor. PMID:35039759
Epigenetic aging of the demographically non-aging naked mole-rat. PMID:35039495
RiboReport - benchmarking tools for ribosome profiling-based identification of open reading frames in bacteria. PMID:35037022
Pharmacological Mechanisms of Tinglizi against Chronic Heart Failure Determined by Network Pharmacology and Molecular Docking. PMID:35035498
A chromosome-scale genome assembly for the holly (Ilex polyneura) provides insights into genomic adaptations to elevation in Southwest China. PMID:35031793
The genome sequence of the holly blue, Celastrina argiolus (Linnaeus, 1758). PMID:35028429
Study on the Mechanism of Compound Kidney-Invigorating Granule for Osteoporosis based on Network Pharmacology and Experimental Verification. PMID:35027934
Analysis of the transcriptome of the needles and bark of Pinus radiata induced by bark stripping and methyl jasmonate. PMID:35026979
During FeS cluster biogenesis, ferredoxin and frataxin use overlapping binding sites on yeast cysteine desulfurase Nfs1. PMID:35026224
Discovering potential interactions between rare diseases and COVID-19 by combining mechanistic models of viral infection with statistical modeling. PMID:35022696
Genome-wide in silico characterization and stress induced expression analysis of BcL-2 associated athanogene (BAG) family in Musa spp. PMID:35022483
The amniotic fluid proteome changes with gestational age in normal pregnancy: a cross-sectional study. PMID:35022423
Deciphering the Plasmodium falciparum malaria-specific CD4+ T-cell response: ex vivo detection of high frequencies of PD-1+TIGIT+ EXP1-specific CD4+ T cells using a novel HLA-DR11-restricted MHC class II tetramer. PMID:35020841
African Swine Fever Virus and Host Response: Transcriptome Profiling of the Georgia 2007/1 Strain and Porcine Macrophages. PMID:35019713
MicroRNA-365 regulates human cardiac action potential duration. PMID:35017523
Evolutionary Ecology of Natural Comammox Nitrospira Populations. PMID:35014874
Grainyhead 1 acts as a drug-inducible conserved transcriptional regulator linked to insulin signaling and lifespan. PMID:35013237
Natural variant frequencies across domains from different sarcomere proteins cross-correlate to identify inter-protein contacts associated with cardiac muscle function and disease. PMID:35006463
Computational identification of 4-carboxyglutamate sites to supplement physiological studies using deep learning. PMID:34996975
Evaluating the aerobic xylene-degrading potential of the intrinsic microbial community of a legacy BTEX-contaminated aquifer by enrichment culturing coupled with multi-omics analysis: uncovering the role of Hydrogenophaga strains in xylene degradation. PMID:34989990
Large-scale protein-protein post-translational modification extraction with distant supervision and confidence calibrated BioBERT. PMID:34983371
The Candida albicans Cdk8-dependent phosphoproteome reveals repression of hyphal growth through a Flo8-dependent pathway. PMID:34982775
Deep Time Course Proteomics of SARS-CoV- and SARS-CoV-2-Infected Human Lung Epithelial Cells (Calu-3) Reveals Strong Induction of Interferon-Stimulated Gene Expression by SARS-CoV-2 in Contrast to SARS-CoV. PMID:34982558
SignalP 6.0 predicts all five types of signal peptides using protein language models. PMID:34980915
Network Pharmacology-Based Investigation and Experimental Exploration of the Antiapoptotic Mechanism of Colchicine on Myocardial Ischemia Reperfusion Injury. PMID:34975499
The role of Leishmania GP63 in the modulation of innate inflammatory response to Leishmania major infection. PMID:34972189
Network Pharmacology Study on Molecular Mechanisms of Zhishi Xiebai Guizhi Decoction in the Treatment of Coronary Heart Disease. PMID:34966435
Collagen VI Regulates Motor Circuit Plasticity and Motor Performance by Cannabinoid Modulation. PMID:34965974
Evolution of 14-3-3 Proteins in Angiosperm Plants: Recurring Gene Duplication and Loss. PMID:34961196
Computational Saturation Mutagenesis of SARS-CoV-1 Spike Glycoprotein: Stability, Binding Affinity, and Comparison With SARS-CoV-2. PMID:34957216
Impact of Qi-Invigorating Traditional Chinese Medicines on Diffuse Large B Cell Lymphoma Based on Network Pharmacology and Experimental Validation. PMID:34955857
In Silico Design of a New Multi-Epitope Peptide-Based Vaccine Candidate Against Q Fever. PMID:34955559
Expanding the Menu: Are Polyphagy and Gene Family Expansions Linked across Lepidoptera? PMID:34951642
DeepSVP: Integration of genotype and phenotype for structural variant prioritization using deep learning. PMID:34951628
A high-resolution mass spectrometry based proteomic dataset of human regulatory T cells. PMID:34950757
In Silico Prediction and Bioactivity Evaluation of Chemical Ingredients Against Influenza A Virus From Isatis tinctoria L. PMID:34950027
NAPRT Expression Regulation Mechanisms: Novel Functions Predicted by a Bioinformatics Approach. PMID:34946971
An Uninvited Seat at the Dinner Table: How Apicomplexan Parasites Scavenge Nutrients from the Host. PMID:34946193
A longer isoform of Stim1 is a negative SOCE regulator but increases cAMP-modulated NFAT signaling. PMID:34942054
Characterization of Anti-Ana o 3 Monoclonal Antibodies and Their Application in Comparing Brazilian Cashew Cultivars. PMID:34939998
H-NOX proteins in the virulence of pathogenic bacteria. PMID:34939646
Anticancer Action of Xiaoxianxiong Tang in Non-Small Cell Lung Cancer by Pharmacological Analysis and Experimental Validation. PMID:34938346
Exploring the Potential Targets and Mechanisms of Huang Lian Jie Du Decoction in the Treatment of Coronavirus Disease 2019 Based on Network Pharmacology. PMID:34938107
NGS read classification using AI. PMID:34936673
Intellectual disability genomics: current state, pitfalls and future challenges. PMID:34930158
Genome-wide analysis of fitness-factors in uropathogenic Escherichia coli during growth in laboratory media and during urinary tract infections. PMID:34928200
What Is Motion? Recent Advances in the Study of Molecular Movement Patterns of the Peptidoglycan Synthesis Machines. PMID:34928180
A high-quality genome and comparison of short- versus long-read transcriptome of the palaearctic duck Aythya fuligula (tufted duck). PMID:34927191
Genetic analysis of four consanguineous multiplex families with inflammatory bowel disease. PMID:34925849
Nicotinic receptors as SARS-CoV-2 spike co-receptors? PMID:34924680
Thioesterase enzyme families: Functions, structures, and mechanisms. PMID:34921469
EMC is required for biogenesis of Xport-A, an essential chaperone of Rhodopsin-1 and the TRP channel. PMID:34918864
Development of RIKEN Plant Metabolome MetaDatabase. PMID:34918130
Genome-wide promoter analysis, homology modeling and protein interaction network of Dehydration Responsive Element Binding (DREB) gene family in Solanum tuberosum. PMID:34914734
Critical Assessment of MetaProteome Investigation (CAMPI): a multi-laboratory comparison of established workflows. PMID:34911965
CNVs with adaptive potential in Rangifer tarandus: genome architecture and new annotated assembly. PMID:34911809
A unified evolutionary origin for the ubiquitous protein transporters SecY and YidC. PMID:34911545
Rationalizing the generation of broad spectrum antibiotics with the addition of a positive charge. PMID:34909143
Transcriptomic adaptation during skeletal muscle habituation to eccentric or concentric exercise training. PMID:34907264
Chromatin Accessibility Predetermines Odontoblast Terminal Differentiation. PMID:34901015
Profile of Basal Cell Carcinoma Mutations and Copy Number Alterations - Focus on Gene-Associated Noncoding Variants. PMID:34900699
Network Pharmacology-Based Study on the Mechanism of Aloe Vera for Treating Cancer. PMID:34899953
Exploration of the mechanism of luteolin against ischemic stroke based on network pharmacology, molecular docking and experimental verification. PMID:34898370
Identification and Functional Analysis of lncRNAs Responsive to Hypoxia in Eospalax fontanierii. PMID:34889903
Protein biomarkers in serum as a conservation tool to assess reproduction: a case study on brown bears (Ursus arctos). PMID:34888057
Palm Oil-Rich Diet Affects Murine Liver Proteome and S-Palmitoylome. PMID:34884899
IFPTML Mapping of Drug Graphs with Protein and Chromosome Structural Networks vs. Pre-Clinical Assay Information for Discovery of Antimalarial Compounds. PMID:34884870
Genes and Pathways Associated with Skeletal Sagittal Malocclusions: A Systematic Review. PMID:34884839
Interpretation of network-based integration from multi-omics longitudinal data. PMID:34883510
Identification of the key functional genes in salt-stress tolerance of Cyanobacterium Phormidium tenue using in silico analysis. PMID:34881166
Exploring the Mechanisms of Arsenic Trioxide (Pishuang) in Hepatocellular Carcinoma Based on Network Pharmacology. PMID:34880920
Analysis of Iron and Iron-Interacting Protein Dynamics During T-Cell Activation. PMID:34880854
Network Pharmacology and Experimental Validation to Reveal the Pharmacological Mechanisms of Liuwei Dihuang Decoction Against Intervertebral Disc Degeneration. PMID:34880601
From Anti-Severe Acute Respiratory Syndrome Coronavirus 2 Immune Response to Cancer Onset via Molecular Mimicry and Cross-Reactivity. PMID:34877576
Thromboses and Hemostasis Disorders Associated with COVID-19: The Possible Causal Role of Cross-Reactivity and Immunological Imprinting. PMID:34877574
Spatial-proteomics reveals phospho-signaling dynamics at subcellular resolution. PMID:34876567
Exploring the Antiglioma Mechanisms of Luteolin Based on Network Pharmacology and Experimental Verification. PMID:34873410
Decoding the link of microbiome niches with homologous sequences enables accurately targeted protein structure prediction. PMID:34873061
Whole transcriptome analysis of high and low IFN-α producers reveals differential response patterns following rhinovirus stimulation. PMID:34868584
Epstein-Barr Virus+ B Cells in Breast Cancer Immune Response: A Case Report. PMID:34868006
A Bioactive Extract Rich in Triterpenic Acid and Polyphenols from Olea europaea Promotes Systemic Immunity and Protects Atlantic Salmon Smolts Against Furunculosis. PMID:34867959
Hybridization Dynamics and Extensive Introgression in the Daphnia longispina Species Complex: New Insights from a High-Quality Daphnia galeata Reference Genome. PMID:34865004
Compound heterozygous c.598_612del and c.1746-20C > G CAPN3 genotype cause autosomal recessive limb-girdle muscular dystrophy-1: a case report. PMID:34863162
Myeloid-associated differentiation marker is a novel SP-A-associated transmembrane protein whose expression on airway epithelial cells correlates with asthma severity. PMID:34862427
LPI-EnEDT: an ensemble framework with extra tree and decision tree classifiers for imbalanced lncRNA-protein interaction data classification. PMID:34861891
An NK-like CAR T cell transition in CAR T cell dysfunction. PMID:34861191
FOXN1 forms higher-order nuclear condensates displaced by mutations causing immunodeficiency. PMID:34860543
A computational exploration of resilience and evolvability of protein-protein interaction networks. PMID:34857859
The FUR-like regulators PerRA and PerRB integrate a complex regulatory network that promotes mammalian host-adaptation and virulence of Leptospira interrogans. PMID:34855918
Identification of the Active Constituents and Significant Pathways of Shen-qi-Yi-zhu Decoction on Antigastric Cancer: A Network Pharmacology Research and Experimental Validation. PMID:34853601
Multiomics Analysis of Spatially Distinct Stromal Cells Reveals Tumor-Induced O-Glycosylation of the CDK4-pRB Axis in Fibroblasts at the Invasive Tumor Edge. PMID:34853070
Managing the life cycle of a portfolio of open data resources at the SIB Swiss Institute of Bioinformatics. PMID:34850820
DisProt in 2022: improved quality and accessibility of protein intrinsic disorder annotation. PMID:34850135
Discovery of new vascular disrupting agents based on evolutionarily conserved drug action, pesticide resistance mutations, and humanized yeast. PMID:34849907
De novo whole-genome assembly of Chrysanthemum makinoi, a key wild chrysanthemum. PMID:34849775
Transcriptomic dataset for Sardina pilchardus: Assembly, annotation, and expression of nine tissues. PMID:34849383
A 3D structural SARS-CoV-2-human interactome to explore genetic and drug perturbations. PMID:34845387
Metagenomic discovery of CRISPR-associated transposons. PMID:34845024
Structural dynamics in the evolution of a bilobed protein scaffold. PMID:34845009
Protein domain-based prediction of drug/compound-target interactions and experimental validation on LIM kinases. PMID:34843456
A systematic review of GWAS identified SNPs associated with outcomes of medications for opioid use disorder. PMID:34838141
LPI-HyADBS: a hybrid framework for lncRNA-protein interaction prediction integrating feature selection and classification. PMID:34836494
Structural-Dynamics and Binding Analysis of RBD from SARS-CoV-2 Variants of Concern (VOCs) and GRP78 Receptor Revealed Basis for Higher Infectivity. PMID:34835456
Facilitating Antiviral Drug Discovery Using Genetic and Evolutionary Knowledge. PMID:34834924
Transcriptome Analysis of Lolium temulentum Exposed to a Combination of Drought and Heat Stress. PMID:34834610
On the Applicability of Electrophoresis for Protein Quantification. PMID:34833270
Multidimensional Single-Nuclei RNA-Seq Reconstruction of Adipose Tissue Reveals Adipocyte Plasticity Underlying Thermogenic Response. PMID:34831295
A Deep Learning Approach with Data Augmentation to Predict Novel Spider Neurotoxic Peptides. PMID:34830173
Genetic Variability of the Functional Domains of Chromodomains Helicase DNA-Binding (CHD) Proteins. PMID:34828433
Integration and Visualization of Regulatory Elements and Variations of the EPAS1 Gene in Human. PMID:34828399
Long Non-Coding RNAs Associated with Ribosomes in Human Adipose-Derived Stem Cells: From RNAs to Microproteins. PMID:34827671
In silico Methods for Identification of Potential Therapeutic Targets. PMID:34826045
Mechanism of quercetin therapeutic targets for Alzheimer disease and type 2 diabetes mellitus. PMID:34824300
Network medicine for disease module identification and drug repurposing with the NeDRex platform. PMID:34824199
Carbon fullerene and nanotube are probable binders to multiple targets of SARS-CoV-2: Insights from computational modeling and molecular dynamic simulation studies. PMID:34823028
Overview of Metabolomic Analysis and the Integration with Multi-Omics for Economic Traits in Cattle. PMID:34822411
A roadmap for metagenomic enzyme discovery. PMID:34821235
A multi-scale map of cell structure fusing protein images and interactions. PMID:34819669
Heliorhodopsin Evolution Is Driven by Photosensory Promiscuity in Monoderms. PMID:34817235
Slowest-first protein translation scheme: Structural asymmetry and co-translational folding. PMID:34813729
Intergenic ORFs as elementary structural modules of de novo gene birth and protein evolution. PMID:34810219
RDFizing the biosynthetic pathway of E.coli O-antigen to enable semantic sharing of microbiology data. PMID:34809564
DeepPhospho accelerates DIA phosphoproteome profiling through in silico library generation. PMID:34795227
Genetic fusions favor tumorigenesis through degron loss in oncogenes. PMID:34795215
A computational in silico approach to predict high-risk coding and non-coding SNPs of human PLCG1 gene. PMID:34793541
InsectBase 2.0: a comprehensive gene resource for insects. PMID:34792158
Between Interactions and Aggregates: The PolyQ Balance. PMID:34791220
Eye-Transcriptome and Genome-Wide Sequencing for Scolecophidia: Implications for Inferring the Visual System of the Ancestral Snake. PMID:34791190
CellPAINT: Turnkey Illustration of Molecular Cell Biology. PMID:34790910
PHI-base in 2022: a multi-species phenotype database for Pathogen-Host Interactions. PMID:34788826
Limits and potential of combined folding and docking. PMID:34788800
AI4AMP: an Antimicrobial Peptide Predictor Using Physicochemical Property-Based Encoding Method and Deep Learning. PMID:34783578
COVID-19 Knowledge Extractor (COKE): A Curated Repository of Drug-Target Associations Extracted from the CORD-19 Corpus of Scientific Publications on COVID-19. PMID:34783553
CyFi-MAP: an interactive pathway-based resource for cystic fibrosis. PMID:34782688
Multiple acyl-CoA dehydrogenase deficiency kills Mycobacterium tuberculosis in vitro and during infection. PMID:34782606
Building Structural Models of a Whole Mycoplasma Cell. PMID:34774566
Current Approaches in Supersecondary Structures Investigation. PMID:34769310
An RNA-Seq-Based Framework for Characterizing Canine Prostate Cancer and Prioritizing Clinically Relevant Biomarker Candidate Genes. PMID:34768937
Comprehensive quantitative characterization of the human term amnion proteome. PMID:34765964
Computational methods for protein localization prediction. PMID:34765098
DeepREx-WS: A web server for characterising protein-solvent interaction starting from sequence. PMID:34765094
Developmental series of gene expression clarifies maternal mRNA provisioning and maternal-to-zygotic transition in a reef-building coral. PMID:34763678
Toward a Computational NMR Procedure for Modeling Dipeptide Side-Chain Conformation. PMID:34762416
Escherichia coli Data-Driven Strain Design Using Aggregated Adaptive Laboratory Evolution Mutational Data. PMID:34762392
Computational insights into differential interaction of mammalian angiotensin-converting enzyme 2 with the SARS-CoV-2 spike receptor binding domain. PMID:34758907
Constraint-based modeling of yeast mitochondria reveals the dynamics of protein import and iron-sulfur cluster biogenesis. PMID:34755100
Co-evolution based machine-learning for predicting functional interactions between human genes. PMID:34753957
GPRuler: Metabolic gene-protein-reaction rules automatic reconstruction. PMID:34748537
Allosteric pockets and dynamic residue network hubs of falcipain 2 in mutations including those linked to artemisinin resistance. PMID:34745456
Identifying stress responsive genes using overlapping communities in co-expression networks. PMID:34743699
The Rat Genome Database (RGD) facilitates genomic and phenotypic data integration across multiple species for biomedical research. PMID:34741192
Fibromine is a multi-omics database and mining tool for target discovery in pulmonary fibrosis. PMID:34741074
Coating of a Novel Antimicrobial Nanoparticle with a Macrophage Membrane for the Selective Entry into Infected Macrophages and Killing of Intracellular Staphylococci. PMID:34737689
Identification of heat responsive genes in pea stipules and anthers through transcriptional profiling. PMID:34735457
Comparative Genomic Analysis and a Novel Set of Missense Mutation of the Leptospira weilii Serogroup Mini From the Urine of Asymptomatic Dogs in Thailand. PMID:34733249
Myoclonic status epilepticus and cerebellar hypoplasia associated with a novel variant in the GRIA3 gene. PMID:34731330
MCDB: A comprehensive curated mitotic catastrophe database for retrieval, protein sequence alignment, and target prediction. PMID:34729303
The generative capacity of probabilistic protein sequence models. PMID:34728624
Fungal genomes: suffering with functional annotation errors. PMID:34724975
Plasmodium falciparum Calcium-Dependent Protein Kinase 4 is Critical for Male Gametogenesis and Transmission to the Mosquito Vector. PMID:34724830
ECM-LSE: Prediction of Extracellular Matrix Proteins Using Deep Latent Space Encoding of k-Spaced Amino Acid Pairs. PMID:34722479
Toward Integrated Multi-Omics Intervention: Rice Trait Improvement and Stress Management. PMID:34721467
Predominant Biphenyl Dioxygenase From Legacy Polychlorinated Biphenyl (PCB)-Contaminated Soil Is a Part of Unusual Gene Cluster and Transforms Flavone and Flavanone. PMID:34721309
High-quality reference genome and annotation aids understanding of berry development for evergreen blueberry (Vaccinium darrowii). PMID:34719668
The IUPHAR/BPS guide to PHARMACOLOGY in 2022: curating pharmacology for COVID-19, malaria and antibacterials. PMID:34718737
PANTHER: Making genome-scale phylogenetics accessible to all. PMID:34717010
Transcriptomic analysis of Rhodococcus opacus R7 grown on polyethylene by RNA-seq. PMID:34716360
Nanoencapsulation of sulforaphane in broccoli membrane vesicles and their in vitro antiproliferative activity. PMID:34714214
Design, computational studies, synthesis and in vitro antimicrobial evaluation of benzimidazole based thio-oxadiazole and thio-thiadiazole analogues. PMID:34711258
Identifying carbohydrate-active enzymes of Cutaneotrichosporon oleaginosus using systems biology. PMID:34711240
Crowdsourcing biocuration: The Community Assessment of Community Annotation with Ontologies (CACAO). PMID:34710081
Selection on ancestral genetic variation fuels repeated ecotype formation in bottlenose dolphins. PMID:34705499
The 20S as a stand-alone proteasome in cells can degrade the ubiquitin tag. PMID:34702852
MinION sequencing from sea ice cryoconites leads to de novo genome reconstruction from metagenomes. PMID:34702846
KDM6A mutations promote acute cytoplasmic DNA release, DNA damage response and mitosis defects. PMID:34702163
On the optimality of the enzyme-substrate relationship in bacteria. PMID:34699521
The Dynamic Codon Biaser: calculating prokaryotic codon usage biases. PMID:34699346
Pathogenesis, Symptomatology, and Transmission of SARS-CoV-2 through Analysis of Viral Genomics and Structure. PMID:34698547
AoP-LSE: Antioxidant Proteins Classification Using Deep Latent Space Encoding of Sequence Features. PMID:34698113
From Anti-SARS-CoV-2 Immune Response to the Cytokine Storm via Molecular Mimicry. PMID:34698069
Gene Ontology curation of the blood-brain barrier to improve the analysis of Alzheimer's and other neurological diseases. PMID:34697638
Identifying Protein Interactomes of Target RNAs Using HyPR-MS. PMID:34694612
DeepTrio: a ternary prediction system for protein-protein interaction using mask multiple parallel convolutional neural networks. PMID:34694333
Structural and functional insights of GSU0105, a unique multiheme cytochrome from G. sulfurreducens. PMID:34688593
TAGOPSIN: collating taxa-specific gene and protein functional and structural information. PMID:34688246
Differential regulation of transposable elements (TEs) during the murine submandibular gland development. PMID:34686213
Resolution of Two Steps in Botulinum Neurotoxin Serotype A1 Light Chain Localization to the Intracellular Plasma Membrane. PMID:34681775
FA-nf: A Functional Annotation Pipeline for Proteins from Non-Model Organisms Implemented in Nextflow. PMID:34681040
Structural Protein Analysis of Driver Gene Mutations in Conjunctival Melanoma. PMID:34681018
Targeting PirAvp and PirBvp Toxins of Vibrio parahaemolyticus with Oilseed Peptides: An In Silico Approach. PMID:34680792
CK2 Regulation: Perspectives in 2021. PMID:34680478
Potential Roles of Sestrin2 in Alzheimer's Disease: Antioxidation, Autophagy Promotion, and Beyond. PMID:34680426
In silico Approach for Validating and Unveiling New Applications for Prognostic Biomarkers of Endometrial Cancer. PMID:34680205
Text Mining for Building Biomedical Networks Using Cancer as a Case Study. PMID:34680062
Mining drug-target and drug-adverse drug reaction databases to identify target-adverse drug reaction relationships. PMID:34679164
Performance Assessment of the Network Reconstruction Approaches on Various Interactomes. PMID:34676243
Proteomic profile of mesothelial exosomes isolated from peritoneal dialysis effluent of children with focal segmental glomerulosclerosis. PMID:34675284
PIC-Me: paralogs and isoforms classifier based on machine-learning approaches. PMID:34674638
Comparability of reference-based and reference-free transcriptome analysis approaches at the gene expression level. PMID:34674628
An improved deep learning model for hierarchical classification of protein families. PMID:34669708
Structural and functional analysis of Hydra Actinoporin-Like Toxin 1 (HALT-1). PMID:34667248
Global quantification exposes abundant low-level off-target activity by base editors. PMID:34667118
SYNBIP: synthetic binding proteins for research, diagnosis and therapy. PMID:34664670
Connecting MHC-I-binding motifs with HLA alleles via deep learning. PMID:34663927
Correction to: The recurrent missense mutation p.(Arg367Trp) in YARS1 causes a distinct neurodevelopmental phenotype. PMID:34661688
Class-II dihydroorotate dehydrogenases from three phylogenetically distant fungi support anaerobic pyrimidine biosynthesis. PMID:34656184
Photoactivatable ribonucleosides mark base-specific RNA-binding sites. PMID:34654832
A global screening identifies chromatin-enriched RNA-binding proteins and the transcriptional regulatory activity of QKI5 during monocytic differentiation. PMID:34649616
The selective degradation of sirtuins via macroautophagy in the MPP+ model of Parkinson's disease is promoted by conserved oxidation sites. PMID:34642296
Licorice extract inhibits growth of non-small cell lung cancer by down-regulating CDK4-Cyclin D1 complex and increasing CD8+ T cell infiltration. PMID:34641869
Identification of Rare LRP5 Variants in a Cohort of Males with Impaired Bone Mass. PMID:34639175
OryzaGP 2021 update: a rice gene and protein dataset for named-entity recognition. PMID:34638174
Whole-exome sequencing identified first homozygous frameshift variant in the COLEC10 gene in an Iranian patient causing 3MC syndrome type 3. PMID:34636477
Protein music of enhanced musicality by music style guided exploration of diverse amino acid properties. PMID:34632134
The genome sequence of the brown trout, Salmo trutta Linnaeus 1758. PMID:34632087
Whole-exome sequencing reveals a role of HTRA1 and EGFL8 in brain white matter hyperintensities. PMID:34626176
Gene regulatory networks for compatible versus incompatible grafts identify a role for SlWOX4 during junction formation. PMID:34609518
Efficient generative modeling of protein sequences using simple autoregressive models. PMID:34608136
LPI-deepGBDT: a multiple-layer deep framework based on gradient boosting decision trees for lncRNA-protein interaction identification. PMID:34607567
CDKL5 kinase controls transcription-coupled responses to DNA damage. PMID:34605059
Dietary, Cultural, and Pathogens-Related Selective Pressures Shaped Differential Adaptive Evolution among Native Mexican Populations. PMID:34597392
COVIDrugNet: a network-based web tool to investigate the drugs currently in clinical trial to contrast COVID-19. PMID:34593915
ECNet is an evolutionary context-integrated deep learning framework for protein engineering. PMID:34593817
EHreact: Extended Hasse Diagrams for the Extraction and Scoring of Enzymatic Reaction Templates. PMID:34587449
Isolation, characterization, and genome assembly of Barnettozyma botsteinii sp. nov. and novel strains of Kurtzmaniella quercitrusa isolated from the intestinal tract of the termite Macrotermes bellicosus. PMID:34586397
AlphaMap: an open-source python package for the visual annotation of proteomics data with sequence specific knowledge. PMID:34586352
A glutamic acid-based traceless linker to address challenging chemical protein syntheses. PMID:34585207
In vivo CRISPR screens identify the E3 ligase Cop1 as a modulator of macrophage infiltration and cancer immunotherapy target. PMID:34582788
CPLM 4.0: an updated database with rich annotations for protein lysine modifications. PMID:34581824
An enhanced variant effect predictor based on a deep generative model and the Born-Again Networks. PMID:34580383
Evolutionary Analysis of OAT Gene Family in River and Swamp Buffalo: Potential Role of SLCO3A1 Gene in Milk Performance. PMID:34573376
STARD3: A Prospective Target for Cancer Therapy. PMID:34572920
Comparative Genomic Analysis of the DUF34 Protein Family Suggests Role as a Metal Ion Chaperone or Insertase. PMID:34572495
Full-Atom Model of the Agonist LPS-Bound Toll-like Receptor 4 Dimer in a Membrane Environment. PMID:34569111
De novo genome assembly of the marine teleost, bluefin trevally (Caranx melampygus). PMID:34568914
Immune Mechanism, Gene Module, and Molecular Subtype Identification of Astragalus Membranaceus in the Treatment of Dilated Cardiomyopathy: An Integrated Bioinformatics Study. PMID:34567206
Systems-Level Proteomics Evaluation of Microglia Response to Tumor-Supportive Anti-Inflammatory Cytokines. PMID:34566949
Maturation of Rhodobacter capsulatus Multicopper Oxidase CutO Depends on the CopA Copper Efflux Pathway and Requires the cutF Product. PMID:34566924
Integrating Network Pharmacology and RT-qPCR Analysis to Investigate the Mechanisms Underlying ZeXie Decoction-Mediated Treatment of Non-alcoholic Fatty Liver Disease. PMID:34566646
Odorant-binding proteins in canine anal sac glands indicate an evolutionarily conserved role in mammalian chemical communication. PMID:34565329
Adaptation of Fig Wasps (Agaodinae) to Their Host Revealed by Large-Scale Transcriptomic Data. PMID:34564255
A phosphatase-centric mechanism drives stress signaling response. PMID:34558777
Computational identification of multiple lysine PTM sites by analyzing the instance hardness and feature importance. PMID:34556767
A novel lncRNA-protein interaction prediction method based on deep forest with cascade forest structure. PMID:34556758
Path to improving the life cycle and quality of genome-scale models of metabolism. PMID:34555324
Experimental and computational investigation of enzyme functional annotations uncovers misannotation in the EC 1.1.3.15 enzyme class. PMID:34555022
My Cancer Genome: Coevolution of Precision Oncology and a Molecular Oncology Knowledgebase. PMID:34554823
Molecular docking studies of Indian variants of pathophysiological proteins of SARS-CoV-2 with selected drug candidates. PMID:34553696
RNALocate v2.0: an updated resource for RNA subcellular localization with increased coverage and annotation. PMID:34551440
Subcellular proteomics. PMID:34549195
Integrated Multi-omics, Virtual Screening and Molecular Docking Analysis of Methicillin-Resistant Staphylococcus aureus USA300 for the Identification of Potential Therapeutic Targets: An In-Silico Approach. PMID:34548853
Using informative features in machine learning based method for COVID-19 drug repurposing. PMID:34544500
The Brachypodium distachyon cold-acclimated plasma membrane proteome is primed for stress resistance. PMID:34544140
Data Management and Modeling in Plant Biology. PMID:34539712
The First Chemically-Synthesised, Highly Immunogenic Anti-SARS-CoV-2 Peptides in DNA Genotyped Aotus Monkeys for Human Use. PMID:34539660
Reassembling protein complexes after controlled disassembly by top-down mass spectrometry in native mode. PMID:34539228
Genome-wide detection and classification of terpene synthase genes in Aquilaria agallochum. PMID:34539112
KinOrtho: a method for mapping human kinase orthologs across the tree of life and illuminating understudied kinases. PMID:34537014
SmProt: A Reliable Repository with Comprehensive Annotation of Small Proteins Identified from Ribosome Profiling. PMID:34536568
The recurrent missense mutation p.(Arg367Trp) in YARS1 causes a distinct neurodevelopmental phenotype. PMID:34536092
Chromosome-scale reference genome assembly of a diploid potato clone derived from an elite variety. PMID:34534288
GRASP55 restricts early-stage autophagy and regulates spatial organization of the early secretory network. PMID:34533192
Blood biomarkers for mild traumatic brain injury: a selective review of unresolved issues. PMID:34530937
Potential mechanism of Ziyin Tongluo Formula in the treatment of postmenopausal osteoporosis: based on network pharmacology and ovariectomized rat model. PMID:34530875
Protein structural features predict responsiveness to pharmacological chaperone treatment for three lysosomal storage disorders. PMID:34529671
RNA-binding proteins of COSMIC importance in cancer. PMID:34523614
Single-cell analyses of human pancreas: characteristics of two populations of acinar cells in chronic pancreatitis. PMID:34523348
MULocDeep: A deep-learning framework for protein subcellular and suborganellar localization prediction with residue-level interpretation. PMID:34522290
Trycycler: consensus long-read assemblies for bacterial genomes. PMID:34521459
SARS-CoV-2 structural coverage map reveals viral protein assembly, mimicry, and hijacking mechanisms. PMID:34519429
SCISSOR™: a single-cell inferred site-specific omics resource for tumor microenvironment association study. PMID:34514416
In silico predictions of protein interactions between Zika virus and human host. PMID:34513323
Self-mediated positive selection of T cells sets an obstacle to the recognition of nonself. PMID:34507984
A functionally divergent intrinsically disordered region underlying the conservation of stochastic signaling. PMID:34506483
Characterization of Emerging Pathogens Carrying bla KPC-2 Gene in IncP-6 Plasmids Isolated From Urban Sewage in Argentina. PMID:34504809
Accelerating antibiotic discovery through artificial intelligence. PMID:34504303
Taxonomic bias in AMP prediction of invertebrate peptides. PMID:34504226
Landscape of Bone Marrow Metastasis in Human Neuroblastoma Unraveled by Transcriptomics and Deep Multiplex Imaging. PMID:34503120
Systematical Screening of Intracellular Protein Targets of Polyphemusin-I Using Escherichia coli Proteome Microarrays. PMID:34502067
Recent Advances in In Silico Target Fishing. PMID:34500568
Protein kinase N2 mediates flow-induced endothelial NOS activation and vascular tone regulation. PMID:34499618
Influenza virus genotype to phenotype predictions through machine learning: a systematic review. PMID:34498543
A Network Pharmacology Approach to Explore the Mechanism of HuangZhi YiShen Capsule for Treatment of Diabetic Kidney Disease. PMID:34497749
A novel activating JAK1 mutation in chronic eosinophilic leukemia. PMID:34496019
A Genome-Scale Antibiotic Screen in Serratia marcescens Identifies YdgH as a Conserved Modifier of Cephalosporin and Detergent Susceptibility. PMID:34491801
Predicted pH-dependent stability of SARS-CoV-2 spike protein trimer from interfacial acidic groups. PMID:34490059
Structure of the native pyruvate dehydrogenase complex reveals the mechanism of substrate insertion. PMID:34489474
Binding of regulatory proteins to nucleosomes is modulated by dynamic histone tails. PMID:34489435
High contiguity de novo genome assembly and DNA modification analyses for the fungus fly, Sciara coprophila, using single-molecule sequencing. PMID:34488624
Potential of Variovorax paradoxus isolate BFB1_13 for bioremediation of BTEX contaminated sites. PMID:34487274
Discovery of a transdermally deliverable pentapeptide for activating AdipoR1 to promote hair growth. PMID:34486824
Identifying Active Compounds and Mechanism of Camellia nitidissima Chi on Anti-Colon Cancer by Network Pharmacology and Experimental Validation. PMID:34484402
Machine learning methods, databases and tools for drug combination prediction. PMID:34477201
Whole blood transcriptomics identifies gene expression associated with peanut allergy in infants at high risk. PMID:34473385
Prospects and challenges of cancer systems medicine: from genes to disease networks. PMID:34471925
FSL-Kla: A few-shot learning-based multi-feature hybrid system for lactylation site prediction. PMID:34471495
Revealing the molecular interplay of curcumin as Culex pipiens Acetylcholine esterase 1 (AChE1) inhibitor. PMID:34471175
Structure of the human marker of self 5-transmembrane receptor CD47. PMID:34471125
Polo-like kinase 1 (Plk1) regulates DNA replication origin firing and interacts with Rif1 in Xenopus. PMID:34469577
Exploring targets and signaling pathways of paeonol involved in relieving inflammation based on modern technology. PMID:34463943
TLX, an Orphan Nuclear Receptor With Emerging Roles in Physiology and Disease. PMID:34463725
Sterically confined rearrangements of SARS-CoV-2 Spike protein control cell invasion. PMID:34463614
TIAMMAt: Leveraging Biodiversity to Revise Protein Domain Models, Evidence from Innate Immunity. PMID:34459919
Identifying cysteine residues susceptible to oxidation by photoactivatable atomic oxygen precursors using a proteome-wide analysis. PMID:34458801
An Epitope Platform for Safe and Effective HTLV-1-Immunization: Potential Applications for mRNA and Peptide-Based Vaccines. PMID:34452327
Pan-transcriptome identifying master genes and regulation network in response to drought and salt stresses in Alfalfa (Medicago sativa L.). PMID:34446782
SecProCT: In Silico Prediction of Human Secretory Proteins Based on Capsule Network and Transformer. PMID:34445760
Drug Discovery of Spinal Muscular Atrophy (SMA) from the Computational Perspective: A Comprehensive Review. PMID:34445667
Metatranscriptomic Analysis of Bacterial Communities on Laundered Textiles: A Pilot Case Study. PMID:34442670
Possible Protective Effect of LOXL1 Variant in the Cohort of Chernobyl Catastrophe Clean-Up Workers. PMID:34440405
Next-Generation Sequencing Analysis of the Tineola bisselliella Larval Gut Transcriptome Reveals Candidate Enzymes for Keratin Digestion. PMID:34440287
A Y-linked anti-Müllerian hormone type-II receptor is the sex-determining gene in ayu, Plecoglossus altivelis. PMID:34437539
Evolutionary Profile for (Host and Viral) MLKL Indicates Its Activities as a Battlefront for Extensive Counteradaptation. PMID:34436583
A global map of associations between types of protein posttranslational modifications and human genetic diseases. PMID:34430807
Integrative genetic, genomic and transcriptomic analysis of heat shock protein and nuclear hormone receptor gene associations with spontaneous preterm birth. PMID:34429451
Transcriptomic analysis of a wild and a cultivated varieties of Capsicum annuum over fruit development and ripening. PMID:34428253
Ankyrin repeats in context with human population variation. PMID:34428215
A Combination of Metagenomic and Cultivation Approaches Reveals Hypermutator Phenotypes within Vibrio cholerae-Infected Patients. PMID:34427503
Rapid Genomic Evolution Drives the Diversification of Male Reproductive Genes in Dung Beetles. PMID:34426833
Heterogeneous graph attention networks for drug virus association prediction. PMID:34419588
Ten simple rules for creating reusable pathway models for computational analysis and visualization. PMID:34411100
Characterization of the ABC methionine transporter from Neisseria meningitidis reveals that lipidated MetQ is required for interaction. PMID:34409939
Functional Classification of Super-Large Families of Enzymes Based on Substrate Binding Pocket Residues for Biocatalysis and Enzyme Engineering Applications. PMID:34409021
PhenoDB, GeneMatcher and VariantMatcher, tools for analysis and sharing of sequence data. PMID:34407837
Molecular mimicry between SARS-CoV-2 and the female reproductive system. PMID:34407240
Transovarial transmission of a core virome in the Chagas disease vector Rhodnius prolixus. PMID:34407148
Immunopeptidomics toolkit library (IPTK): a python-based modular toolbox for analyzing immunopeptidomics data. PMID:34404349
Identification of COVID-19 prognostic markers and therapeutic targets through meta-analysis and validation of Omics data from nasopharyngeal samples. PMID:34392148
Sequence-dependent mechanics of collagen reflect its structural and functional organization. PMID:34390685
Paracoccus onubensis sp. nov., a novel alphaproteobacterium isolated from the wall of a show cave. PMID:34388083
Angiogenic gene networks are dysregulated in opioid use disorder: evidence from multi-omics and imaging of postmortem human brain. PMID:34385598
Genetic basis of cannabis use: a systematic review. PMID:34384432
Fold Evolution before LUCA: Common Ancestry of SH3 Domains and OB Domains. PMID:34383917
Integration of chronological omics data reveals mitochondrial regulatory mechanisms during the development of hepatocellular carcinoma. PMID:34383828
A new comprehensive annotation of leucine-rich repeat-containing receptors in rice. PMID:34382706
Chaperonin Abundance Enhances Bacterial Fitness. PMID:34381811
P2T2: Protein Panoramic annoTation Tool for the interpretation of protein coding genetic variants. PMID:34377961
Shiquan Yuzhen Decoction inhibits angiogenesis and tumor apoptosis caused by non-small cell lung cancer and promotes immune response. PMID:34377231
Urine peptidome analysis in cardiorenal syndrome reflects molecular processes. PMID:34376786
The molecular basis, genetic control and pleiotropic effects of local gene co-expression. PMID:34376650
Cellular Uptake and Intracellular Phosphorylation of GS-441524: Implications for Its Effectiveness against COVID-19. PMID:34372575
Systematic Bioinformatic Analyses of Nutrigenomic Modifications by Polyphenols Associated with Cardiometabolic Health in Humans-Evidence from Targeted Nutrigenomic Studies. PMID:34371836
Phosphoinositide Recognition Sites Are Blocked by Metabolite Attachment. PMID:34368138
Large-scale computational discovery and analysis of virus-derived microbial nanocompartments. PMID:34362927
Analysis of Bacterial Communities on North Sea Macroalgae and Characterization of the Isolated Planctomycetes Adhaeretor mobilis gen. nov., sp. nov., Roseimaritima multifibrata sp. nov., Rosistilla ulvae sp. nov. and Rubripirellula lacrimiformis sp. nov. PMID:34361930
The Histidine Biosynthetic Genes in the Superphylum Bacteroidota-Rhodothermota-Balneolota-Chlorobiota: Insights into the Evolution of Gene Structure and Organization. PMID:34361875
Characterization of the Heat-Stable Proteome during Seed Germination in Arabidopsis with Special Focus on LEA Proteins. PMID:34360938
Expanding the MECP2 network using comparative genomics reveals potential therapeutic targets for Rett syndrome. PMID:34355696
Using agricultural metadata: a novel investigation of trends in sowing date in on-farm research trials using the Online Farm Trials database. PMID:34354820
Genome-wide analysis of HECT E3 ubiquitin ligase gene family in Solanum lycopersicum. PMID:34354159
An extended reconstruction of human gut microbiota metabolism of dietary compounds. PMID:34354065
GTXplorer: A portal to navigate and visualize the evolutionary information encoded in fold A glycosyltransferases. PMID:34351427
A domain damage index to prioritizing the pathogenicity of missense variants. PMID:34350656
Characterization of Five Transmembrane Proteins: With Focus on the Tweety, Sideroflexin, and YIP1 Domain Families. PMID:34350187
Influence of HLA Class II Polymorphism on Predicted Cellular Immunity Against SARS-CoV-2 at the Population and Individual Level. PMID:34349756
Network Pharmacology Prediction and Molecular Docking-Based Strategy to Discover the Potential Pharmacological Mechanism of Huai Hua San Against Ulcerative Colitis. PMID:34349502
Expanding the KIF4A-associated phenotype. PMID:34346154
CanImmunother: a manually curated database for identification of cancer immunotherapies associating with biomarkers, targets, and clinical effects. PMID:34345532
Probing an Ixodes ricinus salivary gland yeast surface display with tick-exposed human sera to identify novel candidates for an anti-tick vaccine. PMID:34344917
Comprehensive Strain-Level Analysis of the Gut Microbe Faecalibacterium prausnitzii in Patients with Liver Cirrhosis. PMID:34342541
Time-Resolved Proteome Analysis of Listeria monocytogenes during Infection Reveals the Role of the AAA+ Chaperone ClpC for Host Cell Adaptation. PMID:34342529
CCD2: design constructs for protein expression, the easy way. PMID:34342272
A systems-level study reveals host-targeted repurposable drugs against SARS-CoV-2 infection. PMID:34339582
Plasma proteins, cognitive decline, and 20-year risk of dementia in the Whitehall II and Atherosclerosis Risk in Communities studies. PMID:34338426
In-silico study of peptide-protein interaction of antimicrobial peptides potentially targeting SARS and SARS-CoV-2 nucleocapsid protein. PMID:34336545
Chromosome-Scale Genome for a Red-Fruited, Perpetual Flowering and Runnerless Woodland Strawberry (Fragaria vesca). PMID:34335685
A Computational Exploration of the Molecular Network Associated to Neuroinflammation in Alzheimer's Disease. PMID:34335238
TMEM180 contributes to SW480 human colorectal cancer cell proliferation through intra-cellular metabolic pathways. PMID:34332338
Affinity Proteomics and Deglycoproteomics Uncover Novel EDEM2 Endogenous Substrates and an Integrative ERAD Network. PMID:34332121
The role of neutral and adaptive genomic variation in population diversification and speciation in two ground squirrel species of conservation concern. PMID:34324748
Topological network based drug repurposing for coronavirus 2019. PMID:34324563
Protein oligomer modeling guided by predicted interchain contacts in CASP14. PMID:34324224
Proteomic analysis reveals dexamethasone rescues matrix breakdown but not anabolic dysregulation in a cartilage injury model. PMID:34322675
New Family Members of FG Repeat Proteins and Their Unexplored Roles During Phase Separation. PMID:34322491
Broad and Efficient Activation of Memory CD4+ T Cells by Novel HAdV- and HCMV-Derived Peptide Pools. PMID:34322126
Planarian Anatomy Ontology: a resource to connect data within and across experimental platforms. PMID:34318308
A blood-based prognostic liver secretome signature and long-term hepatocellular carcinoma risk in advanced liver fibrosis. PMID:34318286
Mechanistic models of signaling pathways deconvolute the glioblastoma single-cell functional landscape. PMID:34316686
Putatively cancer-specific exon-exon junctions are shared across patients and present in developmental and other non-cancer cells. PMID:34316681
A new strategy to uncover fragile X proteomic biomarkers using the nascent proteome of peripheral blood mononuclear cells (PBMCs). PMID:34312401
Spironolactone Ameliorates Senescence and Calcification by Modulating Autophagy in Rat Tendon-Derived Stem Cells via the NF-κB/MAPK Pathway. PMID:34306308
Sequence variation in the β7-β8 loop of bacterial class A sortase enzymes alters substrate selectivity. PMID:34302812
In Silico Prediction of the Mechanism of Action of Pyriproxyfen and 4'-OH-Pyriproxyfen against A. mellifera and H. sapiens Receptors. PMID:34299368
Analysis of the Structural Mechanism of ATP Inhibition at the AAA1 Subunit of Cytoplasmic Dynein-1 Using a Chemical "Toolkit". PMID:34299323
CFTR Lifecycle Map-A Systems Medicine Model of CFTR Maturation to Predict Possible Active Compound Combinations. PMID:34299207
Knock-Out of ACBD3 Leads to Dispersed Golgi Structure, but Unaffected Mitochondrial Functions in HEK293 and HeLa Cells. PMID:34298889
The genome of the Pyrenean desman and the effects of bottlenecks and inbreeding on the genomic landscape of an endangered species. PMID:34295371
Genomic data support management of anadromous Arctic Char fisheries in Nunavik by highlighting neutral and putatively adaptive genetic variation. PMID:34295370
Invasion and rapid adaptation of guppies (Poecilia reticulata) across the Hawaiian Archipelago. PMID:34295361
Integrative Identification of Crucial Genes Associated With Plant Hormone-Mediated Bud Dormancy in Prunus mume. PMID:34295354
Myco-remediation of Chlorinated Pesticides: Insights Into Fungal Metabolic System. PMID:34294989
Comparison of transcriptome between high- and low-marbling fineness in longissimus thoracis muscle of Korean cattle. PMID:34293845
Spatially resolved analysis of Pseudomonas aeruginosa biofilm proteomes measured by laser ablation sample transfer. PMID:34292966
Exploring amino acid functions in a deep mutational landscape. PMID:34292650
Distinct Human Gut Microbial Taxonomic Signatures Uncovered With Different Sample Processing and Microbial Cell Disruption Methods for Metaproteomic Analysis. PMID:34290676
ResidueFinder: extracting individual residue mentions from protein literature. PMID:34289903
Testicular disposition of clofarabine in rats is dependent on equilibrative nucleoside transporters. PMID:34288585
Comparative Genomics of Three Novel Jumbo Bacteriophages Infecting Staphylococcus aureus. PMID:34287047
Co-evolutionary landscape at the interface and non-interface regions of protein-protein interaction complexes. PMID:34285778
Structural binding site comparisons reveal Crizotinib as a novel LRRK2 inhibitor. PMID:34285770
Transcriptome and proteome of the corm, leaf and flower of Hypoxis hemerocallidea (African potato). PMID:34283859
Ribosome heterogeneity in Drosophila melanogaster gonads through paralog-switching. PMID:34283226
Representing a Heterogeneous Pharmaceutical Knowledge-Graph with Textual Information. PMID:34278204
IDOPS, a Profile HMM-Based Tool to Detect Pesticidal Sequences and Compare Their Genetic Context. PMID:34276598
Discovery of fibrillar adhesins across bacterial species. PMID:34275445
Prediction of combination therapies based on topological modeling of the immune signaling network in multiple sclerosis. PMID:34271980
Localization, proteomics, and metabolite profiling reveal a putative vesicular transporter for UDP-glucose. PMID:34269178
Crk adaptor proteins are necessary for the development of the zebrafish retina. PMID:34268820
The conserved ASTN2/BRINP1 locus at 9q33.1-33.2 is associated with major psychiatric disorders in a large pedigree from Southern Spain. PMID:34267256
ColBuilder: A server to build collagen fibril models. PMID:34265261
The tweety Gene Family: From Embryo to Disease. PMID:34262434
Metagenomics: a path to understanding the gut microbiome. PMID:34259891
Effect of dapagliflozin on diabetic patients with cardiovascular disease via MAPK signalling pathway. PMID:34258872
Signatures of mitonuclear coevolution in a warbler species complex. PMID:34257313
Structural basis of the membrane intramolecular transacylase reaction responsible for lyso-form lipoprotein synthesis. PMID:34253723
DeepGraphGO: graph neural network for large-scale, multispecies protein function prediction. PMID:34252926
Epigenetic rewiring of skeletal muscle enhancers after exercise training supports a role in whole-body function and human health. PMID:34252634
Genetic Context of optrA and poxtA in Florfenicol-Resistant Enterococci Isolated from Flowing Surface Water in Switzerland. PMID:34252296
Target enrichment improves phylogenetic resolution in the genus Zanthoxylum (Rutaceae) and indicates both incomplete lineage sorting and hybridization events. PMID:34250543
Barcode sequencing and a high-throughput assay for chronological lifespan uncover ageing-associated genes in fission yeast. PMID:34250083
Recognition of Streptococcal Promoters by the Pneumococcal SigA Protein. PMID:34250014
DTL-DephosSite: Deep Transfer Learning Based Approach to Predict Dephosphorylation Sites. PMID:34249915
A Peptide Vaccine Candidate Tailored to Individuals' Genetics Mimics the Multi-Targeted T Cell Immunity of COVID-19 Convalescent Subjects. PMID:34249101
A Chromosome-Level Genome Assembly of the Mandarin Fish (Siniperca chuatsi). PMID:34249093
Altered skeletal muscle metabolic pathways, age, systemic inflammation, and low cardiorespiratory fitness associate with improvements in disease activity following high-intensity interval training in persons with rheumatoid arthritis. PMID:34246305
High-throughput analysis of the interactions between viral proteins and host cell RNAs. PMID:34246161
Genomic atlas of the proteome from brain, CSF and plasma prioritizes proteins implicated in neurological disorders. PMID:34239129
Predicting synchronized gene coexpression patterns from fibration symmetries in gene regulatory networks in bacteria. PMID:34238210
The RAS GTPase RIT1 compromises mitotic fidelity through spindle assembly checkpoint suppression. PMID:34237269
Integrated Multi-Omics Analysis of Mechanisms Underlying Yeast Ethanol Tolerance. PMID:34236875
Burkholderia multivorans requires species-specific GltJK for entry of a contact-dependent growth inhibition system protein. PMID:34236112
Cyclohexyl-α maltoside as a highly efficient tool for membrane protein studies. PMID:34235488
Saccharomyces cerevisiae as a superior host for overproduction of prokaryotic integral membrane proteins. PMID:34235486
Diffusive protein interactions in human versus bacterial cells. PMID:34235470
Predicted structural mimicry of spike receptor-binding motifs from highly pathogenic human coronaviruses. PMID:34234921
A prion-like protein regulator of seed germination undergoes hydration-dependent phase separation. PMID:34233164
In-Cell Labeling and Mass Spectrometry for Systems-Level Structural Biology. PMID:34232610
Achromobacter spp. genetic adaptation in cystic fibrosis. PMID:34232117
Clinical likelihood ratios and balanced accuracy for 44 in silico tools against multiple large-scale functional assays of cancer susceptibility genes. PMID:34230640
The mitochondrial genome of the grape powdery mildew pathogen Erysiphe necator is intron rich and exhibits a distinct gene organization. PMID:34230575
PDBrenum: A webserver and program providing Protein Data Bank files renumbered according to their UniProt sequences. PMID:34228733
A global transcriptomic analysis of Staphylococcus aureus biofilm formation across diverse clonal lineages. PMID:34227933
Comparative genomic analysis of Escherichia coli isolates from cases of bovine clinical mastitis identifies nine specific pathotype marker genes. PMID:34227932
Random forest classification for predicting lifespan-extending chemical compounds. PMID:34226569
Four chromosome scale genomes and a pan-genome annotation to accelerate pecan tree breeding. PMID:34226565
Plasticity in plastid redox networks: evolution of glutathione-dependent redox cascades and glutathionylation sites. PMID:34225654
Protocol for HSDFinder: Identifying, annotating, categorizing, and visualizing duplicated genes in eukaryotic genomes. PMID:34223195
A comprehensive review of integrative pharmacology-based investigation: A paradigm shift in traditional Chinese medicine. PMID:34221858
Mapping Salivary Proteases in Sjögren's Syndrome Patients Reveals Overexpression of Dipeptidyl Peptidase-4/CD26. PMID:34220840
Systematic analysis of SARS-CoV-2 infection of an ACE2-negative human airway cell. PMID:34214467
Increasing the Accuracy of Single Sequence Prediction Methods Using a Deep Semi-Supervised Learning Framework. PMID:34213528
SidechainNet: An all-atom protein structure dataset for machine learning. PMID:34213059
Translational Proteomics Analysis of Anthracycline-Induced Cardiotoxicity From Cardiac Microtissues to Human Heart Biopsies. PMID:34211507
Improving the Utility of Polygenic Risk Scores as a Biomarker for Alzheimer's Disease. PMID:34209762
MDCAN-Lys: A Model for Predicting Succinylation Sites Based on Multilane Dense Convolutional Attention Network. PMID:34208298
PhaLP: A Database for the Study of Phage Lytic Proteins and Their Evolution. PMID:34206969
17β-Estradiol-Induced Conformational Changes of Human Microsomal Triglyceride Transfer Protein: A Computational Molecular Modelling Study. PMID:34206252
Pathogen Moonlighting Proteins: From Ancestral Key Metabolic Enzymes to Virulence Factors. PMID:34203698
Conversion of the Sensor Kinase DcuS to the Fumarate Sensitive State by Interaction of the Bifunctional Transporter DctA at the TM2/PASC-Linker Region. PMID:34203512
Secretome Analysis of Arabidopsis-Trichoderma atroviride Interaction Unveils New Roles for the Plant Glutamate:Glyoxylate Aminotransferase GGAT1 in Plant Growth Induced by the Fungus and Resistance against Botrytis cinerea. PMID:34202732
Hyperoxia Inhibits Proliferation of Retinal Endothelial Cells in a Myc-Dependent Manner. PMID:34202240
Insights into Autotrophic Activities and Carbon Flow in Iron-Rich Pelagic Aggregates (Iron Snow). PMID:34201891
Proteogenomics Reveals Orthologous Alternatively Spliced Proteoforms in the Same Human and Mouse Brain Regions with Differential Abundance in an Alzheimer's Disease Mouse Model. PMID:34201730
Machine Learning-Based Approach Highlights the Use of a Genomic Variant Profile for Precision Medicine in Ovarian Failure. PMID:34199109
Towards a global investigation of transcriptomic signatures through co-expression networks and pathway knowledge for the identification of disease mechanisms. PMID:34197603
Predicting the Specificity- Determining Positions of Receptor Tyrosine Kinase Axl. PMID:34195226
Cytoplasmic long noncoding RNAs are differentially regulated and translated during human neuronal differentiation. PMID:34193551
Nanoscape, a data-driven 3D real-time interactive virtual cell environment. PMID:34191720
Stepwise target controllability identifies dysregulations of macrophage networks in multiple sclerosis. PMID:34189368
Leveraging network analysis to evaluate biomedical named entity recognition tools. PMID:34188248
NOD: a web server to predict New use of Old Drugs to facilitate drug repurposing. PMID:34188160
Genomic and Phenotypic Evolution of Achromobacter xylosoxidans during Chronic Airway Infections of Patients with Cystic Fibrosis. PMID:34184916
Chemical profiling of DNA G-quadruplex-interacting proteins in live cells. PMID:34183817
Mechanism of protective effect of xuan-bai-cheng-qi decoction on LPS-induced acute lung injury based on an integrated network pharmacology and RNA-sequencing approach. PMID:34183011
Mode of action evaluation for reduced reproduction in Daphnia pulex exposed to the insensitive munition, 1-methyl-3-nitro-1-nitroguanidine (MeNQ). PMID:34173910
Optimization of a human milk-directed quantitative sIgA ELISA method substantiated by mass spectrometry. PMID:34169348
A tailored phosphoaspartate probe unravels CprR as a response regulator in Pseudomonas aeruginosa interkingdom signaling. PMID:34168754
Bacterial Vipp1 and PspA are members of the ancient ESCRT-III membrane-remodeling superfamily. PMID:34166615
Unraveling the surface glycoprotein interaction network by integrating chemical crosslinking with MS-based proteomics. PMID:34163979
Revealing the Characteristics of the Antarctic Snow Alga Chlorominima collina gen. et sp. nov. Through Taxonomy, Physiology, and Transcriptomics. PMID:34163502
NetCleave: an open-source algorithm for predicting C-terminal antigen processing for MHC-I and MHC-II. PMID:34162981
Is mRNA decapping by ApaH like phosphatases present in eukaryotes beyond the Kinetoplastida? PMID:34162332
Network-based analysis of virulence factors for uncovering Aeromonas veronii pathogenesis. PMID:34162325
Genome-wide association study of signature genetic alterations among pseudomonas aeruginosa cystic fibrosis isolates. PMID:34161396
Interplay between SARS-CoV-2-derived miRNAs, immune system, vitamin D pathway and respiratory system. PMID:34159729
Adipsin promotes bone marrow adiposity by priming mesenchymal stem cells. PMID:34155972
Analysis of Two SusE-Like Enzymes From Bacteroides thetaiotaomicron Reveals a Potential Degradative Capacity for This Protein Family. PMID:34149636
Peptides of H. sapiens and P. falciparum that are predicted to bind strongly to HLA-A*24:02 and homologous to a SARS-CoV-2 peptide. PMID:34146538
Chromosome Fusion Affects Genetic Diversity and Evolutionary Turnover of Functional Loci but Consistently Depends on Chromosome Size. PMID:34146107
Somatic mutation subtypes of lung adenocarcinoma in East Asian reveal divergent biological characteristics and therapeutic vulnerabilities. PMID:34142036
Computational study to discover potent phytochemical inhibitors against drug target, squalene synthase from Leishmania donovani. PMID:34141935
DCBLD1 is associated with the integrin signaling pathway and has prognostic value in non-small cell lung and invasive breast carcinoma. PMID:34140574
Evaluating the lettuce metatranscriptome with MinION sequencing for future spaceflight food production applications. PMID:34140518
Machine learning differentiates enzymatic and non-enzymatic metals in proteins. PMID:34140507
Learning the protein language: Evolution, structure, and function. PMID:34139171
Fundamentals to function: Quantitative and scalable approaches for measuring protein stability. PMID:34139165
COSMIC Cancer Gene Census 3D database: understanding the impacts of mutations on cancer targets. PMID:34137435
Structural basis of the activation of the CC chemokine receptor 5 by a chemokine agonist. PMID:34134983
Prediction of unconventional protein secretion by exosomes. PMID:34134630
Tools and methods for circular dichroism spectroscopy of proteins: a tutorial review. PMID:34132259
Proteome-wide prediction of bacterial carbohydrate-binding proteins as a tool for understanding commensal and pathogen colonisation of the vaginal microbiome. PMID:34131152
Insights into the genomic evolution of insects from cricket genomes. PMID:34127782
Sphingomyelin and Medullary Sponge Kidney Disease: A Biological Link Identified by Omics Approach. PMID:34124100
Molecular basis of anticoagulant and anticomplement activity of the tick salivary protein Salp14 and its homologs. PMID:34118237
Elevated metallothionein expression in long-lived species mediates the influence of cadmium accumulation on aging. PMID:34117600
Integrating protein networks and machine learning for disease stratification in the Hereditary Spastic Paraplegias. PMID:34113825
Unique Pathogen Peptidomes Facilitate Pathogen-Specific Selection and Specialization of MHC Alleles. PMID:34110412
Thioesterase superfamily member 1 undergoes stimulus-coupled conformational reorganization to regulate metabolism in mice. PMID:34108467
PINIR: a comprehensive information resource for Pin-II type protease inhibitors. PMID:34107869
Human Urine Alters Methicillin-Resistant Staphylococcus aureus Virulence and Transcriptome. PMID:34105987
Effects of FUdR on gene expression in the C. elegans bacterial diet OP50. PMID:34103088
Evolutionary crossroads of cell signaling: PP1 and PP2A substrate sites in intrinsically disordered regions. PMID:34100859
Two RmlC homologs catalyze dTDP-4-keto-6-deoxy-D-glucose epimerization in Pseudomonas putida KT2440. PMID:34099824
Human tear proteome dataset in response to daily wear of water gradient contact lens using SWATH-MS approach. PMID:34095372
A Novel GH Family 20 β-N-acetylhexosaminidase With Both Chitosanase and Chitinase Activity From Aspergillus oryzae. PMID:34095233
A combined evolutionary and structural approach to disclose the primary structural determinants essential for proneurotrophins biological functions. PMID:34094000
β-Lactoglobulin and Glycodelin: Two Sides of the Same Coin? PMID:34093238
Molecular docking analysis of antimicrobial peptides with the CXCL1 protein target for colorectal cancer. PMID:34092958
Mapping of m6A and Its Regulatory Targets in Prostate Cancer Reveals a METTL3-Low Induction of Therapy Resistance. PMID:34088870
Annotation of snoRNA abundance across human tissues reveals complex snoRNA-host gene relationships. PMID:34088344
Combining Evolutionary Conservation and Quantum Topological Analyses To Determine Quantum Mechanics Subsystems for Biomolecular Quantum Mechanics/Molecular Mechanics Simulations. PMID:34087064
Proteomic Characterization of the Dynamics of Ischemic Stroke in Mice. PMID:34085531
Single-nucleotide conservation state annotation of the SARS-CoV-2 genome. PMID:34083758
MBD5 and MBD6 couple DNA methylation to gene silencing through the J-domain protein SILENZIO. PMID:34083448
Mice with dysfunctional TGF-β signaling develop altered intestinal microbiome and colorectal cancer resistant to 5FU. PMID:34082069
Kinetoplastid kinetochore proteins KKT2 and KKT3 have unique centromere localization domains. PMID:34081090
Positive Selection in Gene Regulatory Factors Suggests Adaptive Pleiotropic Changes During Human Evolution. PMID:34079582
Mantis: flexible and consensus-driven genome annotation. PMID:34076241
Mechnetor: a web server for exploring protein mechanism and the functional context of genetic variants. PMID:34076240
Structural insights and inhibition mechanism of TMPRSS2 by experimentally known inhibitors Camostat mesylate, Nafamostat and Bromhexine hydrochloride to control SARS-coronavirus-2: A molecular modeling approach. PMID:34075338
Periscope Proteins are variable-length regulators of bacterial cell surface interactions. PMID:34074781
Regulation of the Phosphoinositide Code by Phosphorylation of Membrane Readers. PMID:34069055
Differential Methylation Patterns in Apomictic vs. Sexual Genotypes of the Diplosporous Grass Eragrostis curvula. PMID:34068493
Physicochemical Features and Peculiarities of Interaction of AMP with the Membrane. PMID:34067510
PGRP-LB: An Inside View into the Mechanism of the Amidase Reaction. PMID:34066955
Evaluating Mechanisms of IDH1 Regulation through Site-Specific Acetylation Mimics. PMID:34065652
Lemur Tyrosine Kinases and Prostate Cancer: A Literature Review. PMID:34064250
Effects of Three-Month Administration of High-Saturated Fat Diet and High-Polyunsaturated Fat Diets with Different Linoleic Acid (LA, C18:2n-6) to α-Linolenic Acid (ALA, C18:3n-3) Ratio on the Mouse Liver Proteome. PMID:34063343
High Resistance of a Sludge Enriched with Nitrogen-Fixing Bacteria to Ammonium Salts and Its Potential as a Biofertilizer. PMID:34062837
VB12Path for Accurate Metagenomic Profiling of Microbially Driven Cobalamin Synthesis Pathways. PMID:34060913
Genome-Scale Metabolic Model of Caldicellulosiruptor bescii Reveals Optimal Metabolic Engineering Strategies for Bio-based Chemical Production. PMID:34060912
DrugComb update: a more comprehensive drug sensitivity data repository and analysis portal. PMID:34060634
Traumatic injury compromises nucleocytoplasmic transport and leads to TDP-43 pathology. PMID:34060470
Model-based analysis uncovers mutations altering autophagy selectivity in human cancer. PMID:34059679
Comparative analysis of de novo genomes reveals dynamic intra-species divergence of NLRs in pepper. PMID:34059006
Substrate Selectivity of Coumarin Derivatives by Human CYP1 Enzymes: In Vitro Enzyme Kinetics and In Silico Modeling. PMID:34056284
Dasatinib-SIK2 Binding Elucidated by Homology Modeling, Molecular Docking, and Dynamics Simulations. PMID:34056256
Systems Pharmacology and In Silico Docking Analysis Uncover Association of CA2, PPARG, RXRA, and VDR with the Mechanisms Underlying the Shi Zhen Tea Formula Effect on Eczema. PMID:34055023
Systemic Bioinformatic Analyses of Nuclear-Encoded Mitochondrial Genes in Hypertrophic Cardiomyopathy. PMID:34054926
Medicinal Plant Leaf Extract From Sage and Lemon Verbena Promotes Intestinal Immunity and Barrier Function in Gilthead Seabream (Sparus aurata). PMID:34054843
Investigation of the Multi-Target Mechanism of Guanxin-Shutong Capsule in Cerebrovascular Diseases: A Systems Pharmacology and Experimental Assessment. PMID:34054530
Multi-Dimensional Transcriptome Analysis Reveals Modulation of Cholesterol Metabolism as Highly Integrated Response to Brain Injury. PMID:34054419
ncFANs v2.0: an integrative platform for functional annotation of non-coding RNAs. PMID:34050762
Pretraining model for biological sequence data. PMID:34050350
Molecular mechanisms of metabotropic GABAB receptor function. PMID:34049877
The COVID-19 Data Portal: accelerating SARS-CoV-2 and COVID-19 research through rapid open access data sharing. PMID:34048576
Introducing the metacore concept for multi-target ligand design. PMID:34046634
Recent Advances in Protein Homology Detection Propelled by Inter-Residue Interaction Map Threading. PMID:34046429
Noncontiguous T cell epitopes in autoimmune diabetes: From mice to men and back again. PMID:34044020
High-Quality Reference Genome Sequence for the Oomycete Vegetable Pathogen Phytophthora capsici Strain LT1534. PMID:34042486
TSPEAR variants are primarily associated with ectodermal dysplasia and tooth agenesis but not hearing loss: A novel cohort study. PMID:34042254
Identification of prognostic and bone metastasis-related alternative splicing signatures in mesothelioma. PMID:34041868
Tracing Evolution Through Protein Structures: Nature Captured in a Few Thousand Folds. PMID:34041266
NetGO 2.0: improving large-scale protein function prediction with massive sequence, text, domain, family and network information. PMID:34038555
Based on Network Pharmacology and Molecular Docking to Explore the Underlying Mechanism of Huangqi Gegen Decoction for Treating Diabetic Nephropathy. PMID:34035828
A 3D system to model human pancreas development and its reference single-cell transcriptome atlas identify signaling pathways required for progenitor expansion. PMID:34035279
The Human Salivary Proteome Wiki: A Community-Driven Research Platform. PMID:34032471
SARS-CoV-2 simulations go exascale to predict dramatic spike opening and cryptic pockets across the proteome. PMID:34031561
Distinct EH domains of the endocytic TPLATE complex confer lipid and protein binding. PMID:34031427
Analysis of aqueous humor total antioxidant capacity and its correlation with corneal endothelial health. PMID:34027088
A Strategy Based on Loop Analysis to Develop Peptide Epitopes: Application to SARS-CoV-2 Spike Protein. PMID:34026833
Mapping OMIM Disease-Related Variations on Protein Domains Reveals an Association Among Variation Type, Pfam Models, and Disease Classes. PMID:34026820
Prokaryotic communities from a lava tube cave in La Palma Island (Spain) are involved in the biogeochemical cycle of major elements. PMID:34026356
Meanders as a scaling motif for understanding of floodplain soil microbiome and biogeochemical potential at the watershed scale. PMID:34022966
DeepGOWeb: fast and accurate protein function prediction on the (Semantic) Web. PMID:34019664
Amino Acid Interactions (INTAA) web server v2.0: a single service for computation of energetics and conservation in biomolecular 3D structures. PMID:34019656
Characterisation of the Semliki Forest Virus-host cell interactome reveals the viral capsid protein as an inhibitor of nonsense-mediated mRNA decay. PMID:34019569
Molecularly imprinted polymers by epitope imprinting: a journey from molecular interactions to the available bioinformatics resources to scout for epitope templates. PMID:34018035
COVID-19 biomarkers and their overlap with comorbidities in a disease biomarker data model. PMID:34015823
New diarylsulfonamide inhibitors of Leishmania infantum amastigotes. PMID:34015753
Host pharmacogenetic factors that may affect liver neoplasm incidence upon using direct-acting antivirals for treating hepatitis C infection. PMID:34013078
Structural Profiling of Bacterial Effectors Reveals Enrichment of Host-Interacting Domains and Motifs. PMID:34012977
A PROSS-designed extensively mutated estrogen receptor α variant displays enhanced thermal stability while retaining native allosteric regulation and structure. PMID:34006920
Application of beta and gamma carbonic anhydrase sequences as tools for identification of bacterial contamination in the whole genome sequence of inbred Wuzhishan minipig (Sus scrofa) annotated in databases. PMID:34003248
Proline codon pair selection determines ribosome pausing strength and translation efficiency in bacteria. PMID:34002016
Primordial super-enhancers: heat shock-induced chromatin organization in yeast. PMID:34001402
The fructose-1,6-bisphosphatase deficiency and the p.(Lys204ArgfsTer72) variant. PMID:33999094
Computational generation of proteins with predetermined three-dimensional shapes using ProteinSolver. PMID:33997819
Abundance Imparts Evolutionary Constraints of Similar Magnitude on the Buried, Surface, and Disordered Regions of Proteins. PMID:33996892
Identification of the key target profiles underlying the drugs of narrow therapeutic index for treating cancer and cardiovascular disease. PMID:33995923
Structure and evolutionary trace-assisted screening of a residue swapping the substrate ambiguity and chiral specificity in an esterase. PMID:33995922
ExVe: The knowledge base of orthologous proteins identified in fungal extracellular vesicles. PMID:33995920
Structural modeling of a novel membrane-bound globin-coupled sensor in Geobacter sulfurreducens. PMID:33995893
Gene Expression Patterns for Proteins With Lectin Domains in Flax Stem Tissues Are Related to Deposition of Distinct Cell Wall Types. PMID:33995436
Distinguishing Signal From Noise in Immunopeptidome Studies of Limiting-Abundance Biological Samples: Peptides Presented by I-Ab in C57BL/6 Mouse Thymus. PMID:33995376
Myomedin scaffold variants targeted to 10E8 HIV-1 broadly neutralizing antibody mimic gp41 epitope and elicit HIV-1 virus-neutralizing sera in mice. PMID:33993840
Structure-based drug repurposing against COVID-19 and emerging infectious diseases: methods, resources and discoveries. PMID:33993214
The SARS-CoV-2 RNA interactome. PMID:33989516
Pathogenic potential assessment of the Shiga toxin-producing Escherichia coli by a source attribution-considered machine learning model. PMID:33986113
Can molecular dynamics simulations improve the structural accuracy and virtual screening performance of GPCR models? PMID:33983933
Insights on the Evolutionary Genomics of the Blautia Genus: Potential New Species and Genetic Content Among Lineages. PMID:33981291
Reconstruction of ancient microbial genomes from the human gut. PMID:33981035
Landscape of allele-specific transcription factor binding in the human genome. PMID:33980847
Molecular dynamics shows complex interplay and long-range effects of post-translational modifications in yeast protein interactions. PMID:33979327
Clustering FunFams using sequence embeddings improves EC purity. PMID:33978744
Inhibition of hyaluronan secretion by novel coumarin compounds and chitin synthesis inhibitors. PMID:33978736
PhosIDP: a web tool to visualize the location of phosphorylation sites in disordered regions. PMID:33976270
SARS-CoV-2 gene content and COVID-19 mutation impact by comparing 44 Sarbecovirus genomes. PMID:33976134
Recurrent NFIA K125E substitution represents a loss-of-function allele: Sensitive in vitro and in vivo assays for nontruncating alleles. PMID:33973697
Macrosynteny analysis between Lentinula edodes and Lentinula novae-zelandiae reveals signals of domestication in Lentinula edodes. PMID:33972587
Knowledge bases and software support for variant interpretation in precision oncology. PMID:33971666
Paired SARS-CoV-2 spike protein mutations observed during ongoing SARS-CoV-2 viral transfer from humans to minks and back to humans. PMID:33971305
Complete genome sequence of Photobacterium ganghwense C2.2: A new polyhydroxyalkanoate production candidate. PMID:33970538
Updates to HCOP: the HGNC comparison of orthology predictions tool. PMID:33959747
Structural and mechanistic insights into the bifunctional HISN2 enzyme catalyzing the second and third steps of histidine biosynthesis in plants. PMID:33958623
Evolutionary Dynamics of the OR Gene Repertoire in Teleost Fishes: Evidence of an Association with Changes in Olfactory Epithelium Shape. PMID:33950257
Transcriptome of different fruiting stages in the cultivated mushroom Cyclocybe aegerita suggests a complex regulation of fruiting and reveals enzymes putatively involved in fungal oxylipin biosynthesis. PMID:33947322
Characterization of Extracellular Vesicles Secreted in Lentiviral Producing HEK293SF Cell Cultures. PMID:33946875
Gene Coexpression Network Reveals Highly Conserved, Well-Regulated Anti-Ageing Mechanisms in Old Ant Queens. PMID:33944936
Integrating taxonomic, functional, and strain-level profiling of diverse microbial communities with bioBakery 3. PMID:33944776
Detecting Protein Communities in Native Cell Extracts by Machine Learning: A Structural Biologist's Perspective. PMID:33937337
Strategies for Enhancing in vitro Degradation of Linuron by Variovorax sp. Strain SRS 16 Under the Guidance of Metabolic Modeling. PMID:33937210
Clinical and Genetic Characterization of Craniosynostosis in Saudi Arabia. PMID:33937142
Cell Wall Layer Induced in Xylem Fibers of Flax Upon Gravistimulation Is Similar to Constitutively Formed Cell Walls of Bast Fibers. PMID:33936149
LanCLs add glutathione to dehydroamino acids generated at phosphorylated sites in the proteome. PMID:33932340
A SARS-CoV-2 (COVID-19) biological network to find targets for drug repurposing. PMID:33931664
Sequencing, assembly and annotation of the whole-insect genome of Lymantria dispar dispar, the European gypsy moth. PMID:33930134
CladeOScope: functional interactions through the prism of clade-wise co-evolution. PMID:33928243
An Overview of Biological and Computational Methods for Designing Mechanism-Informed Anti-biofilm Agents. PMID:33927701
Stepwise pathogenic evolution of Mycobacterium abscessus. PMID:33926925
AC2: An Efficient Protein Sequence Compression Tool Using Artificial Neural Networks and Cache-Hash Models. PMID:33925812
Identification of a Chlorovirus PBCV-1 Protein Involved in Degrading the Host Cell Wall during Virus Infection. PMID:33924931
The Human 2-Cys Peroxiredoxins form Widespread, Cysteine-Dependent- and Isoform-Specific Protein-Protein Interactions. PMID:33923941
Allosteric Modulation of the CB1 Cannabinoid Receptor by Cannabidiol-A Molecular Modeling Study of the N-Terminal Domain and the Allosteric-Orthosteric Coupling. PMID:33922473
Functional Interfaces, Biological Pathways, and Regulations of Interferon-Related DNA Damage Resistance Signature (IRDS) Genes. PMID:33922087
Protective Role of a TMPRSS2 Variant on Severe COVID-19 Outcome in Young Males and Elderly Women. PMID:33921689
Mining Synergistic Microbial Interactions: A Roadmap on How to Integrate Multi-Omics Data. PMID:33920040
Conformation-Specific Inhibitory Anti-MMP-7 Monoclonal Antibody Sensitizes Pancreatic Ductal Adenocarcinoma Cells to Chemotherapeutic Cell Kill. PMID:33918254
Evaluation of Immunohistochemical Markers, CK17 and SOX2, as Adjuncts to p53 for the Diagnosis of Differentiated Vulvar Intraepithelial Neoplasia (dVIN). PMID:33918187
Transcriptomic Profiles of CD47 in Breast Tumors Predict Outcome and Are Associated with Immune Activation. PMID:33917174
DPP9: Comprehensive In Silico Analyses of Loss of Function Gene Variants and Associated Gene Expression Signatures in Human Hepatocellular Carcinoma. PMID:33915844
Structural characterization of KKT4, an unconventional microtubule-binding kinetochore protein. PMID:33915106
Proteome-Wide Analysis of Heat-Stress in Pinus radiata Somatic Embryos Reveals a Combined Response of Sugar Metabolism and Translational Regulation Mechanisms. PMID:33912202
Tissue-specific regulatory mechanism of LncRNAs and methylation in sheep adipose and muscle induced by Allium mongolicum Regel extracts. PMID:33911127
Cyanophage Diversity and Community Structure in Dead Zone Sediments. PMID:33910994
A pseudomolecule assembly of the Rocky Mountain elk genome. PMID:33909645
A multi-targeting drug design strategy for identifying potent anti-SARS-CoV-2 inhibitors. PMID:33907306
Draft genome of a biparental beetle species, Lethrus apterus. PMID:33902445
Computer-Aided Drug Discovery Identifies Alkaloid Inhibitors of Parkinson's Disease Associated Protein, Prolyl Oligopeptidase. PMID:33897801
Familial Psychosis Associated With a Missense Mutation at MACF1 Gene Combined With the Rare Duplications DUP3p26.3 and DUP16q23.3, Affecting the CNTN6 and CDH13 Genes. PMID:33897758
ZapG (YhcB/DUF1043), a novel cell division protein in gamma-proteobacteria linking the Z-ring to septal peptidoglycan synthesis. PMID:33895137
Copper mining bacteria: Converting toxic copper ions into a stable single-atom copper. PMID:33893098
Effect of HPV 16 E6 Oncoprotein Variants on the Alterations of the Proteome of C33A Cells. PMID:33893080
Phylogenetic and Selection Analysis of an Expanded Family of Putatively Pore-Forming Jellyfish Toxins (Cnidaria: Medusozoa). PMID:33892512
Web resources facilitate drug discovery in treatment of COVID-19. PMID:33892145
Drosophila female reproductive tract gene expression reveals coordinated mating responses and rapidly evolving tissue-specific genes. PMID:33890615
Master Blaster: an approach to sensitive identification of remotely related proteins. PMID:33888741
Differential profiles of HDAC1 substrates and associated proteins in breast cancer cells revealed by trapping. PMID:33885658
Type VI Secretion System and Its Effectors PdpC, PdpD, and OpiA Contribute to Francisella Virulence in Galleria mellonella Larvae. PMID:33875476
Urinary Metabolomic and Proteomic Analyses in a Mouse Model of Prostatic Inflammation. PMID:33870183
Retrospective Use of Whole-Genome Sequencing Expands the Multicountry Outbreak Cluster of Listeria monocytogenes ST1247. PMID:33869622
Major Histocompatibility Complex Class I-Related Chain A (MICA) Allelic Variants Associate With Susceptibility and Prognosis of Gastric Cancer. PMID:33868281
Non-Genomic AhR-Signaling Modulates the Immune Response in Endotoxin-Activated Macrophages After Activation by the Environmental Stressor BaP. PMID:33868237
ATP1A3-Related Disorders: An Ever-Expanding Clinical Spectrum. PMID:33868146
Cytochrome bd promotes Escherichia coli biofilm antibiotic tolerance by regulating accumulation of noxious chemicals. PMID:33863914
A draft transcriptome of a parasite Neocamacolaimus parasiticus (Camacolaimidae, Plectida). PMID:33860270
Multi-platform omics analysis reveals molecular signature for COVID-19 pathogenesis, prognosis and drug target discovery. PMID:33859163
Obesity alters the ovarian proteomic response to zearalenone exposure†. PMID:33855340
Traditional Chinese Formula Xiaoyaosan Alleviates Depressive-Like Behavior in CUMS Mice by Regulating PEBP1-GPX4-Mediated Ferroptosis in the Hippocampus. PMID:33854318
Phylogenetic analysis of Harmonin homology domains. PMID:33853521
Analysis of temporal gene regulation of Listeria monocytogenes revealed distinct regulatory response modes after exposure to high pressure processing. PMID:33853520
AlnC: An extensive database of long non-coding RNAs in angiosperms. PMID:33852582
Type IV Collagen Variants in CKD: Performance of Computational Predictions for Identifying Pathogenic Variants. PMID:33851121
The whole is greater than its parts: ensembling improves protein contact prediction. PMID:33850214
Expasy, the Swiss Bioinformatics Resource Portal, as designed by its users. PMID:33849055
CREB stimulates GPX4 transcription to inhibit ferroptosis in lung adenocarcinoma. PMID:33846793
Whole-exome sequencing with targeted analysis and epilepsy after acute symptomatic neonatal seizures. PMID:33846556
A combined RAD-Seq and WGS approach reveals the genomic basis of yellow color variation in bumble bee Bombus terrestris. PMID:33846496
Comparative analysis of 13C chemical shifts of β-sheet amyloid proteins and outer membrane proteins. PMID:33844106
Serpins in cartilage and osteoarthritis: what do we know? PMID:33843993
A Multi-Omics Analysis of Metastatic Melanoma Identifies a Germinal Center-Like Tumor Microenvironment in HLA-DR-Positive Tumor Areas. PMID:33842341
A review on compound-protein interaction prediction methods: Data, format, representation and model. PMID:33841755
Computational evaluation of interactions between olfactory receptor OR2W1 and its ligands. PMID:33840173
Coding and non-coding roles of MOCCI (C15ORF48) coordinate to regulate host inflammation and immunity. PMID:33837217
Dual-process brain mitochondria isolation preserves function and clarifies protein composition. PMID:33836587
A novel yeast hybrid modeling framework integrating Boolean and enzyme-constrained networks enables exploration of the interplay between signaling and metabolism. PMID:33836000
ActiveDriverDB: Interpreting Genetic Variation in Human and Cancer Genomes Using Post-translational Modification Sites and Signaling Networks (2021 Update). PMID:33834021
Reprogramming enriches for somatic cell clones with small-scale mutations in cancer-associated genes. PMID:33831558
Life-extended glycosylated IL-2 promotes Treg induction and suppression of autoimmunity. PMID:33828163
Learning the molecular grammar of protein condensates from sequence determinants and embeddings. PMID:33827920
Massive parallel sequencing in a family with rectal cancer. PMID:33827643
An extended catalogue of tandem alternative splice sites in human tissue transcriptomes. PMID:33826604
Biallelic variants in TMEM222 cause a new autosomal recessive neurodevelopmental disorder. PMID:33824500
A slowly cleaved viral signal peptide acts as a protein-integral immune evasion domain. PMID:33824318
In silico investigation of the viroporin E as a vaccine target against SARS-CoV-2. PMID:33822639
Machine learning-based investigation of the cancer protein secretory pathway. PMID:33819271
Improved sequence-based prediction of interaction sites in α-helical transmembrane proteins by deep learning. PMID:33815689
Targeted Quantification of Detergent-Insoluble RNA-Binding Proteins in Human Brain Reveals Stage and Disease Specific Co-aggregation in Alzheimer's Disease. PMID:33815056
MolluscDB: a genome and transcriptome database for molluscs. PMID:33813885
IonQuant Enables Accurate and Sensitive Label-Free Quantification With FDR-Controlled Match-Between-Runs. PMID:33813065
Therapeutic wavelengths of ultraviolet B radiation activate apoptotic, circadian rhythm, redox signalling and key canonical pathways in psoriatic epidermis. PMID:33812333
Resourcing, annotating, and analysing synthetic peptides of SARS-CoV-2 for immunopeptidomics and other immunological studies. PMID:33811468
Label-free quantitative proteomics of Sorghum bicolor reveals the proteins strengthening plant defense against insect pest Chilo partellus. PMID:33810819
Deep Learning for Novel Antimicrobial Peptide Design. PMID:33810011
The Conservation of Low Complexity Regions in Bacterial Proteins Depends on the Pathogenicity of the Strain and Subcellular Location of the Protein. PMID:33809982
A Holistic Evolutionary and 3D Pharmacophore Modelling Study Provides Insights into the Metabolism, Function, and Substrate Selectivity of the Human Monocarboxylate Transporter 4 (hMCT4). PMID:33805725
Combined Proteotranscriptomic-Based Strategy to Discover Novel Antimicrobial Peptides from Cone Snails. PMID:33805497
Adenovirus Terminal Protein Contains a Bipartite Nuclear Localisation Signal Essential for Its Import into the Nucleus. PMID:33804953
Co-Transcriptional RNA Processing in Plants: Exploring from the Perspective of Polyadenylation. PMID:33804866
QTL Analysis of Adult Plant Resistance to Stripe Rust in a Winter Wheat Recombinant Inbred Population. PMID:33803625
Rational Design of Adenylate Kinase Thermostability through Coevolution and Sequence Divergence Analysis. PMID:33803409
Predicting Proteolysis in Complex Proteomes Using Deep Learning. PMID:33803033
Proteomic Analyses of Fibroblast- and Serum-Derived Exosomes Identify QSOX1 as a Marker for Non-invasive Detection of Colorectal Cancer. PMID:33802764
Diosmin Mitigates Cyclophosphamide Induced Premature Ovarian Insufficiency in Rat Model. PMID:33802633
Bioinformatic Analysis of the Nicotinamide Binding Site in Poly(ADP-Ribose) Polymerase Family Proteins. PMID:33801950
Pan-Cancer Analysis of Human Kinome Gene Expression and Promoter DNA Methylation Identifies Dark Kinase Biomarkers in Multiple Cancers. PMID:33801837
Sofosbuvir Selects for Drug-Resistant Amino Acid Variants in the Zika Virus RNA-Dependent RNA-Polymerase Complex In Vitro. PMID:33800884
MicroRNAs: Potential Targets for Developing Stress-Tolerant Crops. PMID:33800690
The Basolateral Polarity Module Promotes Slit Diaphragm Formation in Drosophila Nephrocytes, a Model of Vertebrate Podocytes. PMID:33795424
An integrative multi-omics approach reveals new central nervous system pathway alterations in Alzheimer's disease. PMID:33794997
predPhogly-Site: Predicting phosphoglycerylation sites by incorporating probabilistic sequence-coupling information into PseAAC and addressing data imbalance. PMID:33793659
Building blocks and blueprints for bacterial autolysins. PMID:33793553
Dooming Phagocyte Responses: Inflammatory Effects of Endogenous Oxidized Phospholipids. PMID:33790857
OMAmer: tree-driven and alignment-free protein assignment to subfamilies outperforms closest sequence approaches. PMID:33787851
AMPGAN v2: Machine Learning-Guided Design of Antimicrobial Peptides. PMID:33787250
A protocol combining breath testing and ex vivo fermentations to study the human gut microbiome. PMID:33786457
The human virome: assembly, composition and host interactions. PMID:33785903
Demographic History, Adaptation, and NRAP Convergent Evolution at Amino Acid Residue 100 in the World Northernmost Cattle from Siberia. PMID:33784744
Genome-wide RNAi screen for regulators of UPRmt in Caenorhabditis elegans mutants with defects in mitochondrial fusion. PMID:33784383
Uncovering a novel function of the CCR4-NOT complex in phytochrome A-mediated light signalling in plants. PMID:33783355
MCPdb: The bacterial microcompartment database. PMID:33780471
Balancing Data on Deep Learning-Based Proteochemometric Activity Classification. PMID:33779173
CUTie2: The Attack of the Cyclic Nucleotide Sensor Clones. PMID:33778003
Influence of Disease-Causing Mutations on Protein Structural Networks. PMID:33778000
Dystonia and Contractures are Potential Early Signs of CACNA1E-Related Epileptic Encephalopathy. PMID:33776624
In-silico screening for identification of potential inhibitors against SARS-CoV-2 transmembrane serine protease 2 (TMPRSS2). PMID:33775827
Conflicting and ambiguous names of overlapping ORFs in the SARS-CoV-2 genome: A homology-based resolution. PMID:33774510
Proteomics characterization of mitochondrial-derived vesicles under oxidative stress. PMID:33769614
Structural and Drug Screening Analysis of the Non-structural Proteins of Severe Acute Respiratory Syndrome Coronavirus 2 Virus Extracted From Indian Coronavirus Disease 2019 Patients. PMID:33767730
Ultra-fast proteomics with Scanning SWATH. PMID:33767396
Comparative proteomic profiling of newly acquired, virulent and attenuated Neoparamoeba perurans proteins associated with amoebic gill disease. PMID:33767232
Functional analysis of SARS-CoV-2 proteins in Drosophila identifies Orf6-induced pathogenic effects with Selinexor as an effective treatment. PMID:33766136
Characterization of SARS-CoV-2 proteins reveals Orf6 pathogenicity, subcellular localization, host interactions and attenuation by Selinexor. PMID:33766124
Transcriptional profiling of identified neurons in leech. PMID:33765928
Evolutionary Constraint on Visual and Nonvisual Mammalian Opsins. PMID:33765865
Whole-genome analysis of probiotic product isolates reveals the presence of genes related to antimicrobial resistance, virulence factors, and toxic metabolites, posing potential health risks. PMID:33761872
Microglial identity and inflammatory responses are controlled by the combined effects of neurons and astrocytes. PMID:33761343
SH3BP4 promotes neuropilin-1 and α5-integrin endocytosis and is inhibited by Akt. PMID:33761321
Viscoelastic properties of wheat gluten in a molecular dynamics study. PMID:33760823
Integrated Redox Proteomic Analysis Highlights New Mechanisms of Sensitivity to Silver Nanoparticles. PMID:33757833
TALE: Transformer-based protein function Annotation with joint sequence-Label Embedding. PMID:33755048
Corneal proteome and differentially expressed corneal proteins in highly myopic chicks using a label-free SWATH-MS quantification approach. PMID:33750851
A first insight into the genome of Prototheca wickerhamii, a major causative agent of human protothecosis. PMID:33750287
Integrated intra- and intercellular signaling knowledge for multicellular omics analysis. PMID:33749993
A small molecule compound berberine as an orally active therapeutic candidate against COVID-19 and SARS: A computational and mechanistic study. PMID:33749932
Lack of Molecular Mimicry between Nonhuman Primates and Infectious Pathogens: The Possible Genetic Bases. PMID:33748822
The Molecular Basis of Kale Domestication: Transcriptional Profiling of Developing Leaves Provides New Insights Into the Evolution of a Brassica oleracea Vegetative Morphotype. PMID:33747016
Introducing the ArsR-Regulated Arsenic Stimulon. PMID:33746923
Molecular Docking Reveals Ivermectin and Remdesivir as Potential Repurposed Drugs Against SARS-CoV-2. PMID:33746908
Elucidation of the Mechanism of Action of Ginseng Against Acute Lung Injury/Acute Respiratory Distress Syndrome by a Network Pharmacology-Based Strategy. PMID:33746744
RNA-seq analysis and gene expression dynamics in the salivary glands of the argasid tick Ornithodoros erraticus along the trophogonic cycle. PMID:33743776
A DNA repair disorder caused by de novo monoallelic DDB1 variants is associated with a neurodevelopmental syndrome. PMID:33743206
Curvature sensing amphipathic helix in the C-terminus of RTNLB13 is conserved in all endoplasmic reticulum shaping reticulons in Arabidopsis thaliana. PMID:33737685
Proteomic blood profiling in mild, severe and critical COVID-19 patients. PMID:33737684
Genome Sequence of Clostridium sp. Strain P21, a CO-Fermenting Acetogen Isolated from Old Hay. PMID:33737364
Fast and sensitive taxonomic assignment to metagenomic contigs. PMID:33734313
Host restriction, pathogenesis and chronic carriage of typhoidal Salmonella. PMID:33733659
Functional domain studies uncover novel roles for the ZTL Kelch repeat domain in clock function. PMID:33730063
Molecular storytelling for online structural biology outreach and education. PMID:33728361
Detection of horizontal gene transfer in the genome of the choanoflagellate Salpingoeca rosetta. PMID:33727612
Genome-scale model reconstruction of the methylotrophic yeast Ogataea polymorpha. PMID:33722219
Alternatively Splicing Interactomes Identify Novel Isoform-Specific Partners for NSD2. PMID:33718354
Prediction of lncRNA-Protein Interactions via the Multiple Information Integration. PMID:33718346
Comprehensive Quantitative Proteome Analysis of Aedes aegypti Identifies Proteins and Pathways Involved in Wolbachia pipientis and Zika Virus Interference Phenomenon. PMID:33716790
A multi-omic characterization of temperature stress in a halotolerant Scenedesmus strain for algal biotechnology. PMID:33712730
Protein context shapes the specificity of SH3 domain-mediated interactions in vivo. PMID:33712617
Novel and Transgressive Salinity Tolerance in Recombinant Inbred Lines of Rice Created by Physiological Coupling-Uncoupling and Network Rewiring Effects. PMID:33708229
Significant non-existence of sequences in genomes and proteomes. PMID:33693858
Personalized Profiling Reveals Donor- and Lactation-Specific Trends in the Human Milk Proteome and Peptidome. PMID:33693758
Predicted Input of Uncultured Fungal Symbionts to a Lichen Symbiosis from Metagenome-Assembled Genomes. PMID:33693712
Polystyrene Topography Sticker Array for Cell-Based Assays. PMID:33693439
Inferring the number and position of changes in selective regime in a non-equilibrium mutation-selection framework. PMID:33691618
Global analysis of shared T cell specificities in human non-small cell lung cancer enables HLA inference and antigen discovery. PMID:33691136
Systematic analysis of SARS-CoV-2 infection of an ACE2-negative human airway cell. PMID:33688646
Proteome Regulation Patterns Determine Escherichia coli Wild-Type and Mutant Phenotypes. PMID:33688016
High genomic diversity of novel phages infecting the plant pathogen Ralstonia solanacearum, isolated in Mauritius and Reunion islands. PMID:33686106
Biological Phase Separation and Biomolecular Condensates in Plants. PMID:33684296
DeepViral: prediction of novel virus-host interactions from protein sequences and infectious disease phenotypes. PMID:33682875
Melanoma-associated glycosyltransferase GCNT2 as an emerging biomarker and therapeutic target. PMID:33660254
Generation and Testing of Fluorescent Adaptable Simple Theranostic (FAST) Proteins. PMID:33659348
A novel family of secreted insect proteins linked to plant gall development. PMID:33657407
TMSNP: a web server to predict pathogenesis of missense mutations in the transmembrane region of membrane proteins. PMID:33655207
A comparative study of protein-ssDNA interactions. PMID:33655206
Sputum Proteome Signatures of Mechanically Ventilated Intensive Care Unit Patients Distinguish Samples with or without Anti-pneumococcal Activity. PMID:33653939
Massively parallel gene expression variation measurement of a synonymous codon library. PMID:33653272
Identification of Potential HCV Inhibitors Based on the Interaction of Epigallocatechin-3-Gallate with Viral Envelope Proteins. PMID:33652639
The Interplay of Cholesterol and Ligand Binding in hTSPO from Classical Molecular Dynamics Simulations. PMID:33652554
Biological impact of mutually exclusive exon switching. PMID:33651795
Dual DNA and protein tagging of open chromatin unveils dynamics of epigenomic landscapes in leukemia. PMID:33649590
Genome-wide shifts in climate-related variation underpin responses to selective breeding in a widespread conifer. PMID:33649218
Methylacidimicrobium thermophilum AP8, a Novel Methane- and Hydrogen-Oxidizing Bacterium Isolated From Volcanic Soil on Pantelleria Island, Italy. PMID:33643272
Structural characterization of the self-association domain of swallow. PMID:33641207
CiliOPD: a ciliopathy-associated COPD endotype. PMID:33639936
Investigating BB0405 as a novel Borrelia afzelii vaccination candidate in Lyme borreliosis. PMID:33637813
Defects in the cytoplasmic assembly of axonemal dynein arms cause morphological abnormalities and dysmotility in sperm cells leading to male infertility. PMID:33635866
A model for pH coupling of the SARS-CoV-2 spike protein open/closed equilibrium. PMID:33634309
Identification of Vibrio parahaemolyticus and Vibrio spp. Specific Outer Membrane Proteins by Reverse Vaccinology and Surface Proteome. PMID:33633699
Long chain acyl CoA synthetase 4 catalyzes the first step in peroxisomal indole-3-butyric acid to IAA conversion. PMID:33631795
Formation and characterization of biofilms formed by salt-tolerant yeast strains in seawater-based growth medium. PMID:33630153
Recent Advances in Predicting Protein S-Nitrosylation Sites. PMID:33628788
Glycine acylation and trafficking of a new class of bacterial lipoprotein by a composite secretion system. PMID:33625358
A multivalent T-antigen-based vaccine for Group A Streptococcus. PMID:33623073
Detection of Epithelial Cell Adhesion Molecule in Feline Normal and Tumor Cell Lines and Tissues With Selected Commercial Anti-human EpCAM Antibodies. PMID:33614766
Characterization and complete genome sequence of Privateer, a highly prolate Proteus mirabilis podophage. PMID:33614267
Skin Multi-Omics-Based Interactome Analysis: Integrating the Tissue and Mucus Exuded Layer for a Comprehensive Understanding of the Teleost Mucosa Functionality as Model of Study. PMID:33613538
Circadian time series proteomics reveals daily dynamics in cartilage physiology. PMID:33610821
Data set of competitive and allosteric protein kinase inhibitors confirmed by X-ray crystallography. PMID:33604432
BLVector: Fast BLAST-Like Algorithm for Manycore CPU With Vectorization. PMID:33603776
Enrichment analyses of diseases and pathways associated with precocious puberty using PrecocityDB. PMID:33602974
Draft Genome Sequences of Pelagimyophage Mosig EXVC030M and Pelagipodophage Lederberg EXVC029P, Isolated from Devil's Hole, Bermuda. PMID:33602731
Comparative transcriptomics of spotted seatrout (Cynoscion nebulosus) populations to cold and heat stress. PMID:33598136
Comprehensive Succinylome Profiling Reveals the Pivotal Role of Lysine Succinylation in Energy Metabolism and Quorum Sensing of Staphylococcus epidermidis. PMID:33597936
PathoFact: a pipeline for the prediction of virulence factors and antimicrobial resistance genes in metagenomic data. PMID:33597026
Limited effects of long-term daily cranberry consumption on the gut microbiome in a placebo-controlled study of women with recurrent urinary tract infections. PMID:33596852
The analysis on the human protein domain targets and host-like interacting motifs for the MERS-CoV and SARS-CoV/CoV-2 infers the molecular mimicry of coronavirus. PMID:33596252
mokapot: Fast and Flexible Semisupervised Learning for Peptide Detection. PMID:33596079
Divergence in alternative polyadenylation contributes to gene regulatory differences between humans and chimpanzees. PMID:33595436
Pathogenesis, Symptomatology, and Transmission of SARS-CoV-2 through analysis of Viral Genomics and Structure. PMID:33594340
Experimentally Validated Reconstruction and Analysis of a Genome-Scale Metabolic Model of an Anaerobic Neocallimastigomycota Fungus. PMID:33594000
Nybomycin inhibits both types of E. coli DNA gyrase - fluoroquinolone-sensitive and fluoroquinolone-resistant. PMID:33593838
Epitope mimicry analysis of SARS-COV-2 surface proteins and human lung proteins. PMID:33588349
High Quality Aspergillus aculeatus Genomes and Transcriptomes: A Platform for Cellulase Activity Optimization Toward Industrial Applications. PMID:33585410
The CLAIRE COVID-19 initiative: approach, experiences and recommendations. PMID:33584129
Protein Phosphorylation in Depolarized Synaptosomes: Dissecting Primary Effects of Calcium from Synaptic Vesicle Cycling. PMID:33582301
Effects of pH on an IDP conformational ensemble explored by molecular dynamics simulation. PMID:33581430
Mitovesicles are a novel population of extracellular vesicles of mitochondrial origin altered in Down syndrome. PMID:33579698
The leucine zipper EF-hand containing transmembrane protein-1 EF-hand is a tripartite calcium, temperature, and pH sensor. PMID:33576522
TOUCAN: a framework for fungal biosynthetic gene cluster discovery. PMID:33575642
On the prediction of DNA-binding preferences of C2H2-ZF domains using structural models: application on human CTCF. PMID:33575598
Diversity and evolution of bacterial bioluminescence genes in the global ocean. PMID:33575578
Chromosome-scale genome assembly of the sea louse Caligus rogercresseyi by SMRT sequencing and Hi-C analysis. PMID:33574331
ELIHKSIR Web Server: Evolutionary Links Inferred for Histidine Kinase Sensors Interacting with Response Regulators. PMID:33573110
Proposal of the Annotation of Phosphorylated Amino Acids and Peptides Using Biological and Chemical Codes. PMID:33573096
Effect of An 84-bp Deletion of the Receptor-Binding Domain on the ACE2 Binding Affinity of the SARS-CoV-2 Spike Protein: An In Silico Analysis. PMID:33572725
The Role of Low Complexity Regions in Protein Interaction Modes: An Illustration in Huntingtin. PMID:33572172
HCN Channel Phosphorylation Sites Mapped by Mass Spectrometry in Human Epilepsy Patients and in an Animal Model of Temporal Lobe Epilepsy. PMID:33571596
Genetic determinants of daytime napping and effects on cardiometabolic health. PMID:33568662
Transcription Profiles Associated with Inducible Adhesion in Candida parapsilosis. PMID:33568454
Phylogenomics Identifies a New Major Subgroup of Apicomplexans, Marosporida class nov., with Extreme Apicoplast Genome Reduction. PMID:33566096
CXCR7 ameliorates myocardial infarction as a β-arrestin-biased receptor. PMID:33564089
Describing variability in pig genes involved in coronavirus infections for a One Health perspective in conservation of animal genetic resources. PMID:33564056
The methyltransferase METTL9 mediates pervasive 1-methylhistidine modification in mammalian proteomes. PMID:33563959
A Grad-seq View of RNA and Protein Complexes in Pseudomonas aeruginosa under Standard and Bacteriophage Predation Conditions. PMID:33563827
Modular Reorganization of Signaling Networks during the Development of Colon Adenoma and Carcinoma. PMID:33562960
Whole Exome Sequencing Reveals a Novel AUTS2 In-Frame Deletion in a Boy with Global Developmental Delay, Absent Speech, Dysmorphic Features, and Cerebral Anomalies. PMID:33562463
A high-quality genome assembly and annotation of the gray mangrove, Avicennia marina. PMID:33561229
Cryo-EM structures of human RNA polymerase III in its unbound and transcribing states. PMID:33558764
Mechanisms of Congenital Heart Disease Caused by NAA15 Haploinsufficiency. PMID:33557580
Role of Pirin, an Oxidative Stress Sensor Protein, in Epithelial Carcinogenesis. PMID:33557375
KinPred: A unified and sustainable approach for harnessing proteome-level human kinase-substrate predictions. PMID:33556051
Understanding protein structural changes for oncogenic missense variants. PMID:33553733
Mitochondrial Enzymes of the Urea Cycle Cluster at the Inner Mitochondrial Membrane. PMID:33551825
Beyond history and "on a roll": The list of the most well-studied human protein structures and overall trends in the protein data bank. PMID:33550681
Distinct clonal lineages and within-host diversification shape invasive Staphylococcus epidermidis populations. PMID:33544760
Sialotranscriptomics of the argasid tick Ornithodoros moubata along the trophogonic cycle. PMID:33544727
Draft Genome Sequences of 27 Northern Maine Clinical Isolates. PMID:33541879
The PSY Peptide Family-Expression, Modification and Physiological Implications. PMID:33540946
Does C-C Motif Chemokine Ligand 2 (CCL2) Link Obesity to a Pro-Inflammatory State? PMID:33540898
Identification of a Five-Gene Prognostic Model and Its Potential Drug Repurposing in Colorectal Cancer Based on TCGA, GTEx and GEO Databases. PMID:33537062
Angiomotin Counteracts the Negative Regulatory Effect of Host WWOX on Viral PPxY-Mediated Egress. PMID:33536174
The In Silico Identification of Potential Members of the Ded1/DDX3 Subfamily of DEAD-Box RNA Helicases from the Protozoan Parasite Leishmania infantum and Their Analyses in Yeast. PMID:33535521
Whole-genome characterization of lung adenocarcinomas lacking the RTK/RAS/RAF pathway. PMID:33535033
Genetic analysis of 39 erythrocytosis and hereditary hemochromatosis-associated genes in the Slovenian family with idiopathic erythrocytosis. PMID:33534944
ViralLink: An integrated workflow to investigate the effect of SARS-CoV-2 on intracellular signalling and regulatory pathways. PMID:33534793
Four families of folate-independent methionine synthases. PMID:33534785
Human MiniPromoters for ocular-rAAV expression in ON bipolar, cone, corneal, endothelial, Müller glial, and PAX6 cells. PMID:33531684
SPACEPro: A Software Tool for Analysis of Protein Sample Cleavage for Tandem Mass Spectrometry. PMID:33529024
Genetic variants of small airways and interstitial pulmonary disease in children. PMID:33526882
Palmitoylation Controls NMDA Receptor Function and Steroid Sensitivity. PMID:33526476
A Conserved Motif in Intracellular Loop 1 Stabilizes the Outward-Facing Conformation of TmrAB. PMID:33524413
Overlap of NatA and IAP substrates implicates N-terminal acetylation in protein stabilization. PMID:33523899
S100A8/S100A9 cytokine acts as a transcriptional coactivator during breast cellular transformation. PMID:33523865
Targeted brachyury degradation disrupts a highly specific autoregulatory program controlling chordoma cell identity. PMID:33521702
From fuzziness to precision medicine: on the rapidly evolving proteomics with implications in mitochondrial connectivity to rare human disease. PMID:33521598
Adaptation of a Microfluidic qPCR System for Enzyme Kinetic Studies. PMID:33521438
Analysis of Human Faecal Host Proteins: Responsiveness to 10-Week Dietary Intervention Modifying Dietary Protein Intake in Elderly Males. PMID:33521034
Tumor-intrinsic and -extrinsic (immune) gene signatures robustly predict overall survival and treatment response in high grade serous ovarian cancer patients. PMID:33520368
AtxA-Controlled Small RNAs of Bacillus anthracis Virulence Plasmid pXO1 Regulate Gene Expression in trans. PMID:33519762
Computational resources for identifying and describing proteins driving liquid-liquid phase separation. PMID:33517364
SRGAP1 Controls Small Rho GTPases To Regulate Podocyte Foot Process Maintenance. PMID:33514561
My personal mutanome: a computational genomic medicine platform for searching network perturbing alleles linking genotype to phenotype. PMID:33514395
HIF1A: A Putative Modifier of Hemochromatosis. PMID:33513852
Identifying virulence determinants of multidrug-resistant Klebsiella pneumoniae in Galleria mellonella. PMID:33512418
Selective Inhibition of 2-Oxoglutarate and 2-Oxoadipate Dehydrogenases by the Phosphonate Analogs of Their 2-Oxo Acid Substrates. PMID:33511099
Personalized logical models to investigate cancer response to BRAF treatments in melanomas and colorectal cancers. PMID:33507915
InSexBase: an annotated genomic resource of sex chromosomes and sex-biased genes in insects. PMID:33507270
Structural similarity-based prediction of host factors associated with SARS-CoV-2 infection and pathogenesis. PMID:33506741
Genomic mechanisms of climate adaptation in polyploid bioenergy switchgrass. PMID:33505029
Identification of 37 Heterogeneous Drug Candidates for Treatment of COVID-19 via a Rational Transcriptomics-Based Drug Repurposing Approach. PMID:33504008
The Role of PKM2 in Metabolic Reprogramming: Insights into the Regulatory Roles of Non-Coding RNAs. PMID:33503959
Missense3D-DB web catalogue: an atom-based analysis and repository of 4M human protein-coding genetic variants. PMID:33502607
Genomics Reveals the Origins of Historical Specimens. PMID:33502509
Subcellular relocalization and nuclear redistribution of the RNA methyltransferases TRMT1 and TRMT1L upon neuronal activation. PMID:33499731
The Structural Properties of Odorants Modulate Their Association to Human Odorant Binding Protein. PMID:33499295
Identification of Sortilin Alternatively Spliced Variants in Mouse 3T3L1 Adipocytes. PMID:33498179
ExonSkipAD provides the functional genomic landscape of exon skipping events in Alzheimer's disease. PMID:33497435
A network pharmacology perspective for deciphering potential mechanisms of action of Solanum nigrum L. in bladder cancer. PMID:33494738
Overproduction of Human Zip (SLC39) Zinc Transporters in Saccharomyces cerevisiae for Biophysical Characterization. PMID:33494457
Identification of Lead Compounds against Scm (fms10) in Enterococcus faecium Using Computer Aided Drug Designing. PMID:33494233
Posttranslational Modifications: Regulation of Nitrogen Utilization and Signaling. PMID:33493288
In-depth and 3-dimensional exploration of the budding yeast phosphoproteome. PMID:33491328
Computing Cellulase Kinetics with a Two-Domain Linear Interaction Energy Approach. PMID:33490814
Network Pharmacology Analysis of the Therapeutic Mechanisms Underlying Beimu-Gualou Formula Activity against Bronchiectasis with In Silico Molecular Docking Validation. PMID:33488758
The Hunt for Ancient Prions: Archaeal Prion-Like Domains Form Amyloid-Based Epigenetic Elements. PMID:33480998
Biomolecular condensation of NUP98 fusion proteins drives leukemogenic gene expression. PMID:33479542
Analysis of ovarian transcriptomes reveals thousands of novel genes in the insect vector Rhodnius prolixus. PMID:33479356
Dosage-sensitive functions in embryonic development drove the survival of genes on sex-specific chromosomes in snakes, birds, and mammals. PMID:33479023
Mechanistic modeling of the SARS-CoV-2 disease map. PMID:33478554
De Novo Profiling of Long Non-Coding RNAs Involved in MC-LR-Induced Liver Injury in Whitefish: Discovery and Perspectives. PMID:33477898
Systematic Identification of Protein Phosphorylation-Mediated Interactions. PMID:33476154
Homology modeling and molecular docking simulation of some novel imidazo[1,2-a]pyridine-3-carboxamide (IPA) series as inhibitors of Mycobacterium tuberculosis. PMID:33474593
Cellinker: a platform of ligand-receptor interactions for intercellular communication analysis. PMID:33471060
Synthetic Siglec-9 Agonists Inhibit Neutrophil Activation Associated with COVID-19. PMID:33469569
Potential biomarkers of childhood brain tumor identified by proteomics of cerebrospinal fluid from extraventricular drainage (EVD). PMID:33469081
A platform for curated products from novel open reading frames prompts reinterpretation of disease variants. PMID:33468550
Prediction and analysis of metagenomic operons via MetaRon: a pipeline for prediction of Metagenome and whole-genome opeRons. PMID:33468056
Extensive hybridization reveals multiple coloration genes underlying a complex plumage phenotype. PMID:33468000
Neuronal Dopamine D3 Receptors: Translational Implications for Preclinical Research and CNS Disorders. PMID:33466844
JAK3 Is Expressed in the Nucleus of Malignant T Cells in Cutaneous T Cell Lymphoma (CTCL). PMID:33466582
Rosetta design with co-evolutionary information retains protein function. PMID:33465067
A novel terpene synthase controls differences in anti-aphrodisiac pheromone production between closely related Heliconius butterflies. PMID:33465061
Anomalous Phylogenetic Behavior of Ribosomal Proteins in Metagenome-Assembled Asgard Archaea. PMID:33462601
Giant lungfish genome elucidates the conquest of land by vertebrates. PMID:33461212
The rapidly evolving view of lysosomal storage diseases. PMID:33459519
Post-translational control of the long and winding road to cholesterol. PMID:33453997
Aethionema arabicum genome annotation using PacBio full-length transcripts provides a valuable resource for seed dormancy and Brassicaceae evolution research. PMID:33453123
Exploring the treatment of COVID-19 with Yinqiao powder based on network pharmacology. PMID:33452734
Comprehensive computational target fishing approach to identify Xanthorrhizol putative targets. PMID:33452398
Early infection-induced natural antibody response. PMID:33452341
Parasite Presence Induces Gene Expression Changes in an Ant Host Related to Immunity and Longevity. PMID:33451085
Babesia Bovis Ligand-Receptor Interaction: AMA-1 Contains Small Regions Governing Bovine Erythrocyte Binding. PMID:33450807
Proteome dynamics at broken replication forks reveal a distinct ATM-directed repair response suppressing DNA double-strand break ubiquitination. PMID:33450211
Identification of a conserved N-terminal domain in the first module of ACV synthetases. PMID:33449449
Plasma Proteomes Can Be Reidentifiable and Potentially Contain Personally Sensitive and Incidental Findings. PMID:33444735
Exploring the selenium-over-sulfur substrate specificity and kinetics of a bacterial selenocysteine lyase. PMID:33444662
Embeddings from deep learning transfer GO annotations beyond homology. PMID:33441905
A Novel N4-Like Bacteriophage Isolated from a Wastewater Source in South India with Activity against Several Multidrug-Resistant Clinical Pseudomonas aeruginosa Isolates. PMID:33441405
Cerebrospinal fluid metabolomics identifies 19 brain-related phenotype associations. PMID:33437055
Longitudinal saliva omics responses to immune perturbation: a case study. PMID:33436912
Short linear motif candidates in the cell entry system used by SARS-CoV-2 and their potential therapeutic implications. PMID:33436497
An ensemble learning approach for modeling the systems biology of drug-induced injury. PMID:33435983
Evolution and diversification of the nuclear envelope. PMID:33435791
Transcriptomic Analysis of Respiratory Tissue and Cell Line Models to Examine Glycosylation Machinery during SARS-CoV-2 Infection. PMID:33435561
Structural Insights into Ankyrin Repeat-Containing Proteins and Their Influence in Ubiquitylation. PMID:33435370
Transposable Elements and Teleost Migratory Behaviour. PMID:33435333
Molecular and Structural Evolution of Cytochrome P450 Aromatase. PMID:33435208
One molecular fingerprint to rule them all: drugs, biomolecules, and the metabolome. PMID:33431010
Role of Transportome in the Gills of Chinese Mitten Crabs in Response to Salinity Change: A Meta-Analysis of RNA-Seq Datasets. PMID:33430106
Cartilage Targets of Knee Osteoarthritis Shared by Both Genders. PMID:33430025
Recombinant antibody against Trypanosoma cruzi from patients with chronic Chagas heart disease recognizes mammalian nervous system. PMID:33429173
Visualizing the superfamily of metallo-β-lactamases through sequence similarity network neighborhood connectivity analysis. PMID:33426353
Exploring the Antitumor Mechanisms of Zingiberis Rhizoma Combined with Coptidis Rhizoma Using a Network Pharmacology Approach. PMID:33426081
Dinoflagellate Host Chloroplasts and Mitochondria Remain Functional During Amoebophrya Infection. PMID:33424803
Saccharibacteria as Organic Carbon Sinks in Hydrocarbon-Fueled Communities. PMID:33424787
Octenidine-based hydrogel shows anti-inflammatory and protease-inhibitory capacities in wounded human skin. PMID:33420112
Genome Sequences of Serratia Strains Revealed Common Genes in Both Serratomolides Gene Clusters. PMID:33419369
MicroPhenoDB Associates Metagenomic Data with Pathogenic Microbes, Microbial Core Genes, and Human Disease Phenotypes. PMID:33418085
The iPPI-DB initiative: A Community-centered database of Protein-Protein Interaction modulators. PMID:33416858
SARS-CoV-2 3D database: understanding the coronavirus proteome and evaluating possible drug targets. PMID:33416848
H2V: a database of human genes and proteins that respond to SARS-CoV-2, SARS-CoV, and MERS-CoV infection. PMID:33413085
Evaluation of the potential of Pap test fluid and cervical swabs to serve as clinical diagnostic biospecimens for the detection of ovarian cancer by mass spectrometry-based proteomics. PMID:33413078
Platypus and echidna genomes reveal mammalian biology and evolution. PMID:33408411
Opinion: Standardizing gene product nomenclature-a call to action. PMID:33408252
Rapid protein evolution, organellar reductions, and invasive intronic elements in the marine aerobic parasite dinoflagellate Amoebophrya spp. PMID:33407428
MicrobeAnnotator: a user-friendly, comprehensive functional annotation pipeline for microbial genomes. PMID:33407081
Limited Proteolysis-Coupled Mass Spectrometry Identifies Phosphatidylinositol 4,5-Bisphosphate Effectors in Human Nuclear Proteome. PMID:33406800
A pan-cancer atlas of somatic mutations in miRNA biogenesis genes. PMID:33406242
Bioinformatics Analysis of Key Genes and Pathways of Cervical Cancer. PMID:33402836
The Campylobacter jejuni chemoreceptor Tlp10 has a bimodal ligand-binding domain and specificity for multiple classes of chemoeffectors. PMID:33402336
Disome-seq reveals widespread ribosome collisions that promote cotranslational protein folding. PMID:33402206
Norwegian Soils and Waters Contain Mesophilic, Plastic-Degrading Bacteria. PMID:33401570
Identification and Characterization of Plant-Interacting Targets of Tomato Spotted Wilt Virus Silencing Suppressor. PMID:33401462
TGFBR3L-An Uncharacterised Pituitary Specific Membrane Protein Detected in the Gonadotroph Cells in Non-Neoplastic and Tumour Tissue. PMID:33396509
PhyloGenes: An online phylogenetics and functional genomics resource for plant gene function inference. PMID:33392435
Evaluating Protein Transfer Learning with TAPE. PMID:33390682
A Fifth of the Protein World: Rossmann-like Proteins as an Evolutionarily Successful Structural unit. PMID:33387532
Network machine learning maps phytochemically rich "Hyperfoods" to fight COVID-19. PMID:33386081
Three Decades of Advances in Arabinogalactan-Protein Biosynthesis. PMID:33384708
SARS-CoV-2 3D database: understanding the coronavirus proteome and evaluating possible drug targets. PMID:33416848
H2V: a database of human genes and proteins that respond to SARS-CoV-2, SARS-CoV, and MERS-CoV infection. PMID:33413085
Evaluation of the potential of Pap test fluid and cervical swabs to serve as clinical diagnostic biospecimens for the detection of ovarian cancer by mass spectrometry-based proteomics. PMID:33413078
Platypus and echidna genomes reveal mammalian biology and evolution. PMID:33408411
Opinion: Standardizing gene product nomenclature-a call to action. PMID:33408252
Rapid protein evolution, organellar reductions, and invasive intronic elements in the marine aerobic parasite dinoflagellate Amoebophrya spp. PMID:33407428
MicrobeAnnotator: a user-friendly, comprehensive functional annotation pipeline for microbial genomes. PMID:33407081
Limited Proteolysis-Coupled Mass Spectrometry Identifies Phosphatidylinositol 4,5-Bisphosphate Effectors in Human Nuclear Proteome. PMID:33406800
A pan-cancer atlas of somatic mutations in miRNA biogenesis genes. PMID:33406242
Bioinformatics Analysis of Key Genes and Pathways of Cervical Cancer. PMID:33402836
The Campylobacter jejuni chemoreceptor Tlp10 has a bimodal ligand-binding domain and specificity for multiple classes of chemoeffectors. PMID:33402336
Disome-seq reveals widespread ribosome collisions that promote cotranslational protein folding. PMID:33402206
Norwegian Soils and Waters Contain Mesophilic, Plastic-Degrading Bacteria. PMID:33401570
Identification and Characterization of Plant-Interacting Targets of Tomato Spotted Wilt Virus Silencing Suppressor. PMID:33401462
TGFBR3L-An Uncharacterised Pituitary Specific Membrane Protein Detected in the Gonadotroph Cells in Non-Neoplastic and Tumour Tissue. PMID:33396509
PhyloGenes: An online phylogenetics and functional genomics resource for plant gene function inference. PMID:33392435
Evaluating Protein Transfer Learning with TAPE. PMID:33390682
A Fifth of the Protein World: Rossmann-like Proteins as an Evolutionarily Successful Structural unit. PMID:33387532
Network machine learning maps phytochemically rich "Hyperfoods" to fight COVID-19. PMID:33386081
Three Decades of Advances in Arabinogalactan-Protein Biosynthesis. PMID:33384708
Interactions between nascent proteins translated by adjacent ribosomes drive homomer assembly. PMID:33384371
The Interactome of Cancer-Related Lysyl Oxidase and Lysyl Oxidase-Like Proteins. PMID:33383846
SeMPI 2.0-A Web Server for PKS and NRPS Predictions Combined with Metabolite Screening in Natural Product Databases. PMID:33383692
A target-mediated drug disposition population pharmacokinetic model of GC1118, a novel anti-EGFR antibody, in patients with solid tumors. PMID:33382918
A Multi-Pronged Computational Pipeline for Prioritizing Drug Target Strategies for Latent Tuberculosis. PMID:33381491
The Underlying Mechanism of Paeonia lactiflora Pall. in Parkinson's Disease Based on a Network Pharmacology Approach. PMID:33381034
The status of causality in biological databases: data resources and data retrieval possibilities to support logical modeling. PMID:33378765
Inducible Stem-Cell-Derived Embryos Capture Mouse Morphogenetic Events In Vitro. PMID:33378662
Comparative Transcriptomics Identifies Neuronal and Metabolic Adaptations to Hypergravity and Microgravity in Caenorhabditis elegans. PMID:33376968
Formation of Biomolecular Condensates in Bacteria by Tuning Protein Electrostatics. PMID:33376791
Comparative Proteomics of Marinobacter sp. TT1 Reveals Corexit Impacts on Hydrocarbon Metabolism, Chemotactic Motility, and Biofilm Formation. PMID:33374976
Larvicidal Activity of Cinnamic Acid Derivatives: Investigating Alternative Products for Aedes aegypti L. Control. PMID:33374484
In Silico and In Vitro Analysis of Major Cannabis-Derived Compounds as Fatty Acid Amide Hydrolase Inhibitors. PMID:33374180
DeepTFactor: A deep learning-based tool for the prediction of transcription factors. PMID:33372147
Computational Analysis of African Swine Fever Virus Protein Space for the Design of an Epitope-Based Vaccine Ensemble. PMID:33371523
Genome-wide association analysis of Russian wheat aphid (Diuraphis noxia) resistance in Dn4 derived wheat lines evaluated in South Africa. PMID:33370360
UniBioDicts: Unified access to biological dictionaries. PMID:33367853
Identification of Sub-Golgi protein localization by use of deep representation learning features. PMID:33367627
Virxicon: A Lexicon Of Viral Sequences. PMID:33367605
An Educational Bioinformatics Project to Improve Genome Annotation. PMID:33365016
Heterogeneity in combined immunodeficiencies with associated or syndromic features (Review). PMID:33363595
Expression, Purification and Initial Characterization of Functional α1-Microglobulin (A1M) in Nicotiana benthamiana. PMID:33363557
Acadesine suppresses TNF-α induced complement component 3 (C3), in retinal pigment epithelial (RPE) cells. PMID:33362238
The Two-Component System CopRS Maintains Subfemtomolar Levels of Free Copper in the Periplasm of Pseudomonas aeruginosa Using a Phosphatase-Based Mechanism. PMID:33361129
Genome and time-of-day transcriptome of Wolffia australiana link morphological minimization with gene loss and less growth control. PMID:33361111
Design and in silico study of the novel coumarin derivatives against SARS-CoV-2 main enzymes. PMID:33357038
The involvement of the Candida glabrata trehalase enzymes in stress resistance and gut colonization. PMID:33356857
Generation of an Interactome for the Tetratricopeptide Repeat Domain of O-GlcNAc Transferase Indicates a Role for the Enzyme in Intellectual Disability. PMID:33356293
Intraspecies plasmid and genomic variation of Mycobacterium kubicae revealed by the complete genome sequences of two clinical isolates. PMID:33355531
BUB-1 targets PP2A:B56 to regulate chromosome congression during meiosis I in C. elegans oocytes. PMID:33355089
Mal-Light: Enhancing Lysine Malonylation Sites Prediction Problem Using Evolutionary-based Features. PMID:33354488
The complexity of co-limitation: nutrigenomics reveal non-additive interactions of calcium and phosphorus on gene expression in Daphnia pulex. PMID:33352081
Novel perspectives of target-binding by the evolutionarily conserved PP4 phosphatase. PMID:33352067
hnRNPLL controls pluripotency exit of embryonic stem cells by modulating alternative splicing of Tbx3 and Bptf. PMID:33349972
The impact of structural bioinformatics tools and resources on SARS-CoV-2 research and therapeutic strategies. PMID:33348379
Multi-omics data integration considerations and study design for biological systems and disease. PMID:33347526
Phospho-islands and the evolution of phosphorylated amino acids in mammals. PMID:33344082
Does tetanus vaccination contribute to reduced severity of the COVID-19 infection? PMID:33341328
Insights into gene expression changes under conditions that facilitate horizontal gene transfer (mating) of a model archaeon. PMID:33339886
S-adenosyl-l-homocysteine Hydrolase: A Structural Perspective on the Enzyme with Two Rossmann-Fold Domains. PMID:33339190
Investigation of Genetic Variations of IL6 and IL6R as Potential Prognostic and Pharmacogenetics Biomarkers: Implications for COVID-19 and Neuroinflammatory Disorders. PMID:33339153
RBM-MHC: A Semi-Supervised Machine-Learning Method for Sample-Specific Prediction of Antigen Presentation by HLA-I Alleles. PMID:33338400
Deep Learning in Protein Structural Modeling and Design. PMID:33336200
Antibody profiling of patients with prostate cancer reveals differences in antibody signatures among disease stages. PMID:33335027
A Critical Role for Fas-Mediated Off-Target Tumor Killing in T-cell Immunotherapy. PMID:33334730
A Comprehensive Transcriptional Profiling of Pepper Responses to Root-Knot Nematode. PMID:33333784
Structural basis of sequestration of the anti-Shine-Dalgarno sequence in the Bacteroidetes ribosome. PMID:33330920
Frameshift Variant in Novel Adenosine-A1-Receptor Homolog Associated With Bovine Spastic Syndrome/Late-Onset Bovine Spastic Paresis in Holstein Sires. PMID:33329738
The Neoantigen Landscape of Mycosis Fungoides. PMID:33329522
The Biosynthesis of Enzymatically Oxidized Lipids. PMID:33329396
Oncology and Pharmacogenomics Insights in Polycystic Ovary Syndrome: An Integrative Analysis. PMID:33329391
Unusual allergen in a butcher with respiratory symptoms. PMID:33326509
Collecting and managing taxonomic data with NCBI-taxonomist. PMID:33326008
Tools for the Recognition of Sorting Signals and the Prediction of Subcellular Localization of Proteins From Their Amino Acid Sequences. PMID:33324450
Cobalt Resistance via Detoxification and Mineralization in the Iron-Reducing Bacterium Geobacter sulfurreducens. PMID:33324382
GAG-DB, the New Interface of the Three-Dimensional Landscape of Glycosaminoglycans. PMID:33322545
Three Novel Clostridia Isolates Produce n-Caproate and iso-Butyrate from Lactate: Comparative Genomics of Chain-Elongating Bacteria. PMID:33322390
A Novel Amino Acid Substitution, Fibrinogen Bβp.Pro234Leu, Associated with Hypofibrinogenemia Causing Impairment of Fibrinogen Assembly and Secretion. PMID:33322044
Identification of Cis-Regulatory Sequences Controlling Pollen-Specific Expression of Hydroxyproline-Rich Glycoprotein Genes in Arabidopsis thaliana. PMID:33322028
Predicted Cellular Immunity Population Coverage Gaps for SARS-CoV-2 Subunit Vaccines and Their Augmentation by Compact Peptide Sets. PMID:33321075
Transport mechanism of P4 ATPase phosphatidylcholine flippases. PMID:33320091
Genome sequencing of deep-sea hydrothermal vent snails reveals adaptions to extreme environments. PMID:33319911
Computational prediction method to decipher receptor-glycoligand interactions in plant immunity. PMID:33316845
VIPERdb v3.0: a structure-based data analytics platform for viral capsids. PMID:33313778
RCSB Protein Data Bank 1D Tools and Services. PMID:33313665
Comparative proteomic analysis highlights metabolic dysfunction in α-synucleinopathy. PMID:33311497
CEG 2.0: an updated database of clusters of essential genes including eukaryotic organisms. PMID:33306800
Applying graph database technology for analyzing perturbed co-expression networks in cancer. PMID:33306799
Integrin α11β1 is a receptor for collagen XIII. PMID:33306155
The comparative genomic landscape of adaptive radiation in crater lake cichlid fishes. PMID:33305470
PED in 2021: a major update of the protein ensemble database for intrinsically disordered proteins. PMID:33305318
Exosomes for Wound Healing: Purification Optimization and Identification of Bioactive Components. PMID:33304765
A Multi-Strategy Sequencing Workflow in Inherited Retinal Dystrophies: Routine Diagnosis, Addressing Unsolved Cases and Candidate Genes Identification. PMID:33302505
Origin of a Giant Sex Chromosome. PMID:33300980
Short-term treatment with dabigatran alters protein expression patterns in a late-stage tau-based Alzheimer's disease mouse model. PMID:33294639
Clinical, metabolic, and molecular genetic characterization of hereditary methemoglobinemia caused by cytochrome b5 reductase deficiency in 30 dogs. PMID:33293645
Cytogenetic and genomic analysis of a patient with turner syndrome and t(2;12): a case report. PMID:33292387
Comparative Assessment of Intrinsic Disorder Predictions with a Focus on Protein and Nucleic Acid-Binding Proteins. PMID:33291838
PANTHER version 16: a revised family classification, tree-based classification tool, enhancer regions and extensive API. PMID:33290554
Improving the informativeness of Mendelian disease-derived pathogenicity scores for common disease. PMID:33288751
Wide-ranging transcriptomic analysis of Poncirus trifoliata, Citrus sunki, Citrus sinensis and contrasting hybrids reveals HLB tolerance mechanisms. PMID:33257732
Deciphering the Role of Filamin B Calponin-Homology Domain in Causing the Larsen Syndrome, Boomerang Dysplasia, and Atelosteogenesis Type I Spectrum Disorders via a Computational Approach. PMID:33255942
Essential gene prediction using limited gene essentiality information-An integrative semi-supervised machine learning strategy. PMID:33253254
A ligand-based computational drug repurposing pipeline using KNIME and Programmatic Data Access: case studies for rare diseases and COVID-19. PMID:33250934
The Draft Genome of Red Lechwe, Kobus leche leche. PMID:33250921
PAGER-CoV: a comprehensive collection of pathways, annotated gene-lists and gene signatures for coronavirus disease studies. PMID:33245774
Investigating the human protein-host protein interactome of SARS-CoV-2 infection in the small intestine. PMID:33244381
Excavating the functionally crucial active-site residues of the DXS protein of Bacillus subtilis by exploring its closest homologues. PMID:33242110
Adaptive divergence, neutral panmixia, and algal symbiont population structure in the temperate coral Astrangia poculata along the Mid-Atlantic United States. PMID:33240603
Functional characterisation guides classification of novel BAP1 germline variants. PMID:33240524
Identification of Novel BRCA1 and RAD50 Mutations Associated With Breast Cancer Predisposition in Tunisian Patients. PMID:33240314
MobiDB: intrinsically disordered proteins in 2021. PMID:33237329
CATH: increased structural coverage of functional space. PMID:33237325
RepeatsDB in 2021: improved data and extended classification for protein tandem repeat structures. PMID:33237313
The STRING database in 2021: customizable protein-protein networks, and functional characterization of user-uploaded gene/measurement sets. PMID:33237311
UniProt: the universal protein knowledgebase in 2021. PMID:33237286
The Uniqueness of Tryptophan in Biology: Properties, Metabolism, Interactions and Localization in Proteins. PMID:33233627
Metagenomic Information Recovery from Human Stool Samples Is Influenced by Sequencing Depth and Profiling Method. PMID:33233349
Additions to the genus Gimesia: description of Gimesia alba sp. nov., Gimesia algae sp. nov., Gimesia aquarii sp. nov., Gimesia aquatilis sp. nov., Gimesia fumaroli sp. nov. and Gimesia panareensis sp. nov., isolated from aquatic habitats of the Northern Hemisphere. PMID:33231764
Top-Down Proteomics of Endogenous Membrane Proteins Enabled by Cloud Point Enrichment and Multidimensional Liquid Chromatography-Mass Spectrometry. PMID:33231430
Human rhinovirus-specific CD8 T cell responses target conserved and unusual epitopes. PMID:33230881
Comparative analyses and structural insights of new class glutathione transferases in Cryptosporidium species. PMID:33230237
Discovery of Amoebicidal Compounds by Combining Computational and Experimental Approaches. PMID:33229426
Efficient Confirmation of Plant Viral Proteins and Identification of Specific Viral Strains by nanoLC-ESI-Q-TOF Using Single-Leaf-Tissue Samples. PMID:33228257
Convergence of Plasma Metabolomics and Proteomics Analysis to Discover Signatures of High-Grade Serous Ovarian Cancer. PMID:33228226
Bornyl Derivatives of p-(Benzyloxy)Phenylpropionic Acid: In Vivo Evaluation of Antidiabetic Activity. PMID:33228030
In Silico Analysis and In Vitro Characterization of the Bioactive Profile of Three Novel Peptides Identified from 19 kDa α-Zein Sequences of Maize. PMID:33227894
GP4: an integrated Gram-Positive Protein Prediction Pipeline for subcellular localization mimicking bacterial sorting. PMID:33227814
Investigating the Multitarget Mechanism of Traditional Chinese Medicine Prescription for Cancer-Related Pain by Using Network Pharmacology and Molecular Docking Approach. PMID:33224254
The UCSC Genome Browser database: 2021 update. PMID:33221922
EVLncRNAs 2.0: an updated database of manually curated functional long non-coding RNAs validated by low-throughput experiments. PMID:33221906
FlyBase: updates to the Drosophila melanogaster knowledge base. PMID:33219682
canSAR: update to the cancer translational research and drug discovery knowledgebase. PMID:33219674
MolluscDB: an integrated functional and evolutionary genomics database for the hyper-diverse animal phylum Mollusca. PMID:33219670
Predicted rat interactome database and gene set linkage analysis. PMID:33216897
GPCR-PEnDB: a database of protein sequences and derived features to facilitate prediction and classification of G protein-coupled receptors. PMID:33216895
Moving targets in drug discovery. PMID:33214619
BRENDA, the ELIXIR core data resource in 2021: new developments and updates. PMID:33211880
RCSB Protein Data Bank: powerful new tools for exploring 3D structures of biological macromolecules for basic and applied research and education in fundamental biology, biomedicine, biotechnology, bioengineering and energy sciences. PMID:33211854
Gene expression responses to Zika virus infection in peripheral blood mononuclear cells from pregnant and non-pregnant women. PMID:33211409
Angiogenesis related gene expression significantly associated with the prognostic role of an urothelial bladder carcinoma. PMID:33209684
Identification of scavenger receptors and thrombospondin-type-1 repeat proteins potentially relevant for plastid recognition in Sacoglossa. PMID:33209293
A combined transcriptomic approach to identify candidates for an anti-tick vaccine blocking B. afzelii transmission. PMID:33208766
Genome-enabled discovery of anthraquinone biosynthesis in Senna tora. PMID:33208749
Exploring the Proteomic Alterations from Untreated and Cryoablation and Irradiation Treated Giant Cell Tumors of Bone Using Liquid-Chromatography Tandem Mass Spectrometry. PMID:33207819
Changes in Membrane Protein Structural Biology. PMID:33207666
The IMEx coronavirus interactome: an evolving map of Coronaviridae-host molecular interactions. PMID:33206959
CRISPR sequences are sometimes erroneously translated and can contaminate public databases with spurious proteins containing spaced repeats. PMID:33206958
DeepPheno: Predicting single gene loss-of-function phenotypes using an ontology-aware hierarchical classifier. PMID:33206638
Protein identification by 3D OrbiSIMS to facilitate in situ imaging and depth profiling. PMID:33203841
IOX1 Suppresses Wnt Target Gene Transcription and Colorectal Cancer Tumorigenesis through Inhibition of KDM3 Histone Demethylases. PMID:33203729
In Silico Identification of SOX1 Post-Translational Modifications Highlights a Shared Protein Motif. PMID:33202879
In silico and in vitro studies reveal complement system drives coagulation cascade in SARS-CoV-2 pathogenesis. PMID:33200027
Structural insight into the novel iron-coordination and domain interactions of transferrin-1 from a model insect, Manduca sexta. PMID:33197096
Open Targets Platform: supporting systematic drug-target identification and prioritisation. PMID:33196847
ProThermDB: thermodynamic database for proteins and mutants revisited after 15 years. PMID:33196841
OrthoDB in 2020: evolutionary and functional annotations of orthologs. PMID:33196836
RBP2GO: a comprehensive pan-species database on RNA-binding proteins, their interactions and functions. PMID:33196814
Including residual contact information into replica-exchange MD simulations significantly enriches native-like conformations. PMID:33196676
A Fixed Cohort Field Study of Gene Expression in Circulating Leukocytes From Dairy Cows With and Without Mastitis. PMID:33195534
Tumor Suppressor LINC02487 Inhibits Oral Squamous Cell Carcinoma Cell Migration and Invasion Through the USP17-SNAI1 Axis. PMID:33194625
Silicon flow from root to shoot in pepper: a comprehensive in silico analysis reveals a potential linkage between gene expression and hormone signaling that stimulates plant growth and metabolism. PMID:33194376
DPPN-SVM: Computational Identification of Mis-Localized Proteins in Cancers by Integrating Differential Gene Expressions With Dynamic Protein-Protein Interaction Networks. PMID:33193746
Identification of Proteins of Tobacco Mosaic Virus by Using a Method of Feature Extraction. PMID:33193664
MaizeMine: A Data Mining Warehouse for the Maize Genetics and Genomics Database. PMID:33193550
MCIC: Automated Identification of Cellulases From Metagenomic Data and Characterization Based on Temperature and pH Dependence. PMID:33193158
Structure, dynamics and lipid interactions of serotonin receptors: excitements and challenges. PMID:33188638
Virus Isoelectric Point Estimation: Theories and Methods. PMID:33188001
Virtual screening and network pharmacology-based synergistic mechanism identification of multiple components contained in Guanxin V against coronary artery disease. PMID:33187508
Trop2: Jack of All Trades, Master of None. PMID:33187148
A comprehensive spectral assay library to quantify the Escherichia coli proteome by DIA/SWATH-MS. PMID:33184295
Antimicrobial antidegradative dental adhesive preserves restoration-tooth bond. PMID:33183773
Europe PMC in 2020. PMID:33180112
Connecting Longitudinal and Transverse Relaxation Rates in Live-Cell NMR. PMID:33179918
OpenProt 2021: deeper functional annotation of the coding potential of eukaryotic genomes. PMID:33179748
FunRes: resolving tissue-specific functional cell states based on a cell-cell communication network model. PMID:33179736
Avian Immunome DB: an example of a user-friendly interface for extracting genetic information. PMID:33176685
A haplotype-phased genome of wheat stripe rust pathogen Puccinia striiformis f. sp. tritici, race PST-130 from the Western USA. PMID:33175843
The European Nucleotide Archive in 2020. PMID:33175160
OMA orthology in 2021: website overhaul, conserved isoforms, ancestral gene order and more. PMID:33174605
Datanator: an integrated database of molecular data for quantitatively modeling cellular behavior. PMID:33174603
LectomeXplore, an update of UniLectin for the discovery of carbohydrate-binding proteins based on a new lectin classification. PMID:33174598
MitoCarta3.0: an updated mitochondrial proteome now with sub-organelle localization and pathway annotations. PMID:33174596
Association of the DNASE1L3 rs35677470 polymorphism with systemic lupus erythematosus, rheumatoid arthritis and systemic sclerosis: Structural biological insights. PMID:33173951
A Workflow of Integrated Resources to Catalyze Network Pharmacology Driven COVID-19 Research. PMID:33173863
Understanding the causes of errors in eukaryotic protein-coding gene prediction: a case study of primate proteomes. PMID:33172385
Functional Expression of All Human Sulfotransferases in Fission Yeast, Assay Development, and Structural Models for Isoforms SULT4A1 and SULT6B1. PMID:33171978
Host behaviour alteration by its parasite: from brain gene expression to functional test. PMID:33171082
Gramene 2021: harnessing the power of comparative genomics and pathways for plant research. PMID:33170273
PARP Inhibitor Olaparib Causes No Potentiation of the Bleomycin Effect in VERO Cells, Even in the Presence of Pooled ATM, DNA-PK, and LigIV Inhibitors. PMID:33167404
Dual-Inhibitors of N-Myc and AURKA as Potential Therapy for Neuroendocrine Prostate Cancer. PMID:33167327
FireProtDB: database of manually curated protein stability data. PMID:33166383
CG4928 Is Vital for Renal Function in Fruit Flies and Membrane Potential in Cells: A First In-Depth Characterization of the Putative Solute Carrier UNC93A. PMID:33163493
First draft genome assembly of the desert locust, Schistocerca gregaria. PMID:33163158
TCRD and Pharos 2021: mining the human proteome for disease biology. PMID:33156327
MetaNetX/MNXref: unified namespace for metabolites and biochemical reactions in the context of metabolic models. PMID:33156326
ZNF354C is a transcriptional repressor that inhibits endothelial angiogenic sprouting. PMID:33154469
Genenames.org: the HGNC and VGNC resources in 2021. PMID:33152070
Single-cell analysis of transcriptome and DNA methylome in human oocyte maturation. PMID:33152014
Updates to the recently introduced family Lacipirellulaceae in the phylum Planctomycetes: isolation of strains belonging to the novel genera Aeoliella, Botrimarina, Pirellulimonas and Pseudobythopirellula and the novel species Bythopirellula polymerisocia and Posidoniimonas corsicana. PMID:33151460
PubChem in 2021: new data content and improved web interfaces. PMID:33151290
DrugCentral 2021 supports drug discovery and repositioning. PMID:33151287
DBAASP v3: database of antimicrobial/cytotoxic activity and structure of peptides as a resource for development of new therapeutics. PMID:33151284
Constitution of a comprehensive phytochemical profile and network pharmacology based investigation to decipher molecular mechanisms of Teucrium polium L. in the treatment of type 2 diabetes mellitus. PMID:33150068
Combinatorial expression of GPCR isoforms affects signalling and drug responses. PMID:33149304
Systems evaluation reveals novel transporter YohJK renders 3-hydroxypropionate tolerance in Escherichia coli. PMID:33149261
Identification and characterization of the proteolytic flagellin from the common freshwater bacterium Hylemonella gracilis. PMID:33149258
Loss of PHF6 leads to aberrant development of human neuron-like cells. PMID:33149206
Computational strategies to combat COVID-19: useful tools to accelerate SARS-CoV-2 and coronavirus research. PMID:33147627
Inhibiting Sialidase-Induced TGF-β1 Activation Attenuates Pulmonary Fibrosis in Mice. PMID:33144389
Putative Antimicrobial Peptides of the Posterior Salivary Glands from the Cephalopod Octopus vulgaris Revealed by Exploring a Composite Protein Database. PMID:33143020
Utilizing PacBio Iso-Seq for Novel Transcript and Gene Discovery of Abiotic Stress Responses in Oryza sativa L. PMID:33142722
Delineation of the 1q24.3 microdeletion syndrome provides further evidence for the potential role of non-coding RNAs in regulating the skeletal phenotype. PMID:33141070
β-Barrel proteins tether the outer membrane in many Gram-negative bacteria. PMID:33139883
Chlorovirus PBCV-1 protein A064R has three of the transferase activities necessary to synthesize its capsid protein N-linked glycans. PMID:33139538
KinaseMD: kinase mutations and drug response database. PMID:33137204
Ensembl 2021. PMID:33137190
ADPriboDB 2.0: an updated database of ADP-ribosylated proteins. PMID:33137182
Galaxy and Apollo as a biologist-friendly interface for high-quality cooperative phage genome annotation. PMID:33137082
Identification and characterization of the first fish parvalbumin-like protein data from a pathogenic fungal species, Trichophyton violaceum. PMID:33134447
SURF1 related Leigh syndrome: Clinical and molecular findings of 16 patients from Turkey. PMID:33134083
Genome-scale metabolic reconstruction of the non-model yeast Issatchenkia orientalis SD108 and its application to organic acids production. PMID:33134082
IHP-PING-generating integrated human protein-protein interaction networks on-the-fly. PMID:33129201
Plasma Proteomics Identify Biomarkers and Pathogenesis of COVID-19. PMID:33128875
The Dynamic Proteome of Oligodendrocyte Lineage Differentiation Features Planar Cell Polarity and Macroautophagy Pathways. PMID:33128372
Mass spectrometry-based abundance atlas of ABC transporters in human liver, gut, kidney, brain and skin. PMID:33128234
Network-based machine learning in colorectal and bladder organoid models predicts anti-cancer drug efficacy in patients. PMID:33127883
Molecular Evidence for an Active Microbial Methane Cycle in Subsurface Serpentinite-Hosted Groundwaters in the Samail Ophiolite, Oman. PMID:33127818
Pfam: The protein families database in 2021. PMID:33125078
Complete and Circularized Genome Assemblies of the Kroppenstedtia eburnea Genus Type Strain and the Kroppenstedtia pulmonis Species Type Strain with MiSeq and MinION Sequence Data. PMID:33122418
EBV-EBNA1 constructs an immunosuppressive microenvironment for nasopharyngeal carcinoma by promoting the chemoattraction of Treg cells. PMID:33122398
Virus-Host Protein-Protein Interactions between Human Papillomavirus 16 E6 A1 and D2/D3 Sub-Lineages: Variances and Similarities. PMID:33121134
Automatic Gene Function Prediction in the 2020's. PMID:33120976
The MemMoRF database for recognizing disordered protein regions interacting with cellular membranes. PMID:33119751
DescribePROT: database of amino acid-level protein structure and function predictions. PMID:33119734
Identification of Novel Therapeutic Molecular Targets in Inflammatory Bowel Disease by Using Genetic Databases. PMID:33116744
Hybridization of Curcumin Analogues with Cinnamic Acid Derivatives as Multi-Target Agents Against Alzheimer's Disease Targets. PMID:33114751
Transcriptome Analysis of Amyloodinium ocellatum Tomonts Revealed Basic Information on the Major Potential Virulence Factors. PMID:33114415
Advances on Plant Ubiquitylome-From Mechanism to Application. PMID:33114409
Meta-Analysis of Transcriptome Data Detected New Potential Players in Response to Dioxin Exposure in Humans. PMID:33113971
In Vivo Validation of Alternative FDXR Transcripts in Human Blood in Response to Ionizing Radiation. PMID:33113898
Pleiotropic roles of cold shock proteins with special emphasis on unexplored cold shock protein member of Plasmodium falciparum. PMID:33109193
Leishmania differentiation requires ubiquitin conjugation mediated by a UBC2-UEV1 E2 complex. PMID:33108402
O-Pair Search with MetaMorpheus for O-glycopeptide characterization. PMID:33106676
Preclinical validation of therapeutic targets predicted by tensor factorization on heterogeneous graphs. PMID:33106501
Systematic Investigation of Resistance Evolution to Common Antibiotics Reveals Conserved Collateral Responses across Common Human Pathogens. PMID:33106260
Heat Stress Triggers Differential Protein Accumulation in the Extracellular Matrix of Sorghum Cell Suspension Cultures. PMID:33105781
SMART: recent updates, new developments and status in 2020. PMID:33104802
Determinants of correlated expression of transcription factors and their target genes. PMID:33104784
Computational Identification of Human Biological Processes and Protein Sequence Motifs Putatively Targeted by SARS-CoV-2 Proteins Using Protein-Protein Interaction Networks. PMID:33103435
Applying computer simulations in battling with COVID-19, using pre-analyzed molecular and chemical data to face the pandemic. PMID:33102687
Probing the Structural Dynamics of the Plasmodium falciparum Tunneling-Fold Enzyme 6-Pyruvoyl Tetrahydropterin Synthase to Reveal Allosteric Drug Targeting Sites. PMID:33102524
Uncovering the Cyclic AMP Signaling Pathway of the Protozoan Parasite Entamoeba histolytica and Understanding Its Role in Phagocytosis. PMID:33102254
Genomic and transcriptomic landscapes and evolutionary dynamics of molluscan glycoside hydrolase families with implications for algae-feeding biology. PMID:33101612
Tools of the trade: studying actin in zebrafish. PMID:33095903
Virtual Double-System Single-Box: A Nonequilibrium Alchemical Technique for Absolute Binding Free Energy Calculations: Application to Ligands of the SARS-CoV-2 Main Protease. PMID:33090785
MetaLAFFA: a flexible, end-to-end, distributed computing-compatible metagenomic functional annotation pipeline. PMID:33087062
KLIFS: an overhaul after the first 5 years of supporting kinase research. PMID:33084889
BastionHub: a universal platform for integrating and analyzing substrates secreted by Gram-negative bacteria. PMID:33084862
Reference transcriptomes and comparative analyses of six species in the threatened rosewood genus Dalbergia. PMID:33082403
Unveiling the effect of dietary essential oils supplementation in Sparus aurata gills and its efficiency against the infestation by Sparicotyle chrysophrii. PMID:33082387
Genomic Features of a Food-Derived Pseudomonas aeruginosa Strain PAEM and Biofilm-Associated Gene Expression under a Marine Bacterial α-Galactosidase. PMID:33081309
Three-Dimensional Structures of Carbohydrates and Where to Find Them. PMID:33081008
Detergent Resistant Membrane Domains in Broccoli Plasma Membrane Associated to the Response to Salinity Stress. PMID:33080920
Evolutionary and Comparative Analysis of Bacterial Nonhomologous End Joining Repair. PMID:33078828
Predicted functional interactome of Caenorhabditis elegans and a web tool for the functional interpretation of differentially expressed genes. PMID:33076954
Temporal proteomic profiling reveals insight into critical developmental processes and temperature-influenced physiological response differences in a bivalve mollusc. PMID:33076839
The Immune Response to Eastern Equine Encephalitis Virus Acquired Through Organ Transplantation. PMID:33072022
The Drosophila seminal proteome and its role in postcopulatory sexual selection. PMID:33070726
NCAM protein and SARS-COV-2 surface proteins: In-silico hypothetical evidence for the immunopathogenesis of Guillain-Barré syndrome. PMID:33069093
Chewie Nomenclature Server (chewie-NS): a deployable nomenclature server for easy sharing of core and whole genome MLST schemas. PMID:33068420
Mapping glycan-mediated galectin-3 interactions by live cell proximity labeling. PMID:33067390
Proteomic Characterization of Urinary Extracellular Vesicles from Kidney-Transplanted Patients Treated with Calcineurin Inhibitors. PMID:33066346
Distribution of disease-causing germline mutations in coiled-coils implies an important role of their N-terminal region. PMID:33060664
smORFunction: a tool for predicting functions of small open reading frames and microproteins. PMID:33054771
A Comprehensive Subcellular Atlas of the Toxoplasma Proteome via hyperLOPIT Provides Spatial Context for Protein Functions. PMID:33053376
Differential expression of full-length and NH2 terminally truncated FAM134B isoforms in normal physiology and cancer. PMID:33052704
Human trans-editing enzyme displays tRNA acceptor-stem specificity and relaxed amino acid selectivity. PMID:33051185
Uveal Melanoma-Derived Extracellular Vesicles Display Transforming Potential and Carry Protein Cargo Involved in Metastatic Niche Preparation. PMID:33050649
Characterization of the Vaginal DNA Virome in Health and Dysbiosis. PMID:33050261
HybridMine: A Pipeline for Allele Inheritance and Gene Copy Number Prediction in Hybrid Genomes and Its Application to Industrial Yeasts. PMID:33050146
Stearoyl-CoA desaturase 5 (SCD5), a Δ-9 fatty acyl desaturase in search of a function. PMID:33049404
Semantic similarity and machine learning with ontologies. PMID:33049044
SWATH-MS based proteomic profiling of pancreatic ductal adenocarcinoma tumours reveals the interplay between the extracellular matrix and related intracellular pathways. PMID:33048956
Protein ontology on the semantic web for knowledge discovery. PMID:33046717
SilencerDB: a comprehensive database of silencers. PMID:33045745
INTEDE: interactome of drug-metabolizing enzymes. PMID:33045737
GIMICA: host genetic and immune factors shaping human microbiota. PMID:33045729
Multiresolution Imaging Using Bioluminescence Resonance Energy Transfer Identifies Distinct Biodistribution Profiles of Extracellular Vesicles and Exomeres with Redirected Tropism. PMID:33042758
DockCoV2: a drug database against SARS-CoV-2. PMID:33035337
Mitochondria under the spotlight: On the implications of mitochondrial dysfunction and its connectivity to neuropsychiatric disorders. PMID:33033576
The mole genome reveals regulatory rearrangements associated with adaptive intersexuality. PMID:33033216
Data mining of human plasma proteins generates a multitude of highly predictive aging clocks that reflect different aspects of aging. PMID:33031577
Investigating the mechanism of ShuFeng JieDu capsule for the treatment of novel Coronavirus pneumonia (COVID-19) based on network pharmacology. PMID:33029094
Multicompartment modeling of protein shedding kinetics during vascularized tumor growth. PMID:33028917
An intrinsically disordered motif regulates the interaction between the p47 adaptor and the p97 AAA+ ATPase. PMID:33028677
Protein Concentrations of Thrombospondin-1, MIP-1β, and S100A8 Suggest the Reflection of a Pregnancy Clock in Mid-Trimester Amniotic Fluid. PMID:33026626
A knowledge-driven protocol for prediction of proteins of interest with an emphasis on biosynthetic pathways. PMID:33024710
The reuse of public datasets in the life sciences: potential risks and rewards. PMID:33024631
Benchmarking evolutionary tinkering underlying human-viral molecular mimicry shows multiple host pulmonary-arterial peptides mimicked by SARS-CoV-2. PMID:33024578
HybridMine: A Pipeline for Allele Inheritance and Gene Copy Number Prediction in Hybrid Genomes and Its Application to Industrial Yeasts. PMID:33050146
Stearoyl-CoA desaturase 5 (SCD5), a Δ-9 fatty acyl desaturase in search of a function. PMID:33049404
Semantic similarity and machine learning with ontologies. PMID:33049044
SWATH-MS based proteomic profiling of pancreatic ductal adenocarcinoma tumours reveals the interplay between the extracellular matrix and related intracellular pathways. PMID:33048956
Protein ontology on the semantic web for knowledge discovery. PMID:33046717
SilencerDB: a comprehensive database of silencers. PMID:33045745
INTEDE: interactome of drug-metabolizing enzymes. PMID:33045737
GIMICA: host genetic and immune factors shaping human microbiota. PMID:33045729
Multiresolution Imaging Using Bioluminescence Resonance Energy Transfer Identifies Distinct Biodistribution Profiles of Extracellular Vesicles and Exomeres with Redirected Tropism. PMID:33042758
DockCoV2: a drug database against SARS-CoV-2. PMID:33035337
Mitochondria under the spotlight: On the implications of mitochondrial dysfunction and its connectivity to neuropsychiatric disorders. PMID:33033576
The mole genome reveals regulatory rearrangements associated with adaptive intersexuality. PMID:33033216
Data mining of human plasma proteins generates a multitude of highly predictive aging clocks that reflect different aspects of aging. PMID:33031577
Investigating the mechanism of ShuFeng JieDu capsule for the treatment of novel Coronavirus pneumonia (COVID-19) based on network pharmacology. PMID:33029094
Multicompartment modeling of protein shedding kinetics during vascularized tumor growth. PMID:33028917
An intrinsically disordered motif regulates the interaction between the p47 adaptor and the p97 AAA+ ATPase. PMID:33028677
Protein Concentrations of Thrombospondin-1, MIP-1β, and S100A8 Suggest the Reflection of a Pregnancy Clock in Mid-Trimester Amniotic Fluid. PMID:33026626
A knowledge-driven protocol for prediction of proteins of interest with an emphasis on biosynthetic pathways. PMID:33024710
The reuse of public datasets in the life sciences: potential risks and rewards. PMID:33024631
Benchmarking evolutionary tinkering underlying human-viral molecular mimicry shows multiple host pulmonary-arterial peptides mimicked by SARS-CoV-2. PMID:33024578
CaaX-Like Protease of Cyanobacterial Origin Is Required for Complex Plastid Biogenesis in Malaria Parasites. PMID:33024034
Aggregation and disaggregation features of the human proteome. PMID:33022891
Structure, Dynamics, and Interactions of GPI-Anchored Human Glypican-1 with Heparan Sulfates in a Membrane. PMID:33021626
Treatment with Commonly Used Antiretroviral Drugs Induces a Type I/III Interferon Signature in the Gut in the Absence of HIV Infection. PMID:33015651
Serum protein biomarkers for juvenile dermatomyositis: a pilot study. PMID:33015544
miRNAs Predicted to Regulate Host Anti-viral Gene Pathways in IPNV-Challenged Atlantic Salmon Fry Are Affected by Viral Load, and Associated With the Major IPN Resistance QTL Genotypes in Late Infection. PMID:33013890
Genomic Characteristics Distinguish Geographically Distributed Dehalococcoidia. PMID:33013780
Deep phylogeny of cancer drivers and compensatory mutations. PMID:33009502
Keratin 17 regulates nuclear morphology and chromatin organization. PMID:33008845
In silico Prediction of New Drug Candidates Against the Multidrug-Resistant and Potentially Zoonotic Fish Pathogen Serotype III Streptococcus agalactiae. PMID:33005185
Genetic Diversity of Serine Protease Inhibitors in Myxozoan (Cnidaria, Myxozoa) Fish Parasites. PMID:33003479
ADPriboDB v2.0: An Updated Database of ADP-ribosylated Proteins. PMID:32995784
In vitro resynthesis of lichenization reveals the genetic background of symbiosis-specific fungal-algal interaction in Usnea hakonensis. PMID:32993496
Finding New Molecular Targets of Familiar Natural Products Using In Silico Target Prediction. PMID:32993084
Focus on Human Monoamine Transporter Selectivity. New Human DAT and NET Models, Experimental Validation, and SERT Affinity Exploration. PMID:32991141
Herbal pair Huangqin-Baishao: mechanisms underlying inflammatory bowel disease by combined system pharmacology and cell experiment approach. PMID:32988394
Sericin-Induced Melanogenesis in Cultured Retinal Pigment Epithelial Cells Is Associated with Elevated Levels of Hydrogen Peroxide and Inflammatory Proteins. PMID:32987810
Reversal of diet-induced hepatic steatosis by peripheral CB1 receptor blockade in mice is p53/miRNA-22/SIRT1/PPARα dependent. PMID:32987186
Expression analysis of mammalian mitochondrial ribosomal protein genes. PMID:32987154
CMNPD: a comprehensive marine natural products database towards facilitating drug discovery from the ocean. PMID:32986829
Genomic Features of Parthenogenetic Animals. PMID:32985658
The E3 ubiquitin-protein ligase MDM2 is a novel interactor of the von Hippel-Lindau tumor suppressor. PMID:32985545
Structural and functional modelling of SARS-CoV-2 entry in animal models. PMID:32985513
Global quantitative analysis of the human brain proteome and phosphoproteome in Alzheimer's disease. PMID:32985496
Cancer-associated fibroblasts of the prostate promote a compliant and more invasive phenotype in benign prostate epithelial cells. PMID:32984808
Molecular Characteristics and Zoonotic Potential of Salmonella Weltevreden From Cultured Shrimp and Tilapia in Vietnam and China. PMID:32983012
Improved Virus Isoelectric Point Estimation by Exclusion of Known and Predicted Genome-Binding Regions. PMID:32978129
Longitudinal Metatranscriptomic Analysis of a Meat Spoilage Microbiome Detects Abundant Continued Fermentation and Environmental Stress Responses during Shelf Life and Beyond. PMID:32978125
Phylogenetic and genomic analysis reveals high genomic openness and genetic diversity of Clostridium perfringens. PMID:32975504
Intermittent leucine pulses during continuous feeding alters novel components involved in skeletal muscle growth of neonatal pigs. PMID:32974749
Comparative Analysis of the Secretome and Interactome of Trypanosoma cruzi and Trypanosoma rangeli Reveals Species Specific Immune Response Modulating Proteins. PMID:32973747
Mus musculus populations in Western Australia lack VKORC1 mutations conferring resistance to first generation anticoagulant rodenticides: Implications for conservation and biosecurity. PMID:32970676
A Membrane-Tethered Ubiquitination Pathway Regulates Hedgehog Signaling and Heart Development. PMID:32966817
Unveiling molecular signatures of preeclampsia and gestational diabetes mellitus with multi-omics and innovative cheminformatics visualization tools. PMID:32966491
Structure, dynamics and functions of UBQLNs: at the crossroads of protein quality control machinery. PMID:32965492
Review on the Computational Genome Annotation of Sequences Obtained by Next-Generation Sequencing. PMID:32962098
Comprehensive Survey and Comparative Assessment of RNA-Binding Residue Predictions with Analysis by RNA Type. PMID:32961749
Thermodynamic insight into viral infections 2: empirical formulas, molecular compositions and thermodynamic properties of SARS, MERS and SARS-CoV-2 (COVID-19) viruses. PMID:32954038
GlypNirO: An automated workflow for quantitative N- and O-linked glycoproteomic data analysis. PMID:32952729
A Reference Genome Sequence for Giant Sequoia. PMID:32948606
Protein Databases Related to Liquid-Liquid Phase Separation. PMID:32947964
Transcriptomic data on the transgenerational exposure of the keystone amphipod Gammarus locusta to simvastatin. PMID:32944603
Enzyme-Constrained Models and Omics Analysis of Streptomyces coelicolor Reveal Metabolic Changes that Enhance Heterologous Production. PMID:32942174
IDDB: a comprehensive resource featuring genes, variants and characteristics associated with infertility. PMID:32941628
From Anti-EBV Immune Responses to the EBV Diseasome via Cross-reactivity. PMID:32939516
Structural models of human ACE2 variants with SARS-CoV-2 Spike protein for structure-based drug design. PMID:32938937
DELTEX2 C-terminal domain recognizes and recruits ADP-ribosylated proteins for ubiquitination. PMID:32937373
COVID-19 Biomarkers in research: Extension of the OncoMX cancer biomarker data model to capture biomarker data from other diseases. PMID:32935101
StoneMod: a database for kidney stone modulatory proteins with experimental evidence. PMID:32934277
Quantitative Protein Corona Composition and Dynamics on Carbon Nanotubes in Biological Environments. PMID:32931615
Leveraging orthogonal mass spectrometry based strategies for comprehensive sequencing and characterization of ribosomal antimicrobial peptide natural products. PMID:32929442
Molecular Modeling of Pathogenic Mutations in the Keratin 1B Domain. PMID:32927888
Chitinase Gene Positively Regulates Hypersensitive and Defense Responses of Pepper to Colletotrichum acutatum Infection. PMID:32927746
Targeting Phosphotyrosine in Native Proteins with Conditional, Bispecific Antibody Traps. PMID:32924468
Gene expression during bacterivorous growth of a widespread marine heterotrophic flagellate. PMID:32920602
Ontogeny of arterial macrophages defines their functions in homeostasis and inflammation. PMID:32917889
Label-free quantitative proteomic analysis of gingival crevicular fluid to identify potential early markers for root resorption. PMID:32917196
Structural characterization and computational analysis of PDZ domains in Monosiga brevicollis. PMID:32914530
Effect of cysteine addition and heat treatment on the properties and microstructure of a calcium-induced whey protein cold-set gel. PMID:32914103
Annotated genome sequences of the carnivorous plant Roridula gorgonias and a non-carnivorous relative, Clethra arborea. PMID:32912303
Estimating the quality of eukaryotic genomes recovered from metagenomic analysis with EukCC. PMID:32912302
The UCSC SARS-CoV-2 Genome Browser. PMID:32908258
ReactomeGSA - Efficient Multi-Omics Comparative Pathway Analysis. PMID:32907876
Metagenomic Profiling and Microbial Metabolic Potential of Perdido Fold Belt (NW) and Campeche Knolls (SE) in the Gulf of Mexico. PMID:32903729
Transcriptomic Analysis of Rhodococcus opacus R7 Grown on o-Xylene by RNA-Seq. PMID:32903390
CB1-receptor-mediated inhibitory LTD triggers presynaptic remodeling via protein synthesis and ubiquitination. PMID:32902378
Diagnostic yield and clinical utility of whole exome sequencing using an automated variant prioritization system, EVIDENCE. PMID:32901917
Genome-wide Study Identifies Association between HLA-B∗55:01 and Self-Reported Penicillin Allergy. PMID:32888428
Analysis of insect nuclear small heat shock proteins and interacting proteins. PMID:32888179
Cystathionine β-synthase is involved in cysteine biosynthesis and H2S generation in Toxoplasma gondii. PMID:32887901
Non-Coding RNA Databases in Cardiovascular Research. PMID:32887511
Oligopeptide Transporter-1 is Associated with Fluorescence Intensity of 5-Aminolevulinic Acid-Based Photodynamic Diagnosis in Pancreatic Cancer Cells. PMID:32884434
UCSF ChimeraX: Structure visualization for researchers, educators, and developers. PMID:32881101
A Phylogeny-Informed Proteomics Approach for Species Identification within the Burkholderia cepacia Complex. PMID:32878952
Secretome Proteomic Approaches for Biomarker Discovery: An Update on Colorectal Cancer. PMID:32878319
Investigating Core Signaling Pathways of Hepatitis B Virus Pathogenesis for Biomarkers Identification and Drug Discovery via Systems Biology and Deep Learning Method. PMID:32878239
Term Matrix: a novel Gene Ontology annotation quality control system based on ontology term co-annotation patterns. PMID:32875947
Genomic resources and toolkits for developmental study of whip spiders (Amblypygi) provide insights into arachnid genome evolution and antenniform leg patterning. PMID:32874529
Exploring the Diversity of Cysteine-Rich Natural Product Peptides via MS/MS Fingerprint Ions. PMID:32872784
Proteomics and Metabolomics Approaches towards a Functional Insight onto AUTISM Spectrum Disorders: Phenotype Stratification and Biomarker Discovery. PMID:32872562
Merged Tacrine-Based, Multitarget-Directed Acetylcholinesterase Inhibitors 2015-Present: Synthesis and Biological Activity. PMID:32825138
FLAVi: An Enhanced Annotator for Viral Genomes of Flaviviridae. PMID:32824044
De Novo KAT5 Variants Cause a Syndrome with Recognizable Facial Dysmorphisms, Cerebellar Atrophy, Sleep Disturbance, and Epilepsy. PMID:32822602
A Human IgSF Cell-Surface Interactome Reveals a Complex Network of Protein-Protein Interactions. PMID:32822567
DataRemix: a universal data transformation for optimal inference from gene expression datasets. PMID:32821903
Chromosome-scale genome assembly of sweet cherry (Prunus avium L.) cv. Tieton obtained using long-read and Hi-C sequencing. PMID:32821405
Germline variants in HEY2 functional domains lead to congenital heart defects and thoracic aortic aneurysms. PMID:32820247
Novel variant in NSDHL gene associated with CHILD syndrome and syndactyly- a case report. PMID:32819291
Interplay of Disorder and Sequence Specificity in the Formation of Stable Dynein-Dynactin Complexes. PMID:32814057
Grad-seq shines light on unrecognized RNA and protein complexes in the model bacterium Escherichia coli. PMID:32813020
First insight into the whole-genome sequence variations in Mycobacterium bovis BCG-1 (Russia) vaccine seed lots and their progeny clinical isolates from children with BCG-induced adverse events. PMID:32811436
A guide to plasma membrane solute carrier proteins. PMID:32810346
Cellular and Extracellular Proteome of the Animal Pathogen Corynebacterium silvaticum, a Close Relative of Zoonotic Corynebacterium ulcerans and Corynebacterium pseudotuberculosis. PMID:32806579
Anti-rods/rings autoantibody and IMPDH filaments: an update after fifteen years of discovery. PMID:32805424
Using collections of structural models to predict changes of binding affinity caused by mutations in protein-protein interactions. PMID:32797645
Comparative Genomics Underlines Multiple Roles of Profftella, an Obligate Symbiont of Psyllids: Providing Toxins, Vitamins, and Carotenoids. PMID:32797185
Heterologous expression of a glycosyl hydrolase and cellular reprogramming enable Zymomonas mobilis growth on cellobiose. PMID:32797046
Cell Sorting in Hydra vulgaris Arises from Differing Capacities for Epithelialization between Cell Types. PMID:32795440
Expression of genes involved in drug metabolism differs between perfusable 3D liver tissue and conventional 2D-cultured hepatocellular carcinoma cells. PMID:32794647
First Evidence of Acyl-Hydrolase/Lipase Activity From Human Probiotic Bacteria: Lactobacillus rhamnosus GG and Bifidobacterium longum NCC 2705. PMID:32793131
Identification of modified peptides using localization-aware open search. PMID:32792501
Optimization of Acetazolamide-Based Scaffold as Potent Inhibitors of Vancomycin-Resistant Enterococcus. PMID:32787141
Cyanobacterial Dihydroxyacid Dehydratases Are a Promising Growth Inhibition Target. PMID:32786290
JAGN1, tetraspanins, and Erv proteins: is common topology indicative of common function in cargo sorting? PMID:32783652
Building the vertebrate codex using the gene breaking protein trap library. PMID:32779569
Characterization of the Exopolysaccharide Biosynthesis Pathway in Myxococcus xanthus. PMID:32778557
Chemoreceptors with C-terminal pentapeptides for CheR and CheB binding are abundant in bacteria that maintain host interactions. PMID:32774789
Transgelin interacts with PARP1 in human colon cancer cells. PMID:32774160
Modelling, docking and simulation analysis of Bisphenol A interaction with laccase from Trichoderma. PMID:32773992
PIM1 accelerates prostate cancer cell motility by phosphorylating actin capping proteins. PMID:32771000
Mutant p53 induces Golgi tubulo-vesiculation driving a prometastatic secretome. PMID:32770028
Sodium-coupled glucose transport, the SLC5 family, and therapeutically relevant inhibitors: from molecular discovery to clinical application. PMID:32767111
Mapping Coeliac Toxic Motifs in the Prolamin Seed Storage Proteins of Barley, Rye, and Oats Using a Curated Sequence Database. PMID:32766270
Machine learning: A powerful tool for gene function prediction in plants. PMID:32765975
Proteome Comparison Between Natural Desiccation-Tolerant Plants and Drought-Protected Caspicum annuum Plants by Microbacterium sp. 3J1. PMID:32765446
Transcriptomic Analysis of Four Cerianthid (Cnidaria, Ceriantharia) Venoms. PMID:32764303
16q24.3 Microduplication in a Patient With Developmental Delay, Intellectual Disability, Short Stature, and Nonspecific Dysmorphic Features: Case Report and Review of the Literature. PMID:32760686
Genomic Variation and Arsenic Tolerance Emerged as Niche Specific Adaptations by Different Exiguobacterium Strains Isolated From the Extreme Salar de Huasco Environment in Chilean - Altiplano. PMID:32760381
Tn-Seq Analysis Identifies Genes Important for Yersinia pestis Adherence during Primary Pneumonic Plague. PMID:32759339
Glycosaminoglycan-Protein Interactions: The First Draft of the Glycosaminoglycan Interactome. PMID:32757871
IDRMutPred: predicting disease-associated germline nonsynonymous single nucleotide variants (nsSNVs) in intrinsically disordered regions. PMID:32756939
A comprehensive rat transcriptome built from large scale RNA-seq-based annotation. PMID:32749457
Deep Transcriptomic Analysis Reveals the Dynamic Developmental Progression during Early Development of Channel Catfish (Ictalurus punctatus). PMID:32748829
HISTome2: a database of histone proteins, modifiers for multiple organisms and epidrugs. PMID:32746900
Genomic and transcriptomic evidence for descent from Plasmodium and loss of blood schizogony in Hepatocystis parasites from naturally infected red colobus monkeys. PMID:32745123
Mapping the nucleolar proteome reveals a spatiotemporal organization related to intrinsic protein disorder. PMID:32744794
Gliome database: a comprehensive web-based tool to access and analyze glia secretome data. PMID:32743661
Identification of an α-MoRF in the Intrinsically Disordered Region of the Escargot Transcription Factor. PMID:32743208
Cytotoxic and anticancer properties of the Malaysian mangrove pit viper (Trimeresurus purpureomaculatus) venom and its disintegrin (purpureomaculin). PMID:32742279
Iron binding and release properties of transferrin-1 from Drosophila melanogaster and Manduca sexta: Implications for insect iron homeostasis. PMID:32735914
STRING data mining of GWAS data in canine hereditary pigment-associated deafness. PMID:32734119
Glucose Availability Alters Gene and Protein Expression of Several Newly Classified and Putative Solute Carriers in Mice Cortex Cell Culture and D. melanogaster. PMID:32733888
Extracellular Vesicles Produced by the Probiotic Propionibacterium freudenreichii CIRM-BIA 129 Mitigate Inflammation by Modulating the NF-κB Pathway. PMID:32733422
Strategies to enable large-scale proteomics for reproducible research. PMID:32732981
The Flavoproteome of the Model Plant Arabidopsis thaliana. PMID:32731628
Structure-based drug repositioning over the human TMPRSS2 protease domain: search for chemical probes able to repress SARS-CoV-2 Spike protein cleavages. PMID:32730844
An Activity-Guided Map of Electrophile-Cysteine Interactions in Primary Human T Cells. PMID:32730809
Cloning and functional complementation of ten Schistosoma mansoni phosphodiesterases expressed in the mammalian host stages. PMID:32730343
A convenient protein library for spectroscopic calibrations. PMID:32728409
Mitochondria and Peroxisome Remodeling across Cytomegalovirus Infection Time Viewed through the Lens of Inter-ViSTA. PMID:32726614
A defect in COPI-mediated transport of STING causes immune dysregulation in COPA syndrome. PMID:32725126
Comparison of spleen transcriptomes of two wild rodent species reveals differences in the immune response against Borrelia afzelii. PMID:32724523
A Pilot Study of Multi-Input Recurrent Neural Networks for Drug-Kinase Binding Prediction. PMID:32722290
Computationally Optimized SARS-CoV-2 MHC Class I and II Vaccine Formulations Predicted to Target Human Haplotype Distributions. PMID:32721383
Analysis of ACE2 Gene-Encoded Proteins Across Mammalian Species. PMID:32719819
Batch-Learning Self-Organizing Map Identifies Horizontal Gene Transfer Candidates and Their Origins in Entire Genomes. PMID:32719664
Role of Mitochondrial Glycerol-3-Phosphate Dehydrogenase in Metabolic Adaptations of Prostate Cancer. PMID:32717855
A Coordinated Approach by Public Domain Bioinformatics Resources to Aid the Fight Against Alzheimer's Disease Through Expert Curation of Key Protein Targets. PMID:32716361
Identification of Sulfenylated Cysteines in Arabidopsis thaliana Proteins Using a Disulfide-Linked Peptide Reporter. PMID:32714340
NAuRA: Genomic Tool to Identify Staphylococcal Enterotoxins in Staphylococcus aureus Strains Responsible for FoodBorne Outbreaks. PMID:32714310
PertInInt: An Integrative, Analytical Approach to Rapidly Uncover Cancer Driver Genes with Perturbed Interactions and Functionalities. PMID:32711844
Neotropical Rattlesnake (Crotalus simus) Venom Pharmacokinetics in Lymph and Blood Using an Ovine Model. PMID:32708875
Carbonic Anhydrase VI in Skin Wound Healing Study on Car6 Knockout Mice. PMID:32708518
Characteristics of Extracellular Vesicles Released by the Pathogenic Yeast-Like Fungi Candida glabrata, Candida parapsilosis and Candida tropicalis. PMID:32708393
Characteristics of Biopeptides Released In Silico from Collagens Using Quantitative Parameters. PMID:32708318
Identification of RNA-Binding Proteins as Targetable Putative Oncogenes in Neuroblastoma. PMID:32707690
Single-nucleotide conservation state annotation of the SARS-CoV-2 genome. PMID:32699851
Pseudo-RNA-Binding Domains Mediate RNA Structure Specificity in Upstream of N-Ras. PMID:32697992
Systematic mapping of genetic interactions for de novo fatty acid synthesis identifies C12orf49 as a regulator of lipid metabolism. PMID:32694731
Increased nuclear factor I/B expression in prostate cancer correlates with AR expression. PMID:32692871
A novel CACNA1A variant in a child with early stroke and intractable epilepsy. PMID:32692472
Expansions and contractions in gene families of independently-evolved blood-feeding insects. PMID:32680460
SARS-CoV-2 Main Protease: A Molecular Dynamics Study. PMID:32678588
Chain reactions: molecular mechanisms of RBR ubiquitin ligases. PMID:32677670
Experimental approaches to tracking mobile genetic elements in microbial communities. PMID:32672812
Molecular docking analyses of CYP450 monooxygenases of Tribolium castaneum (Herbst) reveal synergism of quercetin with paraoxon and tetraethyl pyrophosphate: in vivo and in silico studies. PMID:32670552
Computational approaches in viral ecology. PMID:32670501
Black Soldier Fly Larvae Adapt to Different Food Substrates through Morphological and Functional Responses of the Midgut. PMID:32668813
Targeting Endogenous K-RAS for Degradation through the Affinity-Directed Protein Missile System. PMID:32668202
Unified inference of missense variant effects and gene constraints in the human genome. PMID:32667917
Uncoupling sodium channel dimers restores the phenotype of a pain-linked Nav 1.7 channel mutation. PMID:32663327
First-Principles Collision Cross Section Measurements of Large Proteins and Protein Complexes. PMID:32662991
Characterization of glutathione proteome in CHO cells and its relationship with productivity and cholesterol synthesis. PMID:32662871
Metabolic networks of the Nicotiana genus in the spotlight: content, progress and outlook. PMID:32662816
Adenovirus-mediated ubiquitination alters protein-RNA binding and aids viral RNA processing. PMID:32661314
Drosophila Glia: Models for Human Neurodevelopmental and Neurodegenerative Disorders. PMID:32660023
Benchmarking gene ontology function predictions using negative annotations. PMID:32657372
Detection and Independent Validation of Model-Based Quantitative Transcriptional Regulation Relationships Altered in Lung Cancers. PMID:32656193
Investigation of microbial community interactions between Lake Washington methanotrophs using -------genome-scale metabolic modeling. PMID:32655999
Different Proteins Mediate Step-Wise Chromosome Architectures in Thermoplasma acidophilum and Pyrobaculum calidifontis. PMID:32655523
Hepatoprotective effects of Hovenia dulcis seeds against alcoholic liver injury and related mechanisms investigated via network pharmacology. PMID:32655267
Human carbonic anhydrases and post-translational modifications: a hidden world possibly affecting protein properties and functions. PMID:32648529
Global discovery of bacterial RNA-binding proteins by RNase-sensitive gradient profiles reports a new FinO domain protein. PMID:32646969
Transcriptional responses in Parascaris univalens after in vitro exposure to ivermectin, pyrantel citrate and thiabendazole. PMID:32646465
Machine learning and AI-based approaches for bioactive ligand discovery and GPCR-ligand recognition. PMID:32645448
Human genes differ by their UV sensitivity estimated through analysis of UV-induced silent mutations in melanoma. PMID:32643855
CHEDDA syndrome: a case report and review of the literature for this newly described entity. PMID:32642015
Visualisation tools for dependent peptide searches to support the exploration of in vitro protein modifications. PMID:32639981
SARS-CoV-2 Simulations Go Exascale to Capture Spike Opening and Reveal Cryptic Pockets Across the Proteome. PMID:32637963
Analysis of ACE2 Genetic Variability among Populations Highlights a Possible Link with COVID-19-Related Neurological Complications. PMID:32635188
C5a impairs phagosomal maturation in the neutrophil through phosphoproteomic remodeling. PMID:32634128
Structures of mammalian GLD-2 proteins reveal molecular basis of their functional diversity in mRNA and microRNA processing. PMID:32633758
A Genomic and Transcriptomic Overview of MATE, ABC, and MFS Transporters in Citrus sinensis Interaction with Xanthomonas citri subsp. citri. PMID:32630416
An Economic Dilemma Between Molecular Weapon Systems May Explain an Arachno-atypical Venom in Wasp Spiders (Argiope bruennichi). PMID:32630016
Unravelling the proteomic signature of extracellular vesicles released by drug-resistant Leishmania infantum parasites. PMID:32628683
Sequence Compression Benchmark (SCB) database-A comprehensive evaluation of reference-free compressors for FASTA-formatted sequences. PMID:32627830
Structural insight into mitochondrial β-barrel outer membrane protein biogenesis. PMID:32620929
Analysis of H3K4me3 and H3K27me3 bivalent promotors in HER2+ breast cancer cell lines reveals variations depending on estrogen receptor status and significantly correlates with gene expression. PMID:32620123
Ultra-High-Throughput Clinical Proteomics Reveals Classifiers of COVID-19 Infection. PMID:32619549
Prediction of Nephrotoxicity Associated With Cisplatin-Based Chemotherapy in Testicular Cancer Patients. PMID:32617516
Glutamyl-Prolyl-tRNA Synthetase Regulates Proline-Rich Pro-Fibrotic Protein Synthesis During Cardiac Fibrosis. PMID:32611237
Eukaryotic life without tQCUG: the role of Elongator-dependent tRNA modifications in Dictyostelium discoideum. PMID:32609816
RNAWRE: a resource of writers, readers and erasers of RNA modifications. PMID:32608478
Development and validation of protein biomarkers of health in grizzly bears. PMID:32607241
Germline Mutations in DNA Repair Genes in Patients With Metastatic Castration-resistant Prostate Cancer. PMID:32606146
Ultrastructural, Cytochemical, and Comparative Genomic Evidence of Peroxisomes in Three Genera of Pathogenic Free-Living Amoebae, Including the First Morphological Data for the Presence of This Organelle in Heteroloboseans. PMID:32602891
Computational Chemogenomics Drug Repositioning Strategy Enables the Discovery of Epirubicin as a New Repurposed Hit for Plasmodium falciparum and P. vivax. PMID:32601162
Experimentally Determined Long Intrinsically Disordered Protein Regions Are Now Abundant in the Protein Data Bank. PMID:32599863
Fulvic acid increases forage legume growth inducing preferential up-regulation of nodulation and signalling-related genes. PMID:32599619
Designing a novel mRNA vaccine against SARS-CoV-2: An immunoinformatics approach. PMID:32599237
Single-cell RNA sequencing reveals cell type- and artery type-specific vascular remodelling in male spontaneously hypertensive rats. PMID:32589721
The IMEx Coronavirus interactome: an evolving map of Coronaviridae-Host molecular interactions. PMID:32587962
Structure and Dynamics in the ATG8 Family From Experimental to Computational Techniques. PMID:32587856
Phloem Exudate Protein Profiles during Drought and Recovery Reveal Abiotic Stress Responses in Tomato Vasculature. PMID:32586033
CD2 Immunobiology. PMID:32582179
Transcriptome Analysis of Wounding in the Model Grass Lolium temulentum. PMID:32580425
Structure-Based Discovery of Dual-Target Hits for Acetylcholinesterase and the α7 Nicotinic Acetylcholine Receptors: In Silico Studies and In Vitro Confirmation. PMID:32580406
Platon: identification and characterization of bacterial plasmid contigs in short-read draft assemblies exploiting protein sequence-based replicon distribution scores. PMID:32579097
Whole-genome sequence association analysis of blood proteins in a longitudinal wellness cohort. PMID:32576278
Elucidation of cellular targets and exploitation of the receptor-binding domain of SARS-CoV-2 for vaccine and monoclonal antibody synthesis. PMID:32573788
Genome-Wide Identification of RNA Silencing-Related Genes and Their Expressional Analysis in Response to Heat Stress in Barley (Hordeum vulgare L.). PMID:32570964
Pontiella desulfatans gen. nov., sp. nov., and Pontiella sulfatireligans sp. nov., Two Marine Anaerobes of the Pontiellaceae fam. nov. Producing Sulfated Glycosaminoglycan-like Exopolymers. PMID:32570748
Venomics Approach Reveals a High Proportion of Lactrodectus-Like Toxins in the Venom of the Noble False Widow Spider Steatoda nobilis. PMID:32570718
Assessing predictors for new post translational modification sites: A case study on hydroxylation. PMID:32569263
Identification of Active Compounds of Mahuang Fuzi Xixin Decoction and Their Mechanisms of Action by LC-MS/MS and Network Pharmacology. PMID:32565854
Non-cooperative 4E-BP2 folding with exchange between eIF4E-binding and binding-incompatible states tunes cap-dependent translation inhibition. PMID:32561718
T-Cell Epitopes and Neo-epitopes in Type 1 Diabetes: A Comprehensive Update and Reappraisal. PMID:32561620
Prognostic Biomarkers in Endometrial Cancer: A Systematic Review and Meta-Analysis. PMID:32560580
The Chromatin Regulator ZMYM2 Restricts Human Pluripotent Stem Cell Growth and Is Essential for Teratoma Formation. PMID:32559458
DeepRMethylSite: a deep learning based approach for prediction of arginine methylation sites in proteins. PMID:32555810
Functional shell matrix proteins tentatively identified by asymmetric snail shell morphology. PMID:32555253
Phosphoregulated orthogonal signal transduction in mammalian cells. PMID:32555187
Genomic Rewiring of SOX2 Chromatin Interaction Network during Differentiation of ESCs to Postmitotic Neurons. PMID:32553182
Patterns of Sequence and Expression Diversification Associate Members of the PADRE Gene Family With Response to Fungal Pathogens. PMID:32547597
Network Pharmacology and Experimental Evidence Reveal Dioscin Suppresses Proliferation, Invasion, and EMT via AKT/GSK3b/mTOR Signaling in Lung Adenocarcinoma. PMID:32546976
Simulating the evolutionary trajectories of metabolic pathways for insect symbionts in the genus Sodalis. PMID:32543366
GTDB: an integrated resource for glycosyltransferase sequences and annotations. PMID:32542364
Using online tools at the Bovine Genome Database to manually annotate genes in the new reference genome. PMID:32537769
Ionizing Radiation-induced Proteomic Oxidation in Escherichia coli. PMID:32536603
Molecular Structure, Binding Affinity, and Biological Activity in the Epigenome. PMID:32531926
DDIEM: drug database for inborn errors of metabolism. PMID:32527280
mRNA Interferase Bacillus cereus BC0266 Shows MazF-Like Characteristics Through Structural and Functional Study. PMID:32521689
More Than One-to-Four via 2R: Evidence of an Independent Amphioxus Expansion and Two-Gene Ancestral Vertebrate State for MyoD-Related Myogenic Regulatory Factors (MRFs). PMID:32520990
ACE2 diversity in placental mammals reveals the evolutionary strategy of SARS-CoV-2. PMID:32520981
BacEffluxPred: A two-tier system to predict and categorize bacterial efflux mediated antibiotic resistance proteins. PMID:32518231
Amino acid encoding for deep learning applications. PMID:32517697
CapsNet-SSP: multilane capsule network for predicting human saliva-secretory proteins. PMID:32517646
PSIONplusm Server for Accurate Multi-Label Prediction of Ion Channels and Their Types. PMID:32517331
The effect of phytoglobin overexpression on the plant proteome during nonhost response of barley (Hordeum vulgare) to wheat powdery mildew (Blumeria graminis f. sp. tritici). PMID:32513937
Computational Models Identify Several FDA Approved or Experimental Drugs as Putative Agents Against SARS-CoV-2. PMID:32511287
Identifying temporal molecular signatures underlying cardiovascular diseases: A data science platform. PMID:32504647
An evolutionarily conserved motif is required for Plasmodesmata-located protein 5 to regulate cell-to-cell movement. PMID:32504045
Proteins and Molecular Pathways Relevant for the Malignant Properties of Tumor-Initiating Pancreatic Cancer Cells. PMID:32503348
The minimal meningococcal ProQ protein has an intrinsic capacity for structure-based global RNA recognition. PMID:32499480
Structural analysis of the PATZ1 BTB domain homodimer. PMID:32496219
Insulin-like Growth Factor-1 and IGF Binding Proteins Predict All-Cause Mortality and Morbidity in Older Adults. PMID:32492897
Effect of pore size and spacing on neovascularization of a biodegradble shape memory polymer perivascular wrap. PMID:32490564
Coevolutionary data-based interaction networks approach highlighting key residues across protein families: The case of the G-protein coupled receptors. PMID:32489528
Genetic architecture underlying changes in carotenoid accumulation during the evolution of the blind Mexican cavefish, Astyanax mexicanus. PMID:32488995
Protein signatures to identify the different genera within the Xanthomonadaceae family. PMID:32488841
Demonstration of In Vitro to In Vivo Translation of a TYK2 Inhibitor That Shows Cross Species Potency Differences. PMID:32488071
An expanded role for dipeptidyl peptidase 4 in cell regulation. PMID:32487805
Using Reactome to build an autophagy mechanism knowledgebase. PMID:32486891
Virulence Potential of a Multidrug-Resistant Escherichia coli Strain Belonging to the Emerging Clonal Group ST101-B1 Isolated from Bloodstream Infection. PMID:32486334
Resveratrol: Multi-Targets Mechanism on Neurodegenerative Diseases Based on Network Pharmacology. PMID:32477148
Phenotype expansion of heterozygous FOXC1 pathogenic variants toward involvement of congenital anomalies of the kidneys and urinary tract (CAKUT). PMID:32475988
Anti-Alzheimer's Disease Molecular Mechanism of Acori Tatarinowii Rhizoma Based on Network Pharmacology. PMID:32475979
Binding affinities of 438 HLA proteins to complete proteomes of seven pandemic viruses and distributions of strongest and weakest HLA peptide binders in populations worldwide. PMID:32475052
Molecular signature of eutopic endometrium in endometriosis based on the multi-omics integrative synthesis. PMID:32474803
Engineered triply orthogonal pyrrolysyl-tRNA synthetase/tRNA pairs enable the genetic encoding of three distinct non-canonical amino acids. PMID:32472101
dbPSP 2.0, an updated database of protein phosphorylation sites in prokaryotes. PMID:32472030
Detecting Gene Ontology misannotations using taxon-specific rate ratio comparisons. PMID:32470107
piNET: a versatile web platform for downstream analysis and visualization of proteomics data. PMID:32469073
Draft Genome Sequences of Rhodococcus sp. Strains YH1 and T7, Isolated from Explosive-Contaminated Environments. PMID:32467261
The Mouse Heart Mitochondria N Terminome Provides Insights into ClpXP-Mediated Proteolysis. PMID:32467259
Mining the Yucatan Coastal Microbiome for the Identification of Non-Ribosomal Peptides Synthetase (NRPS) Genes. PMID:32466531
High-resolution annotation of the mouse preimplantation embryo transcriptome using long-read sequencing. PMID:32461551
Long-read bitter gourd (Momordica charantia) genome and the genomic architecture of nonclassic domestication. PMID:32461376
Dual Independent Roles of the p24 Complex in Selectivity of Secretory Cargo Export from the Endoplasmic Reticulum. PMID:32456004
Unstructured Biology of Proteins from Ubiquitin-Proteasome System: Roles in Cancer and Neurodegenerative Diseases. PMID:32455657
Balance between asymmetry and abundance in multi-domain DNA-binding proteins may regulate the kinetics of their binding to DNA. PMID:32453726
A strategy for large-scale comparison of evolutionary- and reaction-based classifications of enzyme function. PMID:32449511
Phase-separated bacterial ribonucleoprotein bodies organize mRNA decay. PMID:32445438
Single-cell analysis of murine fibroblasts identifies neonatal to adult switching that regulates cardiomyocyte maturation. PMID:32444791
GPS-PBS: A Deep Learning Framework to Predict Phosphorylation Sites that Specifically Interact with Phosphoprotein-Binding Domains. PMID:32443803
Maternal Protein Restriction in Rats Alters the Expression of Genes Involved in Mitochondrial Metabolism and Epitranscriptomics in Fetal Hypothalamus. PMID:32438566
Gene network analyses support subfunctionalization hypothesis for duplicated hsp70 genes in the Antarctic clam. PMID:32436134
TASL is the SLC15A4-associated adaptor for IRF5 activation by TLR7-9. PMID:32433612
Ensembles of Hydrophobicity Scales as Potent Classifiers for Chimeric Virus-Like Particle Solubility - An Amino Acid Sequence-Based Machine Learning Approach. PMID:32432098
The NtrYX Two-Component System Regulates the Bacterial Cell Envelope. PMID:32430476
'Kinesinopathies': emerging role of the kinesin family member genes in birth defects. PMID:32430361
A novel proangiogenic B cell subset is increased in cancer and chronic inflammation. PMID:32426497
Secretome-Based Screening in Target Discovery. PMID:32425085
Live-cell protein engineering with an ultra-short split intein. PMID:32424098
PlaToLoCo: the first web meta-server for visualization and annotation of low complexity regions in proteins. PMID:32421769
Progress, Challenges, and Surprises in Annotating the Human Genome. PMID:32421357
Natural brominated phenoxyphenols kill persistent and biofilm-incorporated cells of MRSA and other pathogenic bacteria. PMID:32418125
Gene Ontology Curation of Neuroinflammation Biology Improves the Interpretation of Alzheimer's Disease Gene Expression Data. PMID:32417785
COVID-19: CADD to the rescue. PMID:32417181
The Role of Gene Elongation in the Evolution of Histidine Biosynthetic Genes. PMID:32414216
Genotype-phenotype analysis of LMNA-related diseases predicts phenotype-selective alterations in lamin phosphorylation. PMID:32413188
Missense NR2F1 variant in monozygotic twins affected with the Bosch-Boonstra-Schaaf optic atrophy syndrome. PMID:32412696
SDN2GO: An Integrated Deep Learning Model for Protein Function Prediction. PMID:32411695
Chromosome-Scale Assembly of Winter Oilseed Rape Brassica napus. PMID:32411167
RNA-Binding Proteins in Acute Leukemias. PMID:32408494
Aberrant glycosylation in schizophrenia: a review of 25 years of post-mortem brain studies. PMID:32404945
Trefoil factors share a lectin activity that defines their role in mucus. PMID:32404934
Molecular determinants underlying functional innovations of TBP and their impact on transcription initiation. PMID:32404905
Search for ABCB1 Modulators Among 2-Amine-5-Arylideneimidazolones as a New Perspective to Overcome Cancer Multidrug Resistance. PMID:32403277
UniRule: a unified rule resource for automatic annotation in the UniProt Knowledgebase. PMID:32399560
Terminating contamination: large-scale search identifies more than 2,000,000 contaminated entries in GenBank. PMID:32398145
Biochemical Convergence of Mitochondrial Hsp70 System Specialized in Iron-Sulfur Cluster Biogenesis. PMID:32397253
Secretion of a low and high molecular weight β-glycosidase by Yarrowia lipolytica. PMID:32393258
EnzymeMiner: automated mining of soluble enzymes with diverse structures, catalytic properties and stabilities. PMID:32392342
Cysteines and Disulfide Bonds as Structure-Forming Units: Insights From Different Domains of Life and the Potential for Characterization by NMR. PMID:32391319
Identification of potential cervical cancer serum biomarkers in Thai patients. PMID:32391095
Applying knowledge-driven mechanistic inference to toxicogenomics. PMID:32387679
Atypical ALPK2 kinase is not essential for cardiac development and function. PMID:32383995
Network Pharmacology Study of Heat-Clearing and Detoxifying Traditional Chinese Medicine for Alzheimer's Disease. PMID:32382304
Self-analysis of repeat proteins reveals evolutionarily conserved patterns. PMID:32381046
The tapeworm interactome: inferring confidence scored protein-protein interactions from the proteome of Hymenolepis microstoma. PMID:32380953
Revisiting TNF Receptor-Associated Periodic Syndrome (TRAPS): Current Perspectives. PMID:32380704
Glycobiology and schizophrenia: a biological hypothesis emerging from genomic research. PMID:32377000
Integrative analyses of the RNA modification machinery reveal tissue- and cancer-specific signatures. PMID:32375858
The Quest for Orthologs benchmark service and consensus calls in 2020. PMID:32374845
SARS-CoV-2 and ORF3a: Nonsynonymous Mutations, Functional Domains, and Viral Pathogenesis. PMID:32371472
Cryo-EM Structure of the Fork Protection Complex Bound to CMG at a Replication Fork. PMID:32369734
Synergistic and antagonistic drug interactions in the treatment of systemic fungal infections. PMID:32367801
UPCLASS: a deep learning-based classifier for UniProtKB entry publications. PMID:32367111
Exomes of Ductal Luminal Breast Cancer Patients from Southwest Colombia: Gene Mutational Profile and Related Expression Alterations. PMID:32365829
Protein markers for Candida albicans EVs include claudin-like Sur7 family proteins. PMID:32363014
Integrative Proteome and Acetylome Analyses of Murine Responses to Cryptococcus neoformans Infection. PMID:32362878
Recent hybrids recapitulate ancient hybrid outcomes. PMID:32358487
Extracellular Vesicles Secreted by Corneal Epithelial Cells Promote Myofibroblast Differentiation. PMID:32357574
Structure of the 4-hydroxy-tetrahydrodipicolinate synthase from the thermoacidophilic methanotroph Methylacidiphilum fumariolicum SolV and the phylogeny of the aminotransferase pathway. PMID:32356521
Potential Molecular Mechanisms of Zhibai Dihuang Wan in Systemic Lupus Erythematosus Based on Network Biology. PMID:32351603
Structural analysis of pathogenic missense mutations in GABRA2 and identification of a novel de novo variant in the desensitization gate. PMID:32347641
AFP-LSE: Antifreeze Proteins Prediction Using Latent Space Encoding of Composition of k-Spaced Amino Acid Pairs. PMID:32345989
T cell costimulation, checkpoint inhibitors and anti-tumor therapy. PMID:32345776
Uncovering the mechanism of the effects of Paeoniae Radix Alba on iron-deficiency anaemia through a network pharmacology-based strategy. PMID:32345291
Structure of the ALS Mutation Target Annexin A11 Reveals a Stabilising N-Terminal Segment. PMID:32344647
Light-Activatable, 2,5-Disubstituted Tetrazoles for the Proteome-wide Profiling of Aspartates and Glutamates in Living Bacteria. PMID:32342004
Drug Research Meets Network Science: Where Are We? PMID:32338900
Testis-specific serine kinase protein family in male fertility and as targets for non-hormonal male contraception†. PMID:32337545
Deep conservation of prion-like composition in the eukaryotic prion-former Pub1/Tia1 family and its relatives. PMID:32337108
Synthesis and structure-activity relationships of thieno[2,3-d]pyrimidines as atypical protein kinase C inhibitors to control retinal vascular permeability and cytokine-induced edema. PMID:32327351
Novel Apoptotic Mediators Identified by Conservation of Vertebrate Caspase Targets. PMID:32326640
Hitchhiking with Nature: Snake Venom Peptides to Fight Cancer and Superbugs. PMID:32326531
GlyGen data model and processing workflow. PMID:32324859
Quantitative SWATH-Based Proteomic Profiling for Identification of Mechanism-Driven Diagnostic Biomarkers Conferring in the Progression of Metastatic Prostate Cancer. PMID:32322560
Oculodentodigital Dysplasia: A Case Report and Major Review of the Eye and Ocular Adnexa Features of 295 Reported Cases. PMID:32318302
Binding of the Human 14-3-3 Isoforms to Distinct Sites in the Leucine-Rich Repeat Kinase 2. PMID:32317922
Novel monoclonal antibodies against thymidine kinase 1 and their potential use for the immunotargeting of lung, breast and colon cancer cells. PMID:32317865
Physicochemical Characterisation of KEIF-The Intrinsically Disordered N-Terminal Region of Magnesium Transporter A. PMID:32316569
A transcriptional regulatory network of Rsv3-mediated extreme resistance against Soybean mosaic virus. PMID:32315334
Zebra2: advanced and easy-to-use web-server for bioinformatic analysis of subfamily-specific and conserved positions in diverse protein superfamilies. PMID:32313959
novoPathFinder: a webserver of designing novel-pathway with integrating GEM-model. PMID:32313937
Perturbing proteomes at single residue resolution using base editing. PMID:32313011
On the molecular determinants of the SARS-CoV-2 attack. PMID:32311462
Ceramide launches an acute anti-adhesion pro-migration cell signaling program in response to chemotherapy. PMID:32307766
Cold-inducible RNA-binding protein Cirp, but not Rbm3, may regulate transcript processing and protection in tissues of the hibernating ground squirrel. PMID:32307648
Active constituents and mechanisms of Respiratory Detox Shot, a traditional Chinese medicine prescription, for COVID-19 control and prevention: Network-molecular docking-LC-MSE analysis. PMID:32307268
Cathepsin B in neurodegeneration of Alzheimer's disease, traumatic brain injury, and related brain disorders. PMID:32305689
Transcriptome profiling and protease inhibition experiments identify proteases that activate H3N2 influenza A and influenza B viruses in murine airways. PMID:32303635
Draft Genome Sequence of Gordonia sp. Strain YY1, Isolated from an Explosive-Contaminated Environment. PMID:32299869
Juvenile Paget's Disease From Heterozygous Mutation of SP7 Encoding Osterix (Specificity Protein 7, Transcription Factor SP7). PMID:32298837
Disruption of genes associated with Charcot-Marie-Tooth type 2 lead to common behavioural, cellular and molecular defects in Caenorhabditis elegans. PMID:32294113
Being red, blue and green: the genetic basis of coloration differences in the strawberry poison frog (Oophaga pumilio). PMID:32293261
Specificity in PDZ-peptide interaction networks: Computational analysis and review. PMID:32289118
Metabolomics Adaptation of Juvenile Pacific Abalone Haliotis discus hannai to Heat Stress. PMID:32286374
LARP1 isoform expression in human cancer cell lines. PMID:32286153
Structured reviews for data and knowledge-driven research. PMID:32283553
Opening up connectivity between documents, structures and bioactivity. PMID:32280387
Portable nanopore analytics: are we there yet? PMID:32277811
Genome-Wide Changes in Genetic Diversity in a Population of Myotis lucifugus Affected by White-Nose Syndrome. PMID:32276959
Network Systems Pharmacology-Based Mechanism Study on the Beneficial Effects of Vitamin D against Psychosis in Alzheimer's Disease. PMID:32273551
Quantitative phenotyping of shell suture strength in walnut (Juglans regia L.) enhances precision for detection of QTL and genome-wide association mapping. PMID:32271818
Pseudomonas putida KT2440 is naturally endowed to withstand industrial-scale stress conditions. PMID:32267616
PRESnovo: Prescreening Prior to de novo Sequencing to Improve Accuracy and Sensitivity of Neuropeptide Identification. PMID:32266812
Mob Family Proteins: Regulatory Partners in Hippo and Hippo-Like Intracellular Signaling Pathways. PMID:32266255
Patterns of gene evolution following duplications and speciations in vertebrates. PMID:32266119
Two-Level Protein Methylation Prediction using structure model-based features. PMID:32265459
CDH1 Mutation Distribution and Type Suggests Genetic Differences between the Etiology of Orofacial Clefting and Gastric Cancer. PMID:32260281
Peptidylarginine Deiminase of Porphyromonas gingivalis Modulates the Interactions between Candida albicans Biofilm and Human Plasminogen and High-Molecular-Mass Kininogen. PMID:32260245
Unraveling 1,4-Butanediol Metabolism in Pseudomonas putida KT2440. PMID:32256468
A novel compound heterozygous missense mutation in ASNS broadens the spectrum of asparagine synthetase deficiency. PMID:32255274
MaveQuest: a web resource for planning experimental tests of human variant effects. PMID:32251504
Entropy based analysis of vertebrate sperm protamines sequences: evidence of potential dityrosine and cysteine-tyrosine cross-linking in sperm protamines. PMID:32245406
Characteristics of Potential Protein Nutraceuticals of Plant Origin with Antioxidant Activity. PMID:32244766
Overexpression of antisense long non‑coding RNA ZNF710‑AS1‑202 promotes cell proliferation and inhibits apoptosis of clear cell renal cell carcinoma via regulation of ZNF710 expression. PMID:32236626
Systematic analysis of lysine acetylome and succinylome reveals the correlation between modification of H2A.X complexes and DNA damage response in breast cancer. PMID:32236595
Deep evolutionary analysis reveals the design principles of fold A glycosyltransferases. PMID:32234211
Genomic and transcriptomic evidence of light-sensing, porphyrin biosynthesis, Calvin-Benson-Bassham cycle, and urea production in Bathyarchaeota. PMID:32234071
Centenarian Exomes as a Tool for Evaluating the Clinical Relevance of Germline Tumor Suppressor Mutations. PMID:32233832
Musashi-1: An Example of How Polyalanine Tracts Contribute to Self-Association in the Intrinsically Disordered Regions of RNA-Binding Proteins. PMID:32225071
Long-Read Genome Sequencing and Assembly of Leptopilina boulardi: A Specialist Drosophila Parasitoid. PMID:32217632
The transcriptome of the newt Cynops orientalis provides new insights into evolution and function of sexual gene networks in sarcopterygians. PMID:32214214
Metabolic factors contribute to T-cell inhibition in the ovarian cancer ascites. PMID:32208517
Bioinformatic Analysis of the Flavin-Dependent Amine Oxidase Superfamily: Adaptations for Substrate Specificity and Catalytic Diversity. PMID:32198115
Proteomic signatures of in vivo muscle oxidative capacity in healthy adults. PMID:32196924
A Pan-plant Protein Complex Map Reveals Deep Conservation and Novel Assemblies. PMID:32191846
Association of Peroxisome Proliferator-Activated Receptors (PPARs) with Diabetic Retinopathy in Human and Animal Models: Analysis of the Literature and Genome Browsers. PMID:32190036
Non‑invasive proteome‑wide quantification of skin barrier‑related proteins using label‑free LC‑MS/MS analysis. PMID:32186761
In Vivo Thermodynamic Analysis of Glycolysis in Clostridium thermocellum and Thermoanaerobacterium saccharolyticum Using 13C and 2H Tracers. PMID:32184362
Variant effect predictions capture some aspects of deep mutational scanning experiments. PMID:32183714
Cyclosporine a directly affects human and mouse b cell migration in vitro by disrupting a hIF-1 αdependent, o2 sensing, molecular switch. PMID:32183695
Inherited DNA Repair Gene Mutations in Men with Lethal Prostate Cancer. PMID:32183364
Genomic Landscape and Mutational Spectrum of ADAMTS Family Genes in Mendelian Disorders Based on Gene Evidence Review for Variant Interpretation. PMID:32183147
Wikidata as a knowledge graph for the life sciences. PMID:32180547
In-depth proteome analysis of more than 12,500 proteins in buffalo mammary epithelial cell line identifies protein signatures for active proliferation and lactation. PMID:32179766
Gene mutations distinguishing gastric from colorectal and esophageal adenocarcinomas. PMID:32175104
SPOT-Disorder2: Improved Protein Intrinsic Disorder Prediction by Ensembled Deep Learning. PMID:32173600
Enabling reusability of plant phenomic datasets with MIAPPE 1.1. PMID:32171029
Biochemical and Genetic Analysis Identify CSLD3 as a beta-1,4-Glucan Synthase That Functions during Plant Cell Wall Synthesis. PMID:32169960
Performance of virtual screening against GPCR homology models: Impact of template selection and treatment of binding site plasticity. PMID:32168319
Complexities in Genetics of Psoriatic Arthritis. PMID:32166449
Flavodoxins as Novel Therapeutic Targets against Helicobacter pylori and Other Gastric Pathogens. PMID:32164177
von Willebrand factor D and EGF domains is an evolutionarily conserved and required feature of blastemas capable of multitissue appendage regeneration. PMID:32163674
Mitochondrial peptide BRAWNIN is essential for vertebrate respiratory complex III assembly. PMID:32161263
A method for CRISPR/Cas9 mutation of genes in fathead minnow (Pimephales promelas). PMID:32160575
ProteoClade: A taxonomic toolkit for multi-species and metaproteomic analysis. PMID:32150535
OncoMX: A Knowledgebase for Exploring Cancer Biomarkers in the Context of Related Cancer and Healthy Data. PMID:32142370
Structural insights into the mechanism of oxidative activation of heme-free H-NOX from Vibrio cholerae. PMID:32141496
Structural and biochemical characterization of mitochondrial citrate synthase 4 from Arabidopsis thaliana. PMID:32133996
Identification of Milk and Cheese Intake Biomarkers in Healthy Adults Reveals High Interindividual Variability of Lewis System-Related Oligosaccharides. PMID:32133503
Comparative genomic analysis reveals high intra-serovar plasticity within Salmonella Napoli isolated in 2005-2017. PMID:32131727
Transcriptomic resources for evolutionary studies in flat periwinkles and related species. PMID:32127542
Systematic Localization of Escherichia coli Membrane Proteins. PMID:32127419
Human Hepatocyte Nuclear Factor 4-α Encodes Isoforms with Distinct Transcriptional Functions. PMID:32123031
Arabidopsis RanBP2-Type Zinc Finger Proteins Related to Chloroplast RNA Editing Factor OZ1. PMID:32121603
Molecular Evolution and Diversification of Proteins Involved in miRNA Maturation Pathway. PMID:32121542
Differential Dorsolateral Prefrontal Cortex Proteomic Profiles of Suicide Victims with Mood Disorders. PMID:32120974
Dynamic Alternative Splicing During Mouse Preimplantation Embryo Development. PMID:32117919
Chronic Sublethal Aluminum Exposure and Avena fatua Caryopsis Colonization Influence Gene Expression of Fusarium avenaceum F.a.1. PMID:32117103
Spatial proteomics revealed a CX3CL1-dependent crosstalk between the urothelium and relocated macrophages through IL-6 during an acute bacterial infection in the urinary bladder. PMID:32112048
Mass spectrometry-based identification of a B-cell maturation antigen-derived T-cell epitope for antigen-specific immunotherapy of multiple myeloma. PMID:32111817
Metagenomics-Guided Discovery of Potential Bacterial Metallothionein Genes from the Soil Microbiome That Confer Cu and/or Cd Resistance. PMID:32111593
Whole-Genome Sequencing of Lactobacillus helveticus D75 and D76 Confirms Safety and Probiotic Potential. PMID:32111071
A Quantitative Tissue-Specific Landscape of Protein Redox Regulation during Aging. PMID:32109415
The Evolution History of Fe-S Cluster A-Type Assembly Protein Reveals Multiple Gene Duplication Events and Essential Protein Motifs. PMID:32108236
Extending Comet for Global Amino Acid Variant and Post-Translational Modification Analysis Using the PSI Extended FASTA Format. PMID:32106352
Predicted Drosophila Interactome Resource and web tool for functional interpretation of differentially expressed genes. PMID:32103267
Computational Identification and Analysis of Ubiquinone-Binding Proteins. PMID:32102444
Rational Design of Photo-Electrochemical Hybrid Devices Based on Graphene and Chlamydomonas reinhardtii Light-Harvesting Proteins. PMID:32099058
Analysis of protein missense alterations by combining sequence- and structure-based methods. PMID:32096919
Extracellular loops matter - subcellular location and function of the lysine transporter Lyp1 from Saccharomyces cerevisiae. PMID:32096906
Simultaneous Immunoglobulin A and G Glycopeptide Profiling for High-Throughput Applications. PMID:32091889
Specific Conformational Dynamics and Expansion Underpin a Multi-Step Mechanism for Specific Binding of p27 with Cdk2/Cyclin A. PMID:32088186
Transcriptomics at Maize Embryo/Endosperm Interfaces Identifies a Transcriptionally Distinct Endosperm Subdomain Adjacent to the Embryo Scutellum. PMID:32086366
An α/β-Hydrolase Fold Subfamily Comprising Pseudomonas Quinolone Signal-Cleaving Dioxygenases. PMID:32086305
A New Family of Diverse Skin Peptides from the Microhylid Frog Genus Phrynomantis. PMID:32085597
Identification of a novel base J binding protein complex involved in RNA polymerase II transcription termination in trypanosomes. PMID:32084124
Changes in nucleus accumbens gene expression accompany sex-specific suppression of spontaneous physical activity in aromatase knockout mice. PMID:32081742
Altering the Neisseria gonorrhoeae pilE Guanine Quadruplex Loop Bases Affects Pilin Antigenic Variation. PMID:32078293
Current Trends in Diagnostics of Viral Infections of Unknown Etiology. PMID:32074965
Data on assessment of safety and tear proteome change in response to orthokeratology lens - Insight from integrating clinical data and next generation proteomics. PMID:32071970
Structural insights into the main S-layer unit of Deinococcus radiodurans reveal a massive protein complex with porin-like features. PMID:32071085
Identification and validation of reference genes for RT-qPCR normalization in wheat meiosis. PMID:32066846
The pan-cancer landscape of prognostic germline variants in 10,582 patients. PMID:32066500
Proteogenomic Characterization of Endometrial Carcinoma. PMID:32059776
Inference of Multisite Phosphorylation Rate Constants and Their Modulation by Pathogenic Mutations. PMID:32059766
Residues of Fluoroquinolone Antibiotics Induce Carbonylation and Reduce In Vitro Digestion of Sarcoplasmic and Myofibrillar Beef Proteins. PMID:32053976
Quantitative Proteomics to Identify Nuclear RNA-Binding Proteins of Malat1. PMID:32050583
A Review of Small Molecule Inhibitors and Functional Probes of Human Cathepsin L. PMID:32041276
Detection of EXP1-Specific CD4+ T Cell Responses Directed Against a Broad Range of Epitopes Including Two Promiscuous MHC Class II Binders During Acute Plasmodium falciparum Malaria. PMID:32038611
Candidate gene screen for potential interaction partners and regulatory targets of the Hox gene labial in the spider Parasteatoda tepidariorum. PMID:32036446
HAMAP as SPARQL rules-A portable annotation pipeline for genomes and proteomes. PMID:32034905
Predicting Antimicrobial and Other Cysteine-Rich Peptides in 1267 Plant Transcriptomes. PMID:32032999
Cis- and Trans-Regulatory Variations in the Domestication of the Chili Pepper Fruit. PMID:32031611
Complete Genome Sequence of Salmonella enterica Siphophage Shemara. PMID:32029558
Discovery of several thousand highly diverse circular DNA viruses. PMID:32014111
Machine Learning Strategy That Leverages Large Data sets to Boost Statistical Power in Small-Scale Experiments. PMID:32009418
The Eupentacta fraudatrix transcriptome provides insights into regulation of cell transdifferentiation. PMID:32001787
PIPE4: Fast PPI Predictor for Comprehensive Inter- and Cross-Species Interactomes. PMID:31996697
The round goby genome provides insights into mechanisms that may facilitate biological invasions. PMID:31992286
Crowd-Sourced Chemistry: Considerations for Building a Standardized Database to Improve Omic Analyses. PMID:31984253
Biobtree: A tool to search, map and visualize bioinformatics identifiers and special keywords. PMID:31984130
Assessing Structural Determinants of Zn2+ Binding to Human HV1 via Multiple MD Simulations. PMID:31972155
Biotin proximity tagging favours unfolded proteins and enables the study of intrinsically disordered regions. PMID:31969649
Plant based production of myoglobin - a novel source of the muscle heme-protein. PMID:31969582
Inference of Multisite Phosphorylation Rate Constants and Their Modulation by Pathogenic Mutations. PMID:32059766
Residues of Fluoroquinolone Antibiotics Induce Carbonylation and Reduce In Vitro Digestion of Sarcoplasmic and Myofibrillar Beef Proteins. PMID:32053976
Quantitative Proteomics to Identify Nuclear RNA-Binding Proteins of Malat1. PMID:32050583
A Review of Small Molecule Inhibitors and Functional Probes of Human Cathepsin L. PMID:32041276
Detection of EXP1-Specific CD4+ T Cell Responses Directed Against a Broad Range of Epitopes Including Two Promiscuous MHC Class II Binders During Acute Plasmodium falciparum Malaria. PMID:32038611
Candidate gene screen for potential interaction partners and regulatory targets of the Hox gene labial in the spider Parasteatoda tepidariorum. PMID:32036446
HAMAP as SPARQL rules-A portable annotation pipeline for genomes and proteomes. PMID:32034905
Predicting Antimicrobial and Other Cysteine-Rich Peptides in 1267 Plant Transcriptomes. PMID:32032999
Cis- and Trans-Regulatory Variations in the Domestication of the Chili Pepper Fruit. PMID:32031611
Complete Genome Sequence of Salmonella enterica Siphophage Shemara. PMID:32029558
Discovery of several thousand highly diverse circular DNA viruses. PMID:32014111
Machine Learning Strategy That Leverages Large Data sets to Boost Statistical Power in Small-Scale Experiments. PMID:32009418
The Eupentacta fraudatrix transcriptome provides insights into regulation of cell transdifferentiation. PMID:32001787
PIPE4: Fast PPI Predictor for Comprehensive Inter- and Cross-Species Interactomes. PMID:31996697
The round goby genome provides insights into mechanisms that may facilitate biological invasions. PMID:31992286
Crowd-Sourced Chemistry: Considerations for Building a Standardized Database to Improve Omic Analyses. PMID:31984253
Biobtree: A tool to search, map and visualize bioinformatics identifiers and special keywords. PMID:31984130
Assessing Structural Determinants of Zn2+ Binding to Human HV1 via Multiple MD Simulations. PMID:31972155
Biotin proximity tagging favours unfolded proteins and enables the study of intrinsically disordered regions. PMID:31969649
Plant based production of myoglobin - a novel source of the muscle heme-protein. PMID:31969582
Photobiomodulation does not influence maturation and mildly improves functional healing of mouse achilles tendons. PMID:31965620
Four high-quality draft genome assemblies of the marine heterotrophic nanoflagellate Cafeteria roenbergensis. PMID:31964893
Building a pipeline to solicit expert knowledge from the community to aid gene summary curation. PMID:31960022
Quantitative Characterization of the Neuropeptide Level Changes in Dorsal Horn and Dorsal Root Ganglia Regions of the Murine Itch Models. PMID:31957451
Computational Analysis of the Silver Nanoparticle-Human Serum Albumin Complex. PMID:31956763
Open Data for Differential Network Analysis in Glioma. PMID:31952211
The ELIXIR Core Data Resources: fundamental infrastructure for the life sciences. PMID:31950984
Compound heterozygous mutations in FBN1 in a large family with Marfan syndrome. PMID:31950671
Aluminium-silicon interactions in higher plants: an update. PMID:31950161
From Translation to Protein Degradation as Mechanisms for Regulating Biological Functions: A Review on the SLRP Family in Skeletal Tissues. PMID:31947880
Isolation of an archaeon at the prokaryote-eukaryote interface. PMID:31942073
Deciphering the enzymatic target of a new family of antischistosomal agents bearing a quinazoline scaffold using complementary computational tools. PMID:31939312
Domain-mediated interactions for protein subfamily identification. PMID:31937869
Automatic construction of metabolic models with enzyme constraints. PMID:31937255
Preferential Coupling of Dopamine D2S and D2L Receptor Isoforms with Gi1 and Gi2 Proteins-In Silico Study. PMID:31936673
Uncovering the Pharmacological Mechanism of Stemazole in the Treatment of Neurodegenerative Diseases Based on a Network Pharmacology Approach. PMID:31936558
General and Genomic DNA-Binding Specificity for the Thermus thermophilus HB8 Transcription Factor TTHB023. PMID:31935968
The DNA polymerases of Drosophila melanogaster. PMID:31933406
Emerging patterns of tyrosine sulfation and O-glycosylation cross-talk and co-localization. PMID:31927217
Defining the TLT-1 interactome from resting and activated human platelets. PMID:31923473
Comparative Genomics Analysis of Ciliates Provides Insights on the Evolutionary History Within "Nassophorea-Synhymenia-Phyllopharyngea" Assemblage. PMID:31921016
Structural insight into T cell coinhibition by PD-1H (VISTA). PMID:31919279
The transcriptional correlates of divergent electric organ discharges in Paramormyrops electric fish. PMID:31918666
UDSMProt: universal deep sequence models for protein classification. PMID:31913448
De novo transcriptome assembly and annotation for gene discovery in avocado, macadamia and mango. PMID:31913298
Mobile resistome of human gut and pathogen drives anthropogenic bloom of antibiotic resistance. PMID:31910889
Human Plasma Protein Corona of Aβ Amyloid and Its Impact on Islet Amyloid Polypeptide Cross-Seeding. PMID:31909987
Differential Expression in Testis and Liver Transcriptomes from Four Species of Peromyscus (Rodentia: Cricetidae). PMID:31909812
Identification of antigens presented by MHC for vaccines against tuberculosis. PMID:31908851
A tunable orthogonal coiled-coil interaction toolbox for engineering mammalian cells. PMID:31907374
LLPSDB: a database of proteins undergoing liquid-liquid phase separation in vitro. PMID:31906602
Rad51 paralogs and the risk of unselected breast cancer: A case-control study. PMID:31905201
Fidelity of translation initiation is required for coordinated respiratory complex assembly. PMID:31903419
Complete Genome Sequence of Serratia marcescens Siphophage Slocum. PMID:31896657
Complete Genome Sequence of Serratia marcescens Podophage Pila. PMID:31896656
Complete Genome Sequence of Serratia Phage Muldoon. PMID:31896655
Complete Genome Sequence of Stenotrophomonas Phage Mendera. PMID:31896654
Development of a Retinal-Based Probe for the Profiling of Retinaldehyde Dehydrogenases in Cancer Cells. PMID:31893226
Proceedings of the EuBIC Winter School 2019. PMID:31890545
Analysis of Soybean Long Non-Coding RNAs Reveals a Subset of Small Peptide-Coding Transcripts. PMID:31882456
The Role of E3, E4 Ubiquitin Ligase (UBE4B) in Human Pathologies. PMID:31878315
Pathogenicity Reclasssification of RPE65 Missense Variants Related to Leber Congenital Amaurosis and Early-Onset Retinal Dystrophy. PMID:31878136
Identification of highly conserved, serotype-specific dengue virus sequences: implications for vaccine design. PMID:31874646
The Emerging Role of Cytidine Deaminase in Human Diseases: A New Opportunity for Therapy? PMID:31870623
ODF1, sperm flagelar protein is expressed in kidney collecting ducts of rats. PMID:31867458
Characterization of Human Dosage-Sensitive Transcription Factor Genes. PMID:31867040
Comparison of the transcriptomes of two tardigrades with different hatching coordination. PMID:31864287
Japanese version of The Cancer Genome Atlas, JCGA, established using fresh frozen tumors obtained from 5143 cancer patients. PMID:31863614
Functionally Annotating Regulatory Elements in the Equine Genome Using Histone Mark ChIP-Seq. PMID:31861495
The Terrestrial Carnivorous Plant Utricularia reniformis Sheds Light on Environmental and Life-Form Genome Plasticity. PMID:31861318
Dual action of amitriptyline on NMDA receptors: enhancement of Ca-dependent desensitization and trapping channel block. PMID:31857688
Structural diversity in the atomic resolution 3D fingerprint of the titin M-band segment. PMID:31856237
Comparative analysis of ascorbate peroxidases (APXs) from selected plants with a special focus on Oryza sativa employing public databases. PMID:31856232
Endoplasmic reticulum transmembrane protein TMTC3 contributes to O-mannosylation of E-cadherin, cellular adherence, and embryonic gastrulation. PMID:31851597
Linker Domains: Why ABC Transporters 'Live in Fragments no Longer'. PMID:31839525
Detection and analysis of stable and flexible genes towards a genome signature framework in cancer. PMID:31831960
Engineering G protein-coupled receptor signalling in yeast for biotechnological and medical purposes. PMID:31825496
An intrinsically disordered proteins community for ELIXIR. PMID:31824649
Whole Genome Assembly of the Snout Otter Clam, Lutraria rhynchaena, Using Nanopore and Illumina Data, Benchmarked Against Bivalve Genome Assemblies. PMID:31824566
Analysis of Secondary Structure Biases in Naturally Presented HLA-I Ligands. PMID:31824508
Common Neurodegeneration-Associated Proteins Are Physiologically Expressed by Human B Lymphocytes and Are Interconnected via the Inflammation/Autophagy-Related Proteins TRAF6 and SQSTM1. PMID:31824497
Identification of Novel Putative Bacterial Feruloyl Esterases From Anaerobic Ecosystems by Use of Whole-Genome Shotgun Metagenomics and Genome Binning. PMID:31824458
Crystal structure of phytochromobilin synthase in complex with biliverdin IXα, a key enzyme in the biosynthesis of phytochrome. PMID:31822504
A History of Molecular Chaperone Structures in the Protein Data Bank. PMID:31817979
The Emerging Role of Gβ Subunits in Human Genetic Diseases. PMID:31817184
Accessible and reproducible mass spectrometry imaging data analysis in Galaxy. PMID:31816088
Casimicrobium huifangae gen. nov., sp. nov., a Ubiquitous "Most-Wanted" Core Bacterial Taxon from Municipal Wastewater Treatment Plants. PMID:31811031
Draft Genome Sequence of Enterobacter hormaechei ENT5, a Component of the Symbiotic Community of Tephritid Flies. PMID:31806752
The activating transcription factor 2: an influencer of cancer progression. PMID:31799611
Genomic and proteomic biases inform metabolic engineering strategies for anaerobic fungi. PMID:31799118
A global analysis of function and conservation of catalytic residues in enzymes. PMID:31796628
The Alliance of Genome Resources: Building a Modern Data Ecosystem for Model Organism Databases. PMID:31796553
Identification of four unconventional kinetoplastid kinetochore proteins KKT22-25 in Trypanosoma brucei. PMID:31795916
Structural Features of Tight-Junction Proteins. PMID:31795346
Production and characterization of Aspergillus niger GH29 family α-fucosidase and production of a novel non-reducing 1-fucosyllactose. PMID:31792892
Isotopically Labeled Desthiobiotin Azide (isoDTB) Tags Enable Global Profiling of the Bacterial Cysteinome. PMID:31782878
Membrane-Specific Targeting of Tail-Anchored Proteins SECE1 and SECE2 Within Chloroplasts. PMID:31781139
Crim1C140S mutant mice reveal the importance of cysteine 140 in the internal region 1 of CRIM1 for its physiological functions. PMID:31776724
An omics perspective on drug target discovery platforms. PMID:31774113
A Genetic Screen for Genes That Impact Peroxisomes in Drosophila Identifies Candidate Genes for Human Disease. PMID:31767637
ConSurf-DB: An accessible repository for the evolutionary conservation patterns of the majority of PDB proteins. PMID:31702846
Yield of next-generation neuropathy gene panels in axonal neuropathies. PMID:31701603
JASPAR 2020: update of the open-access database of transcription factor binding profiles. PMID:31701148
The European Bioinformatics Institute in 2020: building a global infrastructure of interconnected data resources for the life sciences. PMID:31701143
PlantRegMap: charting functional regulatory maps in plants. PMID:31701126
Induction of Lysosome-associated Protein Transmembrane 4 Beta via Sulfatase 2 Enhances Autophagic Flux in Liver Cancer Cells. PMID:31701075
Draft Genome Sequence of Bacillus cereus ET31, Isolated from an Extreme Environment. PMID:31699761
Improved Draft Genome Sequence of Microbacterium sp. Strain LKL04, a Bacterial Endophyte Associated with Switchgrass Plants. PMID:31699756
Quantitative Proteomics Reveals Remodeling of Protein Repertoire Across Life Phases of Daphnia pulex. PMID:31697011
Changes to the TDP-43 and FUS Interactomes Induced by DNA Damage. PMID:31693373
Prediction of impacts of mutations on protein structure and interactions: SDM, a statistical approach, and mCSM, using machine learning. PMID:31693276
The IUPHAR/BPS Guide to PHARMACOLOGY in 2020: extending immunopharmacology content and introducing the IUPHAR/MMV Guide to MALARIA PHARMACOLOGY. PMID:31691834
Ensembl 2020. PMID:31691826
DrLLPS: a data resource of liquid-liquid phase separation in eukaryotes. PMID:31691822
PDBe: improved findability of macromolecular structure data in the PDB. PMID:31691821
The Clinical Genome and Ancestry Report: An interactive web application for prioritizing clinically implicated variants from genome sequencing data with ancestry composition. PMID:31691385
Enzyme annotation in UniProtKB using Rhea. PMID:31688925
Diverse cell junctions with unique molecular composition in tissues of a sponge (Porifera). PMID:31687123
The ProteomeXchange consortium in 2020: enabling 'big data' approaches in proteomics. PMID:31686107
Sequence and Structure Properties Uncover the Natural Classification of Protein Complexes Formed by Intrinsically Disordered Proteins via Mutual Synergistic Folding. PMID:31683980
Discovery of High Abundances of Aster-Like Nanoparticles in Pelagic Environments: Characterization and Dynamics. PMID:31681233
The DisGeNET knowledge platform for disease genomics: 2019 update. PMID:31680165
ELM-the eukaryotic linear motif resource in 2020. PMID:31680160
Proteomics Profiling of Autologous Blood and Semen Exosomes from HIV-infected and Uninfected Individuals Reveals Compositional and Functional Variabilities. PMID:31676584
Spider Knottin Pharmacology at Voltage-Gated Sodium Channels and Their Potential to Modulate Pain Pathways. PMID:31671792
Expression of TNRC6 (GW182) Proteins Is Not Necessary for Gene Silencing by Fully Complementary RNA Duplexes. PMID:31670606
NPInter v4.0: an integrated database of ncRNA interactions. PMID:31670377
Reverse diauxie phenotype in Pseudomonas aeruginosa biofilm revealed by exometabolomics and label-free proteomics. PMID:31666981
SIGNOR 2.0, the SIGnaling Network Open Resource 2.0: 2019 update. PMID:31665520
BacFITBase: a database to assess the relevance of bacterial genes during host infection. PMID:31665505
ProteomicsDB: a multi-omics and multi-organism resource for life science research. PMID:31665479
ChlamDB: a comparative genomics database of the phylum Chlamydiae and other members of the Planctomycetes-Verrucomicrobiae-Chlamydiae superphylum. PMID:31665454
Unraveling allosteric landscapes of allosterome with ASD. PMID:31665428
Venom Diversity and Evolution in the Most Divergent Cone Snail Genus Profundiconus. PMID:31661832
Molecular Cloning and Exploration of the Biochemical and Functional Analysis of Recombinant Glucose-6-Phosphate Dehydrogenase from Gluconoacetobacter diazotrophicus PAL5. PMID:31652968
Phage integration alters the respiratory strategy of its host. PMID:31650957
MicroScope: an integrated platform for the annotation and exploration of microbial gene functions through genomic, pangenomic and metabolic comparative analysis. PMID:31647104
Bovine Genome Database: new annotation tools for a new reference genome. PMID:31647100
Pathway Commons 2019 Update: integration, analysis and exploration of pathway data. PMID:31647099
Plasma membrane receptor-like kinases and transporters are associated with 2,4-D resistance in wild radish. PMID:31646341
Candidate genes expression profiling during wilting in chickpea caused by Fusarium oxysporum f. sp. ciceris race 5. PMID:31644597
ExonSkipDB: functional annotation of exon skipping event in human. PMID:31642488
Transcriptomic analysis of Macrobrachium rosenbergii (giant fresh water prawn) post-larvae in response to M. rosenbergii nodavirus (MrNV) infection: de novo assembly and functional annotation. PMID:31640560
A transcriptional response of Clostridium beijerinckii NRRL B-598 to a butanol shock. PMID:31636702
Molecular Phenotyping and Genomic Characterization of a Novel Neuroactive Bacterium Strain, Lactobacillus murinus HU-1. PMID:31636567
Different Pathways Mediate Amphotericin-Lactoferrin Drug Synergy in Cryptococcus and Saccharomyces. PMID:31632362
Integrated Bioinformatic Analyses and Immune Characterization of New Neisseria gonorrhoeae Vaccine Antigens Expressed during Natural Mucosal Infection. PMID:31627489
Determination of Ligand Profiles for Pseudomonas aeruginosa Solute Binding Proteins. PMID:31627455
Complete Genome Sequence of Stenotrophomonas Phage Pokken. PMID:31624175
Complete Genome Sequence of Xanthomonas Siphophage Samson. PMID:31624152
Challenges in the annotation of pseudoenzymes in databases: the UniProtKB approach. PMID:31618524
Going Too Far Is the Same as Falling Short†: Kinesin-3 Family Members in Hereditary Spastic Paraplegia. PMID:31616253
DNAproDB: an expanded database and web-based tool for structural analysis of DNA-protein complexes. PMID:31612957
Guanylin, Uroguanylin and Guanylate Cyclase-C Are Expressed in the Gastrointestinal Tract of Horses. PMID:31611814
Advances and Challenges in Metatranscriptomic Analysis. PMID:31608125
Primary human chondrocytes respond to compression with phosphoproteomic signatures that include microtubule activation. PMID:31607375
VarSite: Disease variants and protein structure. PMID:31606900
Complete Genome Sequence of Proteus mirabilis Siphophage Saba. PMID:31601673
Complete Genome Sequence of Escherichia coli Phage Paul. PMID:31601672
The variability of SMCHD1 gene in FSHD patients: evidence of new mutations. PMID:31600781
MotifAnalyzer-PDZ: A computational program to investigate the evolution of PDZ-binding target specificity. PMID:31599029
Ensembl Genomes 2020-enabling non-vertebrate genomic research. PMID:31598706
ProCarbDB: a database of carbohydrate-binding proteins. PMID:31598690
Global gene expression analysis of Escherichia coli K-12 DH5α after exposure to 2.4 GHz wireless fidelity radiation. PMID:31595026
Uncovering Thousands of New Peptides with Sequence-Mask-Search Hybrid De Novo Peptide Sequencing Framework. PMID:31591261
MatrisomeDB: the ECM-protein knowledge database. PMID:31586405
PDBe-KB: a community-driven resource for structural and functional annotations. PMID:31584092
Complete Genome Sequence of Vibrio natriegens Phage Phriendly. PMID:31582448
Mining for protein S-sulfenylation in Arabidopsis uncovers redox-sensitive sites. PMID:31578252
Genome of Spea multiplicata, a Rapidly Developing, Phenotypically Plastic, and Desert-Adapted Spadefoot Toad. PMID:31578218
SASBDB: Towards an automatically curated and validated repository for biological scattering data. PMID:31576635
Genome Assemblies of Two Rare Opportunistic Yeast Pathogens: Diutina rugosa (syn. Candida rugosa) and Trichomonascus ciferrii (syn. Candida ciferrii). PMID:31575637
Targeting of copper-trafficking chaperones causes gene-specific systemic pathology in Drosophila melanogaster: prospective expansion of mutational landscapes that regulate tumor resistance to cisplatin. PMID:31575544
The cbb 3-type cytochrome oxidase assembly factor CcoG is a widely distributed cupric reductase. PMID:31570589
Human Cysteine Cathepsins Degrade Immunoglobulin G In Vitro in a Predictable Manner. PMID:31569504
Hexa-Longin domain scaffolds for inter-Rab signalling. PMID:31562761
Rotator Cuff Tenocytes Differentiate into Hypertrophic Chondrocyte-Like Cells to Produce Calcium Deposits in an Alkaline Phosphatase-Dependent Manner. PMID:31561454
Paralog dependency indirectly affects the robustness of human cells. PMID:31556487
RNA editing in the forefront of epitranscriptomics and human health. PMID:31547885
In Silico Identification of Antimicrobial Peptides in the Proteomes of Goat and Sheep Milk and Feta Cheese. PMID:31546575
NODULE INCEPTION Recruits the Lateral Root Developmental Program for Symbiotic Nodule Organogenesis in Medicago truncatula. PMID:31543454
FAIR adoption, assessment and challenges at UniProt. PMID:31541106
Lysine Methylation Regulators Moonlighting outside the Epigenome. PMID:31539507
Complete Genome Sequence of Escherichia coli Myophage Mangalitsa. PMID:31537680
Complete Genome Sequence of Salmonella enterica Myophage Matapan. PMID:31537677
Discovery of high-confidence human protein-coding genes and exons by whole-genome PhyloCSF helps elucidate 118 GWAS loci. PMID:31537640
Predicting Sequence Features, Function, and Structure of Proteins Using MESSA. PMID:31524991
BioExcel Building Blocks, a software library for interoperable biomolecular simulation workflows. PMID:31506435
WALTZ-DB 2.0: an updated database containing structural information of experimentally determined amyloid-forming peptides. PMID:31504823
VARIDT 1.0: variability of drug transporter database. PMID:31495872
Microbial chitinases: properties, current state and biotechnological applications. PMID:31493195
Genome Sequence of Metarhizium rileyi, a Microbial Control Agent for Lepidoptera. PMID:31488537
Decoding WW domain tandem-mediated target recognitions in tissue growth and cell polarity. PMID:31486770
Discovery of novel bacterial queuine salvage enzymes and pathways in human pathogens. PMID:31481610
The finger loop of the SRA domain in the E3 ligase UHRF1 is a regulator of ubiquitin targeting and is required for the maintenance of DNA methylation. PMID:31481468
The role of structural pleiotropy and regulatory evolution in the retention of heteromers of paralogs. PMID:31454312
A survey of known immune epitopes in the enteroviruses strains associated with acute flaccid myelitis. PMID:31451291
Data on proteomic profiling of cells and extracellular vesicles of the melittin-resistant Acholeplasma laidlawii strain. PMID:31440540
Post-transcriptional Regulation of Colorectal Cancer: A Focus on RNA-Binding Proteins. PMID:31440515
Identification of Rumen Microbial Genes Involved in Pathways Linked to Appetite, Growth, and Feed Conversion Efficiency in Cattle. PMID:31440274
Specialized structural and functional roles of residues selectively conserved in subfamilies of the pleckstrin homology domain family. PMID:31436855
Mitofusins modulate the increase in mitochondrial length, bioenergetics and secretory phenotype in therapy-induced senescent melanoma cells. PMID:31431479
Crystal structures of AztD provide mechanistic insights into direct zinc transfer between proteins. PMID:31428696
A mechanistic evaluation of the angiogenic properties of a dehydrated amnion chorion membrane in vitro and in vivo. PMID:31425636
Phellem Cell-Wall Components Are Discriminants of Cork Quality in Quercus suber. PMID:31417580
Binding site characterization - similarity, promiscuity, and druggability. PMID:31391887
Homology Modelling and Molecular Docking Studies of Selected Substituted Benzo[d]imidazol-1-yl)methyl)benzimidamide Scaffolds on Plasmodium falciparum Adenylosuccinate Lyase Receptor. PMID:31391779
A seed-extended algorithm for detecting protein complexes based on density and modularity with topological structure and GO annotations. PMID:31390979
The Role of Protein Thermodynamics and Primary Structure in Fibrillogenesis of Variable Domains from Immunoglobulin Light Chains. PMID:31364359
A Web Tool for Ranking Candidate Drugs Against a Selected Disease Based on a Combination of Functional and Structural Criteria. PMID:31360332
Whole-Genome Sequencing and Annotation of Clostridium tyrobutyricum Strain Cirm BIA 2237, Isolated from Silage. PMID:31346011
The Role of Iron and Copper on the Oligomerization Dynamics of DR_2577, the Main S-Layer Protein of Deinococcus radiodurans. PMID:31333601
N-terminal β-strand underpins biochemical specialization of an ATG8 isoform. PMID:31329577
Alphabet Projection of Spectra. PMID:31318211
RAFTS3G: an efficient and versatile clustering software to analyses in large protein datasets. PMID:31307371
Sleeping beauty genetic screen identifies miR-23b::BTBD7 gene interaction as crucial for colorectal cancer metastasis. PMID:31303496
Geno2proteo, a Tool for Batch Retrieval of DNA and Protein Sequences from Any Genomic or Protein Regions. PMID:31301672
Comprehensive in vivo identification of the c-Myc mRNA protein interactome using HyPR-MS. PMID:31296583
Identification and Characterization of Preferred DNA-Binding Sites for the Thermus thermophilus HB8 Transcriptional Regulator TTHA0973. PMID:31284644
HyperFoods: Machine intelligent mapping of cancer-beating molecules in foods. PMID:31270435
O2 Reduction to Water by High Potential Multicopper Oxidases: Contributions of the T1 Copper Site Potential and the Local Environment of the Trinuclear Copper Cluster. PMID:31260290
In silico analysis of missense mutations in exons 1-5 of the F9 gene that cause hemophilia B. PMID:31253089
A structural model of the human serotonin transporter in an outward-occluded state. PMID:31251747
Design, Synthesis and Biological Evaluation of 7-Chloro-9H-pyrimido[4,5-b]indole-based Glycogen Synthase Kinase-3β Inhibitors. PMID:31242571
Advances and Applications in the Quest for Orthologs. PMID:31241141
Tick saliva protein Evasin-3 modulates chemotaxis by disrupting CXCL8 interactions with glycosaminoglycans and CXCR2. PMID:31235521
Metagenomic analysis of bile salt biotransformation in the human gut microbiome. PMID:31234773
The Transcriptional Landscape of Microglial Genes in Aging and Neurodegenerative Disease. PMID:31214167
VarMap: a web tool for mapping genomic coordinates to protein sequence and structure and retrieving protein structural annotations. PMID:31192369
The Role of a Key Amino Acid Position in Species-Specific Proteinaceous dUTPase Inhibition. PMID:31174420
Population Genomic Signatures of Genetic Structure and Environmental Selection in the Catadromous Roughskin Sculpin Trachidermus fasciatus. PMID:31173074
SynGO: An Evidence-Based, Expert-Curated Knowledge Base for the Synapse. PMID:31171447
MTR-Viewer: identifying regions within genes under purifying selection. PMID:31170280
AutoDock CrankPep: combining folding and docking to predict protein-peptide complexes. PMID:31161213
Transcriptome Response of Female Culicoides sonorensis Biting Midges (Diptera: Ceratopogonidae) to Early Infection with Epizootic Hemorrhagic Disease Virus (EHDV-2). PMID:31137627
The role of ubiquitin-specific peptidases in cancer progression. PMID:31133011
Optimizing de novo genome assembly from PCR-amplified metagenomes. PMID:31119088
PrankWeb: a web server for ligand binding site prediction and visualization. PMID:31114880
Sequence similarity searches for morphine biosynthesis enzymes in bacteria yield putative targets for understanding associations between infection and opiate administration. PMID:31107204
NetGO: improving large-scale protein function prediction with massive network information. PMID:31106361
Yosshi: a web-server for disulfide engineering by bioinformatic analysis of diverse protein families. PMID:31106356
Protein Melting Temperature Cannot Fully Assess Whether Protein Folding Free Energy Underlies the Universal Abundance-Evolutionary Rate Correlation Seen in Proteins. PMID:31093676
Using genetically incorporated unnatural amino acids to control protein functions in mammalian cells. PMID:31092687
An enzyme in the test tube, and a transcription factor in the cell: Moonlighting proteins and cellular factors that affect their behavior. PMID:31087733
Proteomics Standards Initiative Extended FASTA Format. PMID:31081335
Comparative transcriptome analysis of trout skin pigment cells. PMID:31072301
g:Profiler: a web server for functional enrichment analysis and conversions of gene lists (2019 update). PMID:31066453
Cryo-EM density map fitting driven in-silico structure of human soluble guanylate cyclase (hsGC) reveals functional aspects of inter-domain cross talk upon NO binding. PMID:31055154
IntFOLD: an integrated web resource for high performance protein structure and function prediction. PMID:31045208
Attenuation of Infectious Bronchitis Virus in Eggs Results in Different Patterns of Genomic Variation across Multiple Replicates. PMID:31043525
Promiscuous Targeting of Cellular Proteins by Vpr Drives Systems-Level Proteomic Remodeling in HIV-1 Infection. PMID:31042482
Titin mutations and muscle disease. PMID:30919088
3DBIONOTES v3.0: crossing molecular and structural biology data with genomic variations. PMID:30768147
The 26th annual Nucleic Acids Research database issue and Molecular Biology Database Collection. PMID:30626175
The European Bioinformatics Institute in 2018: tools, infrastructure and training. PMID:30445657 -
UniProt: a hub for protein information
PubMed citations: 2005.
2005 articles citing: UniProt: a hub for protein information
Comprehensive Linear Epitope Prediction System for Host Specificity in Nodaviridae. PMID:35891339
Vietnamese Dalbergia tonkinensis: A Promising Source of Mono- and Bifunctional Vasodilators. PMID:35889386
SIPGCN: A Novel Deep Learning Model for Predicting Self-Interacting Proteins from Sequence Information Using Graph Convolutional Networks. PMID:35884848
Artificial Intelligence, Healthcare, Clinical Genomics, and Pharmacogenomics Approaches in Precision Medicine. PMID:35873469
Activity-based protein profiling identifies alternating activation of enzymes involved in the bifidobacterium shunt pathway or mucin degradation in the gut microbiome response to soluble dietary fiber. PMID:35858888
Comparative physiology and transcriptome analysis reveals that chloroplast development influences silver-white leaf color formation in Hydrangea macrophylla var. maculata. PMID:35842592
A review on computational approaches that support the researches on traditional Chinese medicines (TCM) against COVID-19. PMID:35841663
Immunoinformatics- and Bioinformatics-Assisted Computational Designing of a Novel Multiepitopes Vaccine Against Cancer-Causing Merkel Cell Polyomavirus. PMID:35836414
PR-1-Like Protein as a Potential Target for the Identification of Fusarium oxysporum: An In Silico Approach. PMID:35822818
Genome-wide Meta-analysis Reveals New Gene Signatures and Potential Drug Targets of Hypertension. PMID:35811894
Biological Role of the Intercellular Transfer of Glycosylphosphatidylinositol-Anchored Proteins: Stimulation of Lipid and Glycogen Synthesis. PMID:35806423
Scorpion Neurotoxin Syb-prII-1 Exerts Analgesic Effect through Nav1.8 Channel and MAPKs Pathway. PMID:35806068
Modeling Kaempferol as a Potential Pharmacological Agent for COVID-19/PF Co-Occurrence Based on Bioinformatics and System Pharmacological Tools. PMID:35754492
Palaeoproteomics guidelines to identify proteinaceous binders in artworks following the study of a 15th-century painting by Sandro Botticelli's workshop. PMID:35739140
Compilation of parasitic immunogenic proteins from 30 years of published research using machine learning and natural language processing. PMID:35725870
Exploring kinase family inhibitors and their moiety preferences using deep SHapley additive exPlanations. PMID:35725381
Growth rate determines prokaryote-provirus network modulated by temperature and host genetic traits. PMID:35701838
A highly conserved core bacterial microbiota with nitrogen-fixation capacity inhabits the xylem sap in maize plants. PMID:35688828
Random peptides rich in small and disorder-promoting amino acids are less likely to be harmful. PMID:35668555
Establishment of mouse model of inherited PIGO deficiency and therapeutic potential of AAV-based gene therapy. PMID:35661110
Genetics of early-life head circumference and genetic correlations with neurological, psychiatric and cognitive outcomes. PMID:35659227
RBP-TSTL is a two-stage transfer learning framework for genome-scale prediction of RNA-binding proteins. PMID:35649392
The Visayan Warty Pig (Sus cebifrons) Genome Provides Insight Into Chromosome Evolution and Sensory Adaptation in Pigs. PMID:35642310
Whole-Genome Sequencing of 100 Genomes Identifies a Distinctive Genetic Susceptibility Profile of Qatari Patients with Hypertension. PMID:35629146
ProGeo-Neo v2.0: A One-Stop Software for Neoantigen Prediction and Filtering Based on the Proteogenomics Strategy. PMID:35627168
Ethanolamine-phosphate on the second mannose is a preferential bridge for some GPI-anchored proteins. PMID:35603428
Localization of EccA3 at the growing pole in Mycobacterium smegmatis. PMID:35590245
Identification of LINE retrotransposons and long non-coding RNAs expressed in the octopus brain. PMID:35581640
Biochemical Investigation of Inhibitory Activities of Plant-Derived Bioactive Compounds Against Carbohydrate and Glucagon-Like Peptide-1 Metabolizing Enzymes. PMID:35574252
Machine Learning and Its Applications for Protozoal Pathogens and Protozoal Infectious Diseases. PMID:35573796
Mapping and Validation of scRNA-Seq-Derived Cell-Cell Communication Networks in the Tumor Microenvironment. PMID:35572582
Targeting Cell Death Mechanism Specifically in Triple Negative Breast Cancer Cell Lines. PMID:35563174
Evaluation of tea (Camellia sinensis L.) phytochemicals as multi-disease modulators, a multidimensional in silico strategy with the combinations of network pharmacology, pharmacophore analysis, statistics and molecular docking. PMID:35536529
Zinc transport via ZNT5-6 and ZNT7 is critical for cell surface glycosylphosphatidylinositol-anchored protein expression. PMID:35525268
Insights into the biosynthesis pathway of phenolic compounds in microalgae. PMID:35521550
Eclectic characterisation of chemically modified cell-derived matrices obtained by metabolic glycoengineering and re-assessment of commonly used methods. PMID:35515672
Evolution, Expression Patterns, and Distribution of Novel Ribbon Worm Predatory and Defensive Toxins. PMID:35512366
Systematic Elaboration of the Pharmacological Targets and Potential Mechanisms of ZhiKe GanCao Decoction for Preventing and Delaying Intervertebral Disc Degeneration. PMID:35497916
A Novel Efficient L-Lysine Exporter Identified by Functional Metagenomics. PMID:35495724
UPIMAPI, reCOGnizer and KEGGCharter: Bioinformatics tools for functional annotation and visualization of (meta)-omics datasets. PMID:35495109
Insights into the structure and function of the human organic anion transporter 1 in lipid bilayer membranes. PMID:35488116
Tissue remodeling by an opportunistic pathogen triggers allergic inflammation. PMID:35483356
The Minimal Translation Machinery: What We Can Learn From Naturally and Experimentally Reduced Genomes. PMID:35479634
Probing the competitive inhibitor efficacy of frog-skin alpha helical AMPs identified against ACE2 binding to SARS-CoV-2 S1 spike protein as therapeutic scaffold to prevent COVID-19. PMID:35461388
Subtractive proteomics assisted therapeutic targets mining and designing ensemble vaccine against Candida auris for immune response induction. PMID:35427985
The COMPARE Database: A Public Resource for Allergen Identification, Adapted for Continuous Improvement. PMID:35386979
INPUT: An intelligent network pharmacology platform unique for traditional Chinese medicine. PMID:35356545
Aberrant SKP1 Expression: Diverse Mechanisms Impacting Genome and Chromosome Stability. PMID:35345853
In Silico Multi-Target Approach Revealed Potential Lead Compounds as Scaffold for the Synthesis of Chemical Analogues Targeting SARS-CoV-2. PMID:35336838
Ligand binding remodels protein side-chain conformational heterogeneity. PMID:35312477
PhosVarDeep: deep-learning based prediction of phospho-variants using sequence information. PMID:35310161
Identification and Characterization of Bacillus tequilensis GYUN-300: An Antagonistic Bacterium Against Red Pepper Anthracnose Caused by Colletotrichum acutatum in Korea. PMID:35308370
Shotgun and TMT-Labeled Proteomic Analysis of the Ovarian Proteins of an Insect Vector, Aedes aegypti (Diptera: Culicidae). PMID:35303100
ELECTRA-DTA: a new compound-protein binding affinity prediction model based on the contextualized sequence encoding. PMID:35292100
Independent Size Expansions and Intron Proliferation in Red Algal Plastid and Mitochondrial Genomes. PMID:35289373
Using Omics to Study Leprosy, Tuberculosis, and Other Mycobacterial Diseases. PMID:35281437
Profile of Myracrodruon urundeuva Volatile Compounds Ease of Extraction and Biodegradability and In Silico Evaluation of Their Interactions with COX-1 and iNOS. PMID:35268733
Effects and Mechanisms of Rhus chinensis Mill. Fruits on Suppressing RANKL-Induced Osteoclastogenesis by Network Pharmacology and Validation in RAW264.7 Cells. PMID:35267996
Transcriptome-wide identification and expression analysis of the KT/HAK/KUP family in Salicornia europaea L. under varied NaCl and KCl treatments. PMID:35261820
Whole-Genome Analysis of Escherichia Phage vB_EcoM-S1P5QW, Isolated from Manures Collected from Cattle Farms in Maine. PMID:35254108
In-Depth Serum Proteomics by DIA-MS with In Silico Spectral Libraries Reveals Dynamics during the Active Phase of Systemic Juvenile Idiopathic Arthritis. PMID:35252692
Computational Design of a Multi-Epitope Vaccine Against Porphyromonas gingivalis. PMID:35250977
[Identification of traditional Chinese drugs containing active ingredients for treating myocardial infarction and analysis of their therapeutic mechanisms by network pharmacology and molecular docking]. PMID:35249866
Identifying protein function and functional links based on large-scale co-occurrence patterns. PMID:35239724
Gut Commensal Bacteroidetes Encode a Novel Class of Vitamin B12-Binding Proteins. PMID:35227073
Evaluation of protein descriptors in computer-aided rational protein engineering tasks and its application in property prediction in SARS-CoV-2 spike glycoprotein. PMID:35222841
Network Pharmacology and Experimental Verification to Explore the Potential Mechanism of Yin-Huo-Tang for Lung Adenocarcinoma Recurrence. PMID:35210754
Analysing miRNA-Target Gene Networks in Inflammatory Bowel Disease and Other Complex Diseases Using Transcriptomic Data. PMID:35205414
Mechanisms of Vitamin C Regulating Immune and Inflammation Associated with Neonatal Hypoxic-Ischemic Encephalopathy Based on Network Pharmacology and Molecular Simulation Technology. PMID:35198034
The OxyR and SoxR transcriptional regulators are involved in a broad oxidative stress response in Paraburkholderia xenovorans LB400. PMID:35184754
Multiple Reaction Monitoring-Mass Spectrometry Enables Robust Quantitation of Plasma Proteins Regardless of Whole Blood Processing Delays That May Occur in the Clinic. PMID:35182769
Herbal Formula Modified Bu-Shen-Huo-Xue Decoction Attenuates Intervertebral Disc Degeneration via Regulating Inflammation and Oxidative Stress. PMID:35154344
SWI/SNF senses carbon starvation with a pH-sensitive low-complexity sequence. PMID:35129437
Identification of the Association Between Toll-Like Receptors and T-Cell Activation in Takayasu's Arteritis. PMID:35126357
Tilting the Balance: Therapeutic Prospects of CD83 as a Checkpoint Molecule Controlling Resolution of Inflammation. PMID:35054916
Deciphering the evolution of composite-type GSKIP in mitochondria and Wnt signaling pathways. PMID:35051222
Integrated bioinformatics based subtractive genomics approach to decipher the therapeutic function of hypothetical proteins from Salmonella typhi XDR H-58 strain. PMID:35037232
Accurate and Automated High-Coverage Identification of Chemically Cross-Linked Peptides with MaxLynx. PMID:35014260
KANPHOS: A Database of Kinase-Associated Neural Protein Phosphorylation in the Brain. PMID:35011609
In Silico Sperm Proteome Analysis to Investigate DNA Repair Mechanisms in Varicocele Patients. PMID:34975746
Genome Mining of Pseudomonas Species: Diversity and Evolution of Metabolic and Biosynthetic Potential. PMID:34946606
The effects of Tbx15 and Pax1 on facial and other physical morphology in mice. PMID:34938962
Machine learning prediction of antiviral-HPV protein interactions for anti-HPV pharmacotherapy. PMID:34934067
Structural insights into the activation of blood coagulation factor XI zymogen by thrombin: A computational molecular dynamics study. PMID:34923393
Molecular modelling and de novo fragment-based design of potential inhibitors of beta-tubulin gene of Necator americanus from natural products. PMID:34912942
Chromosomal Fusions Facilitate Adaptation to Divergent Environments in Threespine Stickleback. PMID:34908155
Precise Investigation of the Efficacy of Multicomponent Drugs Against Pneumonia Infected With Influenza Virus. PMID:34867309
Full Genome Sequence of a Methanomassiliicoccales Representative Enriched from Peat Soil. PMID:34854727
Long-read transcriptome and other genomic resources for the angiosperm Silene noctiflora. PMID:34849814
A multitask transfer learning framework for the prediction of virus-human protein-protein interactions. PMID:34837942
A Genome-Wide Association Study Identifies Novel Risk Loci for Sarcopenia in a Taiwanese Population. PMID:34815687
Pharmacological Mechanism of Danggui-Sini Formula for Intervertebral Disc Degeneration: A Network Pharmacology Study. PMID:34805401
Exploring the mechanism of Yixinyin for myocardial infarction by weighted co-expression network and molecular docking. PMID:34799616
Herpesviruses assimilate kinesin to produce motorized viral particles. PMID:34789877
Schizophrenia is defined by cell-specific neuropathology and multiple neurodevelopmental mechanisms in patient-derived cerebral organoids. PMID:34789849
Comparative transcriptomic profiling of susceptible and resistant cultivars of pigeonpea demonstrates early molecular responses during Fusarium udum infection. PMID:34785701
First report of mitochondrial COI in foraminifera and implications for DNA barcoding. PMID:34772985
In Silico Core Proteomics and Molecular Docking Approaches for the Identification of Novel Inhibitors against Streptococcus pyogenes. PMID:34769873
Network Pharmacology-Based Identification of Key Mechanisms of Xihuang Pill in the Treatment of Triple-Negative Breast Cancer Stem Cells. PMID:34737698
Toward Integrated Multi-Omics Intervention: Rice Trait Improvement and Stress Management. PMID:34721467
Natural products for infectious microbes and diseases: an overview of sources, compounds, and chemical diversities. PMID:34705221
Temporal proteomics during neurogenesis reveals large-scale proteome and organelle remodeling via selective autophagy. PMID:34699746
Identification of Potential Citrate Metabolism Pathways in Carnobacterium maltaromaticum. PMID:34683489
Investigating single amino acid substitutions in PIM1 kinase: A structural genomics approach. PMID:34679086
Huanglianjiedu Decoction as an effective treatment for oral squamous cell carcinoma based on network pharmacology and experimental validation. PMID:34674717
Characterization of the First Cultured Psychrotolerant Representative of Legionella from Antarctica Reveals Its Unique Genome Structure. PMID:34668737
Altered protein O-GlcNAcylation in placentas from mothers with diabetes causes aberrant endocytosis in placental trophoblast cells. PMID:34667181
Draft genome sequence, annotation and SSR mining data of Oryctes rhinoceros Linn. (Coleoptera: Scarabaeidae), the coconut rhinoceros beetle. PMID:34660857
Genome sequencing of turmeric provides evolutionary insights into its medicinal properties. PMID:34654884
Application of Computational Methods in Understanding Mutations in Mycobacterium tuberculosis Drug Resistance. PMID:34651013
Predicting drug targets by homology modelling of Pseudomonas aeruginosa proteins of unknown function. PMID:34648550
Kincore: a web resource for structural classification of protein kinases and their inhibitors. PMID:34643709
HBFP: a new repository for human body fluid proteome. PMID:34642750
Getting to know each other: PPIMem, a novel approach for predicting transmembrane protein-protein complexes. PMID:34630938
Rescue of Glycosylphosphatidylinositol-Anchored Protein Biosynthesis Using Synthetic Glycosylphosphatidylinositol Oligosaccharides. PMID:34618440
Evidence-based complementary and alternative medicine bioinformatics approach through network pharmacology and molecular docking to determine the molecular mechanisms of Erjing pill in Alzheimer's disease. PMID:34539848
SmProt: A Reliable Repository with Comprehensive Annotation of Small Proteins Identified from Ribosome Profiling. PMID:34536568
Phylogeographic reconstruction of the marbled crayfish origin. PMID:34535758
Homologs of the Tumor Suppressor Protein p53: A Bioinformatics Study for Drug Design. PMID:34532721
Differential Abundance of Brain Mitochondrial Proteins in Yak and Cattle: A Proteomics-Based Study. PMID:34532350
The Marine Gastropod Crepidula fornicata Remains Resilient to Ocean Acidification Across Two Life History Stages. PMID:34512378
Effects of NaCl Concentrations on Growth Patterns, Phenotypes Associated With Virulence, and Energy Metabolism in Escherichia coli BW25113. PMID:34484145
DeepLINK: Deep learning inference using knockoffs with applications to genomics. PMID:34480002
Peptipedia: a user-friendly web application and a comprehensive database for peptide research supported by Machine Learning approach. PMID:34478499
Personalized Proteomics for Precision Diagnostics in Hearing Loss: Disease-Specific Analysis of Human Perilymph by Mass Spectrometry. PMID:34471729
Comparative genomic analysis of a naturally born serpentized pig reveals putative mutations related to limb and bone development. PMID:34454433
Quercetin and/or Ascorbic Acid Modulatory Effect on Phenobarbital-Induced Sleeping Mice Possibly through GABAA and GABAB Receptor Interaction Pathway. PMID:34451819
Characterization of Martelella soudanensis sp. nov., Isolated from a Mine Sediment. PMID:34442814
Identification of Targeted Proteins by Jamu Formulas for Different Efficacies Using Machine Learning Approach. PMID:34440610
Impact of Different Durations of Fasting on Intestinal Autophagy and Serum Metabolome in Broiler Chicken. PMID:34438641
L-Type Calcium Channel: Predicting Pathogenic/Likely Pathogenic Status for Variants of Uncertain Clinical Significance. PMID:34436362
OFF-State-Specific Inhibition of the Proprotein Convertase Furin. PMID:34415722
Generation and Characterization of Torudokimab (LY3375880): A Monoclonal Antibody That Neutralizes Interleukin-33. PMID:34408465
Multiple Losses of MSH1, Gain of mtMutS, and Other Changes in the MutS Family of DNA Repair Proteins in Animals. PMID:34402879
CASPredict: a web service for identifying Cas proteins. PMID:34395100
Computational Analysis of Gly482Ser Single-Nucleotide Polymorphism in PPARGC1A Gene Associated with CAD, NAFLD, T2DM, Obesity, Hypertension, and Metabolic Diseases. PMID:34394332
Identification of Three Clf-Sdr Subfamily Proteins in Staphylococcus warneri, and Comparative Genomics Analysis of a Locus Encoding CWA Proteins in Staphylococcus Species. PMID:34394031
Proteomic analysis of ubiquitination substrates reveals a CTLH E3 ligase complex-dependent regulation of glycolysis. PMID:34383978
Predicting Protein Therapeutic Candidates for Bovine Babesiosis Using Secondary Structure Properties and Machine Learning. PMID:34367264
Male Infertility Knowledgebase: decoding the genetic and disease landscape. PMID:34363073
Computational Investigation of the pH Dependence of Stability of Melanosome Proteins: Implication for Melanosome formation and Disease. PMID:34361043
TCA Cycle Replenishing Pathways in Photosynthetic Purple Non-Sulfur Bacteria Growing with Acetate. PMID:34357087
Changthangi Pashmina Goat Genome: Sequencing, Assembly, and Annotation. PMID:34354739
Finding inhibitors for PCSK9 using computational methods. PMID:34351937
The biochemical basis of mitochondrial dysfunction in Zellweger Spectrum Disorder. PMID:34351705
Investigation of nonsynonymous mutations in the spike protein of SARS-CoV-2 and its interaction with the ACE2 receptor by molecular docking and MM/GBSA approach. PMID:34346317
Advances in the computational landscape for repurposed drugs against COVID-19. PMID:34339864
Taxallnomy: an extension of NCBI Taxonomy that produces a hierarchically complete taxonomic tree. PMID:34325658
Proteome difference among the salivary proteins adsorbed onto metallic orthodontic brackets and hydroxyapatite discs. PMID:34319997
CCT and CCT-Like Modular Protein Interaction Domains in WNK Signaling. PMID:34312216
Transcriptome Characterization and Identification of Molecular Markers (SNP, SSR, and Indels) in the Medicinal Plant Sarcandra glabra spp. PMID:34307686
The Structural Effect of FLT3 Mutations at 835th Position and Their Interaction with Acute Myeloid Leukemia Inhibitors: In Silico Approach. PMID:34299222
Genetic association studies of alterations in protein function expose recessive effects on cancer predisposition. PMID:34290314
Analysis of the Taxonomy and Pathogenic Factors of Pectobacterium aroidearum L6 Using Whole-Genome Sequencing and Comparative Genomics. PMID:34276610
An Investigation of the Antigastric Cancer Effect in Tumor Microenvironment of Radix Rhei Et Rhizome: A Network Pharmacology Study. PMID:34257692
Brain Acetyl-CoA Production and Phosphorylation of Cytoskeletal Proteins Are Targets of CYP46A1 Activity Modulation and Altered Sterol Flux. PMID:34235635
Application of Machine Learning for Drug-Target Interaction Prediction. PMID:34234813
ALKBH3 partner ASCC3 mediates P-body formation and selective clearance of MMS-induced 1-methyladenosine and 3-methylcytosine from mRNA. PMID:34217309
Transcriptome Reveals Roles of Lignin-Modifying Enzymes and Abscisic Acid in the Symbiosis of Mycena and Gastrodia elata. PMID:34207287
Genome-Wide Identification of Soybean ABC Transporters Relate to Aluminum Toxicity. PMID:34207256
Comparative Transcriptome Profiling of Kappaphycus alvarezii (Rhodophyta, Solieriaceae) in Response to Light of Different Wavelengths and Carbon Dioxide Enrichment. PMID:34204578
Order and disorder-An integrative structure of the full-length human growth hormone receptor. PMID:34193419
Reconstruction of the full-length transcriptome of cigar tobacco without a reference genome and characterization of anion channel/transporter transcripts. PMID:34187357
StrongestPath: a Cytoscape application for protein-protein interaction analysis. PMID:34187355
Mosaic Ends Tagmentation (METa) Assembly for Highly Efficient Construction of Functional Metagenomic Libraries. PMID:34184912
A computational model for GPCR-ligand interaction prediction. PMID:34171942
Probiotics: their action against pathogens can be turned around. PMID:34168166
Genome-scale mechanistic modeling of signaling pathways made easy: A bioconductor/cytoscape/web server framework for the analysis of omic data. PMID:34136096
The Gene Expression Profile of the Song Control Nucleus HVC Shows Sex Specificity, Hormone Responsiveness, and Species Specificity Among Songbirds. PMID:34135731
Prognostic implications of troponin T variations in inherited cardiomyopathies using systems biology. PMID:34127679
Identification of Altered Proteins in the Plasma of Rats With Chronic Prostatic Inflammation Induced by Estradiol Benzoate and Sex Hormones. PMID:34124458
Applying Machine Learning to Predict the Exportome of Bovine and Canine Babesia Species That Cause Babesiosis. PMID:34071992
Oral Microbiome in Relation to Periodontitis Severity and Systemic Inflammation. PMID:34070915
An Integrated Analysis of Network Pharmacology, Molecular Docking, and Experiment Validation to Explore the New Candidate Active Component and Mechanism of Cuscutae Semen-Mori Fructus Coupled-Herbs in Treating Oligoasthenozoospermia. PMID:34040346
PhenCards: a data resource linking human phenotype information to biomedical knowledge. PMID:34034817
Gene Ontology Meta Annotator for Plants (GOMAP). PMID:34034755
Predicting MHC I restricted T cell epitopes in mice with NAP-CNB, a novel online tool. PMID:34031450
An overview of graph databases and their applications in the biomedical domain. PMID:34003247
Characterization of the multidrug efflux transporter styMdtM from Salmonella enterica serovar Typhi. PMID:33983672
Bayesian neural network with pretrained protein embedding enhances prediction accuracy of drug-protein interaction. PMID:33978713
Improved genome assembly and pan-genome provide key insights into eggplant domestication and breeding. PMID:33964091
Dual proteome-scale networks reveal cell-specific remodeling of the human interactome. PMID:33961781
Development of Stable Chimeric IL-15 for Trans-Presentation by the Antigen Presenting Cells. PMID:33953717
Elephant Genomes Reveal Accelerated Evolution in Mechanisms Underlying Disease Defenses. PMID:33944920
Genomic analysis of novel Yarrowia-like yeast symbionts associated with the carrion-feeding burying beetle Nicrophorus vespilloides. PMID:33941076
The Underlying Molecular Mechanisms Involved in Traditional Chinese Medicine Smilax china L. for the Treatment of Pelvic Inflammatory Disease. PMID:33927774
Gene Expression Analysis of Microtubers of Potato Solanum tuberosum L. Induced in Cytokinin Containing Medium and Osmotic Stress. PMID:33925316
From Proteomic Mapping to Invasion-Metastasis-Cascade Systemic Biomarkering and Targeted Drugging of Mutant BRAF-Dependent Human Cutaneous Melanomagenesis. PMID:33922182
First Genome-Scale Metabolic Model of Dolosigranulum pigrum Confirms Multiple Auxotrophies. PMID:33918864
Comprehensive genomic analysis contrasting primary colorectal cancer and matched liver metastases. PMID:33907576
Thiocyanate and Organic Carbon Inputs Drive Convergent Selection for Specific Autotrophic Afipia and Thiobacillus Strains Within Complex Microbiomes. PMID:33897653
Online biophysical predictions for SARS-CoV-2 proteins. PMID:33892639
SARS-CoV-2 requires cholesterol for viral entry and pathological syncytia formation. PMID:33890572
Assessing the degradation of ancient milk proteins through site-specific deamidation patterns. PMID:33833277
Sex-differences in circulating biomarkers during acute myocardial infarction: An analysis from the SWEDEHEART registry. PMID:33831096
SNARE-CNN: a 2D convolutional neural network architecture to identify SNARE proteins from high-throughput sequencing data. PMID:33816830
A Molecular Modeling Approach to Identify Potential Antileishmanial Compounds Against the Cell Division Cycle (cdc)-2-Related Kinase 12 (CRK12) Receptor of Leishmania donovani. PMID:33803906
Uterine infusion of conceptus fragments changes the protein profile from cyclic mares. PMID:33791032
MED15 prion-like domain forms a coiled-coil responsible for its amyloid conversion and propagation. PMID:33772081
Integrating structure-based machine learning and co-evolution to investigate specificity in plant sesquiterpene synthases. PMID:33750949
A Network Pharmacology-Based Approach to Investigating the Mechanisms of Fushen Granule Effects on Intestinal Barrier Injury in Chronic Renal Failure. PMID:33747100
A network pharmacology based approach for predicting active ingredients and potential mechanism of Lianhuaqingwen capsule in treating COVID-19. PMID:33746604
Comparative transcriptomic analysis of the different developmental stages of ovary in red swamp crayfish Procambarus clarkii. PMID:33745451
pCysMod: Prediction of Multiple Cysteine Modifications Based on Deep Learning Framework. PMID:33732693
isa4j: a scalable Java library for creating ISA-Tab metadata. PMID:33728038
Network Pharmacology and Molecular Docking Analysis on Molecular Targets and Mechanisms of Buyang Huanwu Decoction in the Treatment of Ischemic Stroke. PMID:33727944
Genomic Characterization of Two Shiga Toxin-Converting Bacteriophages Induced From Environmental Shiga Toxin-Producing Escherichia coli. PMID:33716997
Evidence for CAT gene being functionally involved in the susceptibility of COVID-19. PMID:33710662
Identification of conserved slow codons that are important for protein expression and function. PMID:33691590
Adaptation and convergence in circadian-related genes in Iberian freshwater fish. PMID:33685402
Decoding the Mechanism of Huanglian Jiedu Decoction in Treating Pneumonia Based on Network Pharmacology and Molecular Docking. PMID:33681222
From Data Mining of Chitinophaga sp. Genome to Enzyme Discovery of a Hyperthermophilic Metallocarboxypeptidase. PMID:33673011
Genetic Adaptations in Mudskipper and Tetrapod Give Insights into Their Convergent Water-to-Land Transition. PMID:33672418
Integrated genomic analysis reveals regulatory pathways and dynamic landscapes of the tRNA transcriptome. PMID:33664286
DbStRiPs: Database of structural repeats in proteins. PMID:33641184
Interaction of Plasmodium falciparum apicortin with α- and β-tubulin is critical for parasite growth and survival. PMID:33633135
Chromosome-Level Genome Assembly of the Common Chaffinch (Aves: Fringilla coelebs): A Valuable Resource for Evolutionary Biology. PMID:33616654
Approaches for characterizing and tracking hospital-associated multidrug-resistant bacteria. PMID:33582841
UniProt-Related Documents (UniReD): assisting wet lab biologists in their quest on finding novel counterparts in a protein network. PMID:33575553
HMD-ARG: hierarchical multi-task deep learning for annotating antibiotic resistance genes. PMID:33557954
Comparative Transcriptome Analysis During the Seven Developmental Stages of Channel Catfish (Ictalurus punctatus) and Tra Catfish (Pangasianodon hypophthalmus) Provides Novel Insights for Terrestrial Adaptation. PMID:33552125
GMO Genetic Elements Thesaurus (GMO-GET): a controlled vocabulary for the consensus designation of introduced or modified genetic elements in genetically modified organisms. PMID:33546585
Amynthas corticis genome reveals molecular mechanisms behind global distribution. PMID:33514865
iBLP: An XGBoost-Based Predictor for Identifying Bioluminescent Proteins. PMID:33505515
Network pharmacology integrated molecular docking reveals the bioactive components and potential targets of Morinda officinalis-Lycium barbarum coupled-herbs against oligoasthenozoospermia. PMID:33500463
NLPEI: A Novel Self-Interacting Protein Prediction Model Based on Natural Language Processing and Evolutionary Information. PMID:33488064
Estimating the accuracy of pharmacophore-based detection of cognate receptor-ligand pairs in the immunoglobulin superfamily. PMID:33483991
Polymorphism rs368234815 of interferon lambda 4 gene and spontaneous clearance of hepatitis C virus in haemodialysis patients: a case-control study. PMID:33482747
AtPiezo Plays an Important Role in Root Cap Mechanotransduction. PMID:33466520
SARS-CoV-2 infection susceptibility influenced by ACE2 genetic polymorphisms: insights from Tehran Cardio-Metabolic Genetic Study. PMID:33452303
A systems-level gene regulatory network model for Plasmodium falciparum. PMID:33450011
Network pharmacology modeling identifies synergistic interaction of therapeutic and toxicological mechanisms for Tripterygium hypoglaucum Hutch. PMID:33446184
Computational drug repurposing strategy predicted peptide-based drugs that can potentially inhibit the interaction of SARS-CoV-2 spike protein with its target (humanACE2). PMID:33417604
Prediction of hub genes of Alzheimer's disease using a protein interaction network and functional enrichment analysis. PMID:33412755
Atlas of ACE2 gene expression reveals novel insights into transmission of SARS-CoV-2. PMID:33392409
Effects of Co-culture on Improved Productivity and Bioresource for Microalgal Biomass Using the Floc-Forming Bacteria Melaminivora Jejuensis. PMID:33392165
Integrative analysis of long extracellular RNAs reveals a detection panel of noncoding RNAs for liver cancer. PMID:33391469
Two New Aristolochic Acid Analogues from the Roots of Aristolochia contorta with Significant Cytotoxic Activity. PMID:33374869
Male pseudohermaphroditism: A case study of 46,XY disorder of sexual development using whole-exome sequencing. PMID:33363845
Distinct Preflowering Drought Tolerance Strategies of Sorghum bicolor Genotype RTx430 Revealed by Subcellular Protein Profiling. PMID:33352693
Distinct ecotypes within a natural haloarchaeal population enable adaptation to changing environmental conditions without causing population sweeps. PMID:33342997
Pulse-Chase Proteomics of the App Knockin Mouse Models of Alzheimer's Disease Reveals that Synaptic Dysfunction Originates in Presynaptic Terminals. PMID:33326751
High-Throughput Discovery and Characterization of Human Transcriptional Effectors. PMID:33326746
Graph embeddings on gene ontology annotations for protein-protein interaction prediction. PMID:33323115
Sodium-bile acid co-transporter is crucial for survival of a carcinogenic liver fluke Clonorchis sinensis in the bile. PMID:33284789
Comparative Genomics Analysis Provides New Strategies for Bacteriostatic Ability of Bacillus velezensis HAB-2. PMID:33281792
Repurposing of FDA approved ring systems through bi-directional target-ring system dual screening. PMID:33273509
The intracellular bacterium Rickettsia rickettsii exerts an inhibitory effect on the apoptosis of tick cells. PMID:33261663
A multicomponent screen for feeding behaviour and nutritional status in Drosophila to interrogate mammalian appetite-related genes. PMID:33242659
Contributions of protein microenvironment in tannase industrial applicability: An in-silico comparative study of pathogenic and non-pathogenic bacterial tannase. PMID:33241136
A Functional Kinase Is Necessary for Cyclin-Dependent Kinase G1 (CDKG1) to Maintain Fertility at High Ambient Temperature in Arabidopsis. PMID:33240303
Inferring the molecular and phenotypic impact of amino acid variants with MutPred2. PMID:33219223
Genome Sequence of Klebsiella pneumoniae YBQ, a Clinical Strain Isolated from the Sputum of a Patient with Severe Pneumonia. PMID:33214313
Targeting SMYD3 to Sensitize Homologous Recombination-Proficient Tumors to PARP-Mediated Synthetic Lethality. PMID:33205017
Towards a novel peptide vaccine for Middle East respiratory syndrome coronavirus and its possible use against pandemic COVID-19. PMID:33173250
Deciphering cell-cell interactions and communication from gene expression. PMID:33168968
In-depth transcriptome reveals the potential biotechnological application of Bothrops jararaca venom gland. PMID:33149734
Network pharmacology and molecular docking analyses on Lianhua Qingwen capsule indicate Akt1 is a potential target to treat and prevent COVID-19. PMID:33140889
Cholesterol-Rich Microdomains Contribute to PAR1 Signaling in Platelets Despite a Weak Localization of the Receptor in These Microdomains. PMID:33138025
Uncovering the genomic potential of the Amazon River microbiome to degrade rainforest organic matter. PMID:33126925
Illuminating the dark side of the human transcriptome with long read transcript sequencing. PMID:33126848
Major role of iron uptake systems in the intrinsic extra-intestinal virulence of the genus Escherichia revealed by a genome-wide association study. PMID:33112851
Cp1/cathepsin L is required for autolysosomal clearance in Drosophila. PMID:33112206
Effects of Selenium- and Zinc-Enriched Lactobacillus plantarum SeZi on Antioxidant Capacities and Gut Microbiome in an ICR Mouse Model. PMID:33096847
Combined Transcriptome and Metabolome analysis of Pitaya fruit unveiled the mechanisms underlying Peel and pulp color formation. PMID:33092530
Data set of activity cliffs with single-atom modification and associated X-ray structure information for medicinal and computational chemistry applications. PMID:33088875
NAMS webserver: coding potential assessment and functional annotation of plant transcripts. PMID:33080021
PIMD: An Integrative Approach for Drug Repositioning Using Multiple Characterization Fusion. PMID:33075523
Novel loci for childhood body mass index and shared heritability with adult cardiometabolic traits. PMID:33045005
A fluoride-responsive genetic circuit enables in vivo biofluorination in engineered Pseudomonas putida. PMID:33028813
Multi-omic detection of Mycobacterium leprae in archaeological human dental calculus. PMID:33012227
SC2disease: a manually curated database of single-cell transcriptome for human diseases. PMID:33010177
Viral ecogenomics across the Porifera. PMID:33008461
Characterization of Local and Systemic Impact of Whitefly (Bemisia tabaci) Feeding and Whitefly-Transmitted Tomato Mottle Virus Infection on Tomato Leaves by Comprehensive Proteomics. PMID:33008056
Transcriptomic signatures of cold adaptation and heat stress in the winter ant (Prenolepis imparis). PMID:33002025
PartCrafter: find, generate and analyze BioParts. PMID:32995539
Quantitative analysis of global protein stability rates in tissues. PMID:32994440
Spritz: A Proteogenomic Database Engine. PMID:32967423
New developments in RiPP discovery, enzymology and engineering. PMID:32935693
High-resolution analysis of differential gene expression during skeletal muscle atrophy and programmed cell death. PMID:32926651
Cell Plasticity and Genomic Structure of a Novel Filterable Rhizobiales Bacterium that Belongs to a Widely Distributed Lineage. PMID:32906802
Kinase inhibitor data set for systematic analysis of representative kinases across the human kinome. PMID:32904416
Exoproteomics for Better Understanding Pseudomonas aeruginosa Virulence. PMID:32899849
PCOSKBR2: a database of genes, diseases, pathways, and networks associated with polycystic ovary syndrome. PMID:32895427
DNSS2: Improved ab initio protein secondary structure prediction using advanced deep learning architectures. PMID:32893403
Molecular-Level Understanding of the Somatostatin Receptor 1 (SSTR1)-Ligand Binding: A Structural Biology Study Based on Computational Methods. PMID:32875251
RRE-Finder: a Genome-Mining Tool for Class-Independent RiPP Discovery. PMID:32873609
Correlated expression analysis of genes implicated in schizophrenia: identification of putative disease-related pathways. PMID:32864408
Transcriptome Dynamics of the Inflorescence in Reciprocally Formed Allopolyploid Tragopogon miscellus (Asteraceae). PMID:32849847
Functional Genomics, Transcriptomics, and Proteomics Reveal Distinct Combat Strategies Between Lineages of Wood-Degrading Fungi With Redundant Wood Decay Mechanisms. PMID:32849338
Normal modes analysis and surface electrostatics of haemagglutinin proteins as fingerprints for high pathogenic type A influenza viruses. PMID:32838732
"Mind the Gap": Hi-C Technology Boosts Contiguity of the Globe Artichoke Genome in Low-Recombination Regions. PMID:32817122
Transcriptome analysis of neratinib treated HER2 positive cancer model vs untreated cancer unravels the molecular mechanism of action of neratinib. PMID:32792841
Gut microbial co-abundance networks show specificity in inflammatory bowel disease and obesity. PMID:32782301
A novel strain of acetic acid bacteria Gluconobacter oxydans FBFS97 involved in riboflavin production. PMID:32782276
Modeling the metabolic interplay between a parasitic worm and its bacterial endosymbiont allows the identification of novel drug targets. PMID:32779567
Evolutionary Remodeling of the Cell Envelope in Bacteria of the Planctomycetes Phylum. PMID:32761170
SWATH-MS-based quantitative proteomics reveals a uniquely intricate defense response in Cnaphalocrocis medinalis-resistant rice. PMID:32759951
CerealsDB-new tools for the analysis of the wheat genome: update 2020. PMID:32754757
Linking metabolic phenotypes to pathogenic traits among "Candidatus Liberibacter asiaticus" and its hosts. PMID:32753656
Kinase Interaction Network Expands Functional and Disease Roles of Human Kinases. PMID:32707033
BiPOm: a rule-based ontology to represent and infer molecule knowledge from a biological process-centered viewpoint. PMID:32703160
The PPAR Ω Pocket: Renewed Opportunities for Drug Development. PMID:32695150
First Reports of Effects of Insulin, Human-like Insulin Receptors and Adapter Proteins in Acanthamoeba castellanii. PMID:32678116
Streptococcus pneumoniae metal homeostasis alters cellular metabolism. PMID:32676626
Exploring the structural basis of conformational heterogeneity and autoinhibition of human cGMP-specific protein kinase Iα through computational modelling and molecular dynamics simulations. PMID:32670503
Translation initiation downstream from annotated start codons in human mRNAs coevolves with the Kozak context. PMID:32669370
PWAS: proteome-wide association study-linking genes and phenotypes by functional variation in proteins. PMID:32665031
Gold/alpha-lactalbumin nanoprobes for the imaging and treatment of breast cancer. PMID:32661307
Quality Matters: Biocuration Experts on the Impact of Duplication and Other Data Quality Issues in Biological Databases. PMID:32652120
Systematic Discovery of Short Linear Motifs Decodes Calcineurin Phosphatase Signaling. PMID:32645368
Mechanism of Astragalus membranaceus in the treatment of laryngeal cancer based on gene co-expression network and molecular docking. PMID:32636440
Taxonomic classification method for metagenomics based on core protein families with Core-Kaiju. PMID:32633756
Full Rescue of F508del-CFTR Processing and Function by CFTR Modulators Can Be Achieved by Removal of Two Regulatory Regions. PMID:32630527
Deep learning methods in protein structure prediction. PMID:32612753
Mechanistic Models of Signaling Pathways Reveal the Drug Action Mechanisms behind Gender-Specific Gene Expression for Cancer Treatments. PMID:32610626
Identification of Human Enzymes Using Amino Acid Composition and the Composition of k-Spaced Amino Acid Pairs. PMID:32596396
Determining the Genetic Characteristics of Resistance and Virulence of the "Epidermidis Cluster Group" Through Pan-Genome Analysis. PMID:32596166
The PANoptosome: A Deadly Protein Complex Driving Pyroptosis, Apoptosis, and Necroptosis (PANoptosis). PMID:32582562
Use of Dual RNA-seq for Systems Biology Analysis of Zea mays and Aspergillus flavus Interaction. PMID:32582038
Detecting and correcting misclassified sequences in the large-scale public databases. PMID:32579213
An amphipathic peptide with antibiotic activity against multidrug-resistant Gram-negative bacteria. PMID:32576824
Prediction of the Secretome and the Surfaceome: A Strategy to Decipher the Crosstalk between Adipose Tissue and Muscle during Fetal Growth. PMID:32575512
Predicting Self-Interacting Proteins Using a Recurrent Neural Network and Protein Evolutionary Information. PMID:32550764
Integrated analysis of a compendium of RNA-Seq datasets for splicing factors. PMID:32546682
PINOT: an intuitive resource for integrating protein-protein interactions. PMID:32527260
GOcats: A tool for categorizing Gene Ontology into subgraphs of user-defined concepts. PMID:32525872
Proteome characteristics of liver tissue from patients with parenteral nutrition-associated liver disease. PMID:32518576
Whole genome resequencing of four Italian sweet pepper landraces provides insights on sequence variation in genes of agronomic value. PMID:32514106
Network pharmacology to dissect the mechanisms of Yinlai Decoction for pneumonia. PMID:32493296
Identification of Selective Novel Hits against Plasmodium falciparum Prolyl tRNA Synthetase Active Site and a Predicted Allosteric Site Using in silico Approaches. PMID:32471245
Intrinsic Disorder in Tetratricopeptide Repeat Proteins. PMID:32466138
GTP-Dependent FlhF Homodimer Supports Secretion of a Hemolysin in Bacillus cereus. PMID:32435240
Allele-aware chromosome-level genome assembly and efficient transgene-free genome editing for the autotetraploid cultivated alfalfa. PMID:32427850
SDN2GO: An Integrated Deep Learning Model for Protein Function Prediction. PMID:32411695
Genome Subtraction and Comparison for the Identification of Novel Drug Targets against Mycobacterium avium subsp. hominissuis. PMID:32408506
From Genome to Field-Observation of the Multimodal Nematicidal and Plant Growth-Promoting Effects of Bacillus firmus I-1582 on Tomatoes Using Hyperspectral Remote Sensing. PMID:32384661
Towards the routine use of in silico screenings for drug discovery using metabolic modelling. PMID:32369553
Computational Investigations on the Binding Mode of Ligands for the Cannabinoid-Activated G Protein-Coupled Receptor GPR18. PMID:32365486
The CD83 Molecule - An Important Immune Checkpoint. PMID:32362900
Human adipose-derived mesenchymal stem cell-conditioned medium ameliorates polyneuropathy and foot ulceration in diabetic BKS db/db mice. PMID:32357914
Proteomic profiling and bioinformatics analysis identify key regulators during the process from fanconi anemia to acute myeloid leukemia. PMID:32355551
Proteomic analysis and interactions network in leaves of mycorrhizal and nonmycorrhizal sorghum plants under water deficit. PMID:32351787
TCMIO: A Comprehensive Database of Traditional Chinese Medicine on Immuno-Oncology. PMID:32351388
GrAPFI: predicting enzymatic function of proteins from domain similarity graphs. PMID:32349654
Dynamics of Global Gene Expression and Regulatory Elements in Growing Brachypodium Root System. PMID:32341392
Transcriptomic analysis of sea star development through metamorphosis to the highly derived pentameral body plan with a focus on neural transcription factors. PMID:32339242
Deciphering MET-dependent modulation of global cellular responses to DNA damage by quantitative phosphoproteomics. PMID:32336009
PyRod Enables Rational Homology Model-based Virtual Screening Against MCHR1. PMID:32329245
Target Identification Using Homopharma and Network-Based Methods for Predicting Compounds Against Dengue Virus-Infected Cells. PMID:32325755
BioHackathon 2015: Semantics of data for life sciences and reproducible research. PMID:32308977
Integrated querying and version control of context-specific biological networks. PMID:32294194
Identifying nucleic acid-associated proteins in Mycobacterium smegmatis by mass spectrometry-based proteomics. PMID:32293251
Genome sequence of Gossypium herbaceum and genome updates of Gossypium arboreum and Gossypium hirsutum provide insights into cotton A-genome evolution. PMID:32284579
Detection of Protein Aggregation in Live Plasmodium Parasites. PMID:32284383
Gene silencing of Diaphorina citri candidate effectors promotes changes in feeding behaviors. PMID:32265528
Classification of VUS and unclassified variants in BRCA1 BRCT repeats by molecular dynamics simulation. PMID:32257056
Phenotypic Screening of Chemical Libraries Enriched by Molecular Docking to Multiple Targets Selected from Glioblastoma Genomic Data. PMID:32243127
ProGeo-neo: a customized proteogenomic workflow for neoantigen prediction and selection. PMID:32241270
Automated gene data integration with Databio. PMID:32238171
Relative Retention Time Estimation Improves N-Glycopeptide Identifications by LC-MS/MS. PMID:32223173
Proteomic mapping of Drosophila transgenic elav.L-GAL4/+ brain as a tool to illuminate neuropathology mechanisms. PMID:32214222
Developing and applying computational resources for biochemistry education. PMID:32203640
The role of semen and seminal plasma in inducing large-scale genomic changes in the female porcine peri-ovulatory tract. PMID:32193402
Mutations in disordered proteins as early indicators of nucleic acid changes triggering speciation. PMID:32161300
Biosynthesis and biology of mammalian GPI-anchored proteins. PMID:32156170
Does the Pre-Ovulatory Pig Oviduct Rule Sperm Capacitation In Vivo Mediating Transcriptomics of Catsper Channels? PMID:32155986
Neighborhood Preference of Amino Acids in Protein Structures and its Applications in Protein Structure Assessment. PMID:32152349
Tryp-N: A Thermostable Protease for the Production of N-terminal Argininyl and Lysinyl Peptides. PMID:32141294
Micromonospora zhangzhouensis sp. nov., a Novel Actinobacterium Isolated from Mangrove Soil, Exerts a Cytotoxic Activity in vitro. PMID:32127574
Recent advances in functional research in Giardia intestinalis. PMID:32122532
Two Highly Similar Chitinases from Marine Vibrio Species have Different Enzymatic Properties. PMID:32120805
Genomic Identification of RNA Editing Through Integrating Omics Datasets and the Clinical Relevance in Hepatocellular Carcinoma. PMID:32117713
The transpeptidase PBP2 governs initial localization and activity of the major cell-wall synthesis machinery in E. coli. PMID:32077853
Identification of proteins from the secretory/excretory products (SEPs) of the branchiuran ectoparasite Argulus foliaceus (Linnaeus, 1758) reveals unique secreted proteins amongst haematophagous ecdysozoa. PMID:32070416
Plasmodium-infected erythrocytes induce secretion of IGFBP7 to form type II rosettes and escape phagocytosis. PMID:32066522
Exploration of databases and methods supporting drug repurposing: a comprehensive survey. PMID:32055842
Molecular bases for drought tolerance in common vetch: designing new molecular breeding tools. PMID:32054459
Probing Carbon Utilization of Cordyceps militaris by Sugar Transportome and Protein Structural Analysis. PMID:32050592
The Progress of Multi-Omics Technologies: Determining Function in Lactic Acid Bacteria Using a Systems Level Approach. PMID:32047482
Proteomic insight of seminal plasma in spinal cord injured men submitted to oral probenecid treatment for improved motility. PMID:32043922
Classification of Trispanins: A Diverse Group of Proteins That Function in Membrane Synthesis and Transport Mechanisms. PMID:32039202
DeepCPI: A Deep Learning-based Framework for Large-scale in silico Drug Screening. PMID:32035227
Comparison of the Transcriptome Response within the Swine Tracheobronchial Lymphnode Following Infection with PRRSV, PCV-2 or IAV-S. PMID:32033425
Human body-fluid proteome: quantitative profiling and computational prediction. PMID:32020158
A Unique Regulation Region in the 3' UTR of HLA-G with a Promising Potential. PMID:32019184
Tools for Analysis of the Microbiome. PMID:32002757
Conservation of the OmpC Porin Among Typhoidal and Non-Typhoidal Salmonella Serovars. PMID:31998292
Resolving the genetic paradox of invasions: Preadapted genomes and postintroduction hybridization of bigheaded carps in the Mississippi River Basin. PMID:31993075
Characterization and diversity of the complete set of GH family 3 enzymes from Rhodothermus marinus DSM 4253. PMID:31992772
Molecular characterization and safety assessment of biofortified provitamin A rice. PMID:31992721
Comparative genomics of multidrug-resistant Enterococcus spp. isolated from wastewater treatment plants. PMID:31980014
Reconstruction of a regulated two-cell metabolic model to study biohydrogen production in a diazotrophic cyanobacterium Anabaena variabilis ATCC 29413. PMID:31978122
A possible role for autoimmunity through molecular mimicry in alphavirus mediated arthritis. PMID:31969581
Large-Scale Profiling of RBP-circRNA Interactions from Public CLIP-Seq Datasets. PMID:31947823
Hup-Type Hydrogenases of Purple Bacteria: Homology Modeling and Computational Assessment of Biotechnological Potential. PMID:31935912
Future of Evidence Synthesis in Precision Oncology: Between Systematic Reviews and Biocuration. PMID:31930186
Computational identification of vesicular transport proteins from sequences using deep gated recurrent units architecture. PMID:31921391
Tissue-specific gene expression and protein abundance patterns are associated with fractionation bias in maize. PMID:31900107
Human protein-RNA interaction network is highly stable across mammals. PMID:31888461
Variants in Miro1 Cause Alterations of ER-Mitochondria Contact Sites in Fibroblasts from Parkinson's Disease Patients. PMID:31888276
Identification of infectious disease-associated host genes using machine learning techniques. PMID:31881961
A novel algorithm for alignment of multiple PPI networks based on simulated annealing. PMID:31881842
Identification of self-interacting proteins by integrating random projection classifier and finite impulse response filter. PMID:31881833
GO2Vec: transforming GO terms and proteins to vector representations via graph embeddings. PMID:31874639
Classification of adaptor proteins using recurrent neural networks and PSSM profiles. PMID:31874633
Overlap matrix completion for predicting drug-associated indications. PMID:31869322
Type 2 diabetes-associated single nucleotide polymorphism in Sorcs1 gene results in alternative processing of the Sorcs1 protein in INS1 β-cells. PMID:31857633
A network pharmacology approach to reveal the protective mechanism of Salvia miltiorrhiza-Dalbergia odorifera coupled-herbs on coronary heart disease. PMID:31852981
Evolutionary Forces and Codon Bias in Different Flavors of Intrinsic Disorder in the Human Proteome. PMID:31820049
StructureDistiller: Structural relevance scoring identifies the most informative entries of a contact map. PMID:31811259
Full-Length Transcriptome Survey and Expression Analysis of Parasitoid Wasp Chouioia cunea upon Exposure to 1-Dodecene. PMID:31796851
Hybrid de novo whole-genome assembly and annotation of the model tapeworm Hymenolepis diminuta. PMID:31796747
Multimodal Long Noncoding RNA Interaction Networks: Control Panels for Cell Fate Specification. PMID:31796550
A common root for coevolution and substitution rate variability in protein sequence evolution. PMID:31792239
HKPocket: human kinase pocket database for drug design. PMID:31783725
Integrating the Ribonucleic Acid Sequencing Data From Various Studies for Exploring the Multiple Sclerosis-Related Long Noncoding Ribonucleic Acids and Their Functions. PMID:31781177
Comparing DNA, RNA and protein levels for measuring microbial dynamics in soil microcosms amended with nitrogen fertilizer. PMID:31772206
SXGBsite: Prediction of Protein-Ligand Binding Sites Using Sequence Information and Extreme Gradient Boosting. PMID:31771119
Supersaturated proteins are enriched at synapses and underlie cell and tissue vulnerability in Alzheimer's disease. PMID:31768427
Identifying Alzheimer's disease-related proteins by LRRGD. PMID:31760934
Ontology-based prediction of cancer driver genes. PMID:31757986
MiRNA therapeutics based on logic circuits of biological pathways. PMID:31757209
Next-Generation Sequencing Reveals Novel Genetic Variants (SRY, DMRT1, NR5A1, DHH, DHX37) in Adults With 46,XY DSD. PMID:31745530
Structural Conservation and Diversity of PilZ-Related Domains. PMID:31740493
Trochodendron aralioides, the first chromosome-level draft genome in Trochodendrales and a valuable resource for basal eudicot research. PMID:31738437
Cross-Talk Between circRNAs and mRNAs Modulates MiRNA-mediated Circuits and Affects Melanoma Plasticity. PMID:31734859
PCOSBase: a manually curated database of polycystic ovarian syndrome. PMID:31725861
Biomarker identification of hepatocellular carcinoma using a methodical literature mining strategy. PMID:31725857
Unusual Metabolism and Hypervariation in the Genome of a Gracilibacterium (BD1-5) from an Oil-Degrading Community. PMID:31719174
Autologous Exosome Transfer: A New Personalised Treatment Concept to Prevent Colitis in a Murine Model. PMID:31710674
MiPepid: MicroPeptide identification tool using machine learning. PMID:31703551
Integrating proteomic, sociodemographic and clinical data to predict future depression diagnosis in subthreshold symptomatic individuals. PMID:31699963
Transcriptional analysis of amino acid, metal ion, vitamin and carbohydrate uptake in butanol-producing Clostridium beijerinckii NRRL B-598. PMID:31697692
A High-Quality Assembly of the Nine-Spined Stickleback (Pungitius pungitius) Genome. PMID:31687752
Multivariate Genome-wide Association Analysis of a Cytokine Network Reveals Variants with Widespread Immune, Haematological, and Cardiometabolic Pleiotropy. PMID:31679650
Immune Suppressive Extracellular Vesicle Proteins of Leptopilina heterotoma Are Encoded in the Wasp Genome. PMID:31676506
Analysis of Arabidopsis thaliana Redox Gene Network Indicates Evolutionary Expansion of Class III Peroxidase in Plants. PMID:31673065
Proteome characterization of small extracellular vesicles from spared nerve injury model of neuropathic pain. PMID:31669360
Intrinsic Disorder of the BAF Complex: Roles in Chromatin Remodeling and Disease Development. PMID:31652801
Chromosome-level genome assembly of golden pompano (Trachinotus ovatus) in the family Carangidae. PMID:31641137
Closing the Gap Between Therapeutic Use and Mode of Action in Remedial Herbs. PMID:31632273
Communication within East Antarctic Soil Bacteria. PMID:31628145
Genome-wide association mapping of date palm fruit traits. PMID:31615981
Trafficking and Function of the Voltage-Gated Sodium Channel β2 Subunit. PMID:31614896
Bioinformatics for Marine Products: An Overview of Resources, Bottlenecks, and Perspectives. PMID:31614509
Targeted metagenomic recovery of four divergent viruses reveals shared and distinctive characteristics of giant viruses of marine eukaryotes. PMID:31587639
Bioremediation of a Common Product of Food Processing by a Human Gut Bacterium. PMID:31585844
A Consensus Binding Motif for the PP4 Protein Phosphatase. PMID:31585692
Tandem repeats lead to sequence assembly errors and impose multi-level challenges for genome and protein databases. PMID:31584084
Competitive Interactions between PIRT, the Cold Sensing Ion Channel TRPM8, and PIP2 Suggest a Mechanism for Regulation. PMID:31575973
Detecting sequence signals in targeting peptides using deep learning. PMID:31570514
Novel Genetic Markers for Early Detection of Elevated Breast Cancer Risk in Women. PMID:31569399
Identifying Crohn's disease signal from variome analysis. PMID:31564248
RiceRelativesGD: a genomic database of rice relatives for rice research. PMID:31560050
Genome Sequence of Lactobacillus futsaii Y97, a Potential Probiotic Strain Isolated from Futsai of Taiwan. PMID:31558628
A RAGE-Targeted Antibody-Drug Conjugate: Surface Plasmon Resonance as a Platform for Accelerating Effective ADC Design and Development. PMID:31544813
New Functional Ingredients Based on Microencapsulation of Aqueous Anthocyanin-Rich Extracts Derived from Black Rice (Oryza sativa L.). PMID:31540422
Distinct evolution of toll-like receptor signaling pathway genes in cetaceans. PMID:31535317
Molecular function limits divergent protein evolution on planetary timescales. PMID:31532392
Mitochondrial and nuclear genetic analyses of the tropical black-lip rock oyster (Saccostrea echinata) reveals population subdivision and informs sustainable aquaculture development. PMID:31514727
N-Glycosylation of the voltage-gated sodium channel β2 subunit is required for efficient trafficking of NaV1.5/β2 to the plasma membrane. PMID:31511323
SCRIBER: accurate and partner type-specific prediction of protein-binding residues from proteins sequences. PMID:31510679
The Role of Iron in the P-Acquisition Mechanisms of the Unicellular N2-Fixing Cyanobacteria Halothece sp., Found in Association With the Mediterranean Seagrass Posidonia oceanica. PMID:31507547
Low complexity regions in the proteins of prokaryotes perform important functional roles and are highly conserved. PMID:31504783
Duplication history and molecular evolution of the rbcS multigene family in angiosperms. PMID:31498865
Mitochondrial protein enriched extracellular vesicles discovered in human melanoma tissues can be detected in patient plasma. PMID:31497264
Complete Genome Sequence of a Shiga Toxin-Converting Bacteriophage, Escherichia Phage Lys12581Vzw, Induced from an Outbreak Shiga Toxin-Producing Escherichia coli Strain. PMID:31488531
The Acetylation of Lysine-376 of G3BP1 Regulates RNA Binding and Stress Granule Dynamics. PMID:31481451
The improved assembly of 7DL chromosome provides insight into the structure and evolution of bread wheat. PMID:31471988
Biosynthesis of Hyaluronic acid polymer: Dissecting the role of sub structural elements of hyaluronan synthase. PMID:31467312
Insights to the Assembly of a Functionally Active Leptospiral ClpP1P2 Protease Complex along with Its ATPase Chaperone ClpX. PMID:31460415
Extensive Thioautotrophic Gill Endosymbiont Diversity within a Single Ctena orbiculata (Bivalvia: Lucinidae) Population and Implications for Defining Host-Symbiont Specificity and Species Recognition. PMID:31455638
Enzymatic Degradation of Biofilm by Metalloprotease From Microbacterium sp. SKS10. PMID:31448272
Metabolomic and transcriptomic profiling of three types of litchi pericarps reveals that changes in the hormone balance constitute the molecular basis of the fruit cracking susceptibility of Litchi chinensis cv. Baitangying. PMID:31440876
Precise Prediction of Calpain Cleavage Sites and Their Aberrance Caused by Mutations in Cancer. PMID:31440276
Prediction of deleterious single nucleotide polymorphisms and their effect on the sequence and structure of the human CCND1 gene. PMID:31435243
Computational classification of MocR transcriptional regulators into subgroups as a support for experimental and functional characterization. PMID:31435161
Utilization of Tissue Ploidy Level Variation in de Novo Transcriptome Assembly of Pinus sylvestris. PMID:31427456
Nucleo-cytoplasmic Partitioning of ARF Proteins Controls Auxin Responses in Arabidopsis thaliana. PMID:31421981
Advances in gene ontology utilization improve statistical power of annotation enrichment. PMID:31415589
Dimerization and phosphorylation of Lutheran/basal cell adhesion molecule are critical for its function in cell migration on laminin. PMID:31413112
The liver proteome in a mouse model for Ascaris suum resistance and susceptibility: evidence for an altered innate immune response. PMID:31412915
CasPDB: an integrated and annotated database for Cas proteins from bacteria and archaea. PMID:31411686
Comparative Genomics of Marine Sponge-Derived Streptomyces spp. Isolates SM17 and SM18 With Their Closest Terrestrial Relatives Provides Novel Insights Into Environmental Niche Adaptations and Secondary Metabolite Biosynthesis Potential. PMID:31404169
β-Catenin/Tcf7l2-dependent transcriptional regulation of GLUT1 gene expression by Zic family proteins in colon cancer. PMID:31392276
Bioinformatics classification of mutations in patients with Mucopolysaccharidosis IIIA. PMID:31385193
Evaluation of the Common Molecular Basis in Alzheimer's and Parkinson's Diseases. PMID:31366155
Differential gene expression and gene ontologies associated with increasing water-stress in leaf and root transcriptomes of perennial ryegrass (Lolium perenne). PMID:31361773
An effective biomedical data migration tool from resource description framework to JSON. PMID:31343683
Pathogenic Protist Transmembranome database (PPTdb): a web-based platform for searching and analysis of protist transmembrane proteins. PMID:31337335
Disorder Atlas: Web-based software for the proteome-based interpretation of intrinsic disorder predictions. PMID:31326853
Structural and Functional Characterization of YdjI, an Aldolase of Unknown Specificity in Escherichia coli K12. PMID:31322866
Functional Characterization of YdjH, a Sugar Kinase of Unknown Specificity in Escherichia coli K12. PMID:31314509
glypy: An Open Source Glycoinformatics Library. PMID:31310539
EPIC: software toolkit for elution profile-based inference of protein complexes. PMID:31308550
Multi-channel PINN: investigating scalable and transferable neural networks for drug discovery. PMID:31289963
A systematic approach to orient the human protein-protein interaction network. PMID:31289271
Pathological changes are associated with shifts in the employment of synonymous codons at the transcriptome level. PMID:31288782
Responses of tundra soil microbial communities to half a decade of experimental warming at two critical depths. PMID:31285347
ET-GRU: using multi-layer gated recurrent units to identify electron transport proteins. PMID:31277574
Exploring the dark genome: implications for precision medicine. PMID:31270560
An anionic human protein mediates cationic liposome delivery of genome editing proteins into mammalian cells. PMID:31266953
Separating Golgi Proteins from Cis to Trans Reveals Underlying Properties of Cisternal Localization. PMID:31266899
Proteomics INTegrator (PINT): An Online Tool To Store, Query, and Visualize Large Proteomics Experiment Results. PMID:31260318
Mutations in PIGB Cause an Inherited GPI Biosynthesis Defect with an Axonal Neuropathy and Metabolic Abnormality in Severe Cases. PMID:31256876
Ridge regression estimated linear probability model predictions of O-glycosylation in proteins with structural and sequence data. PMID:31253080
Maize GO Annotation-Methods, Evaluation, and Review (maize-GAMER). PMID:31245718
Ligand-guided homology modeling drives identification of novel histamine H3 receptor ligands. PMID:31237914
Variations in the Structure and Evolution of Rice WRKY Genes in Indica and Japonica Genotypes and their Co-expression Network in Mediating Disease Resistance. PMID:31236008
Deep learning enables high-quality and high-throughput prediction of enzyme commission numbers. PMID:31221760
Active repurposing of drug candidates for melanoma based on GWAS, PheWAS and a wide range of omics data. PMID:31221082
Gradient Boosting Decision Tree-Based Method for Predicting Interactions Between Target Genes and Drugs. PMID:31214240
Unprecedented reorganization of holocentric chromosomes provides insights into the enigma of lepidopteran chromosome evolution. PMID:31206013
Towards creating an extended metabolic model (EMM) for E. coli using enzyme promiscuity prediction and metabolomics data. PMID:31196115
Functional Analysis of the PgCesA3 White Spruce Cellulose Synthase Gene Promoter in Secondary Xylem. PMID:31191566
Dicyemida and Orthonectida: Two Stories of Body Plan Simplification. PMID:31178892
Profiling of Multiphosphorylated Peptides in Kefir and Their Release During Simulated Gastrointestinal Digestion. PMID:31172034
Endometriosis Knowledgebase: a gene-based resource on endometriosis. PMID:31169291
Identification and functional analysis of missense mutations in the lecithin cholesterol acyltransferase gene in a Chilean patient with hypoalphalipoproteinemia. PMID:31164121
De Novo Design and In Vitro Testing of Antimicrobial Peptides against Gram-Negative Bacteria. PMID:31163671
Split4Blank: Maintaining consistency while improving efficiency of loading RDF data with blank nodes. PMID:31163073
Mutational burden and signatures in 4000 Japanese cancers provide insights into tumorigenesis and response to therapy. PMID:31152682
Drug repositioning of herbal compounds via a machine-learning approach. PMID:31138103
Subproteome of Lachesis muta rhombeata venom and preliminary studies on LmrSP-4, a novel snake venom serine proteinase. PMID:31131000
Dynamic Transcriptome Analysis Reveals Potential Long Non-coding RNAs Governing Postnatal Pineal Development in Pig. PMID:31130986
β-Aminopeptidases: Insight into Enzymes without a Known Natural Substrate. PMID:31126950
In silico and in vitro studies of lupeol and iso-orientin as potential antidiabetic agents in a rat model. PMID:31123393
EcRBPome: a comprehensive database of all known E. coli RNA-binding proteins. PMID:31117939
Fragment-Based Ligand-Protein Contact Statistics: Application to Docking Simulations. PMID:31117183
Methanogenesis marker protein 10 (Mmp10) from Methanosarcina acetivorans is a radical S-adenosylmethionine methylase that unexpectedly requires cobalamin. PMID:31113866
Investigating function roles of hypothetical proteins encoded by the Mycobacterium tuberculosis H37Rv genome. PMID:31113361
Three New Isoflavonoid Glycosides from the Mangrove-Derived Actinomycete Micromonospora aurantiaca 110B. PMID:31108876
The carboxy-terminus, a key regulator of protein function. PMID:31106589
Identification and comparative analysis of the CIPK gene family and characterization of the cold stress response in the woody plant Prunus mume. PMID:31106064
Ice-Age Climate Adaptations Trap the Alpine Marmot in a State of Low Genetic Diversity. PMID:31080084
De novo transcriptome assembly: A comprehensive cross-species comparison of short-read RNA-Seq assemblers. PMID:31077315
Pathway-specific protein domains are predictive for human diseases. PMID:31075101
A voting mechanism-based linear epitope prediction system for the host-specific Iridoviridae family. PMID:31074372
Prediction and characterisation of lantibiotic structures with molecular modelling and molecular dynamics simulations. PMID:31073133
Return to the Sea, Get Huge, Beat Cancer: An Analysis of Cetacean Genomes Including an Assembly for the Humpback Whale (Megaptera novaeangliae). PMID:31070747
Marine Natural Products from Microalgae: An -Omics Overview. PMID:31067655
Envisioning data sharing for the biocomputing community. PMID:31065349
Aspergillus niger citrate exporter revealed by comparison of two alternative citrate producing conditions. PMID:31062025
OrthoVenn2: a web server for whole-genome comparison and annotation of orthologous clusters across multiple species. PMID:31053848
High precision protein functional site detection using 3D convolutional neural networks. PMID:31051039
Identification and Quantification of Proteoforms by Mass Spectrometry. PMID:31050378
Linkage-based genome assembly improvement of oil palm (Elaeis guineensis). PMID:31036825
Conserved Secondary Structures in Viral mRNAs. PMID:31035717
Metaproteome analysis reveals that syntrophy, competition, and phage-host interaction shape microbial communities in biogas plants. PMID:31029164
SEanalysis: a web tool for super-enhancer associated regulatory analysis. PMID:31028388
Genomic and Physiological Traits of the Marine Bacterium Alcaligenes aquatilis QD168 Isolated From Quintero Bay, Central Chile, Reveal a Robust Adaptive Response to Environmental Stressors. PMID:31024465
Transcriptome Alterations in Liver Metastases of Colorectal Cancer After Acquired Resistance to Cetuximab. PMID:31018951
Tracing the origin and evolution of pseudokinases across the tree of life. PMID:31015289
Genome sequencing and CRISPR/Cas9 gene editing of an early flowering Mini-Citrus (Fortunella hindsii). PMID:31004551
Altered Expression and Localization of Tumor Suppressive E3 Ubiquitin Ligase SMURF2 in Human Prostate and Breast Cancer. PMID:31003445
INKA, an integrative data analysis pipeline for phosphoproteomic inference of active kinases. PMID:30979792
Drug-induced activation of integrin alpha IIb beta 3 leads to minor localized structural changes. PMID:30978226
In silico Characterization of Human Prion-Like Proteins: Beyond Neurological Diseases. PMID:30971948
Detection of BDNF-Related Proteins in Human Perilymph in Patients With Hearing Loss. PMID:30971872
A plasma protein derived TGFβ signature is a prognostic indicator in triple negative breast cancer. PMID:30963111
TagGraph reveals vast protein modification landscapes from large tandem mass spectrometry datasets. PMID:30936560
Repertoires of G protein-coupled receptors for Ciona-specific neuropeptides. PMID:30936317
Genome and Ontogenetic-Based Transcriptomic Analyses of the Flesh Fly, Sarcophaga bullata. PMID:30926723
Human gut resistome can be country-specific. PMID:30923648
Combined Genomic, Transcriptomic, Proteomic, and Physiological Characterization of the Growth of Pecoramyces sp. F1 in Monoculture and Co-culture With a Syntrophic Methanogen. PMID:30894845
AYbRAH: a curated ortholog database for yeasts and fungi spanning 600 million years of evolution. PMID:30893420
An Improved Deep Forest Model for Predicting Self-Interacting Proteins From Protein Sequence Using Wavelet Transformation. PMID:30881376
Fragment Hits: What do They Look Like and How do They Bind? PMID:30875465
Molecular modeling simulation studies reveal new potential inhibitors against HPV E6 protein. PMID:30875378
Dynamic analysis of human tyrosinase intra-melanosomal domain and mutant variants to further understand oculocutaneous albinism type 1. PMID:30868138
Autophagy accounts for approximately one-third of mitochondrial protein turnover and is protein selective. PMID:30865561
GenTree, an integrated resource for analyzing the evolution and function of primate-specific coding genes. PMID:30862647
When one phenotype is not enough: divergent evolutionary trajectories govern venom variation in a widespread rattlesnake species. PMID:30862287
Three additional patients with EED-associated overgrowth: potential mutation hotspots identified? PMID:30858506
Coexpression patterns define epigenetic regulators associated with neurological dysfunction. PMID:30858344
Protein structure prediction. PMID:30853739
How to Develop a Drug Target Ontology: KNowledge Acquisition and Representation Methodology (KNARM). PMID:30848456
Comparative transcriptomics of sympatric species of coral reef fishes (genus: Haemulon). PMID:30842908
Identifying Small Proteins by Ribosome Profiling with Stalled Initiation Complexes. PMID:30837344
A hybrid approach for automated mutation annotation of the extended human mutation landscape in scientific literature. PMID:30815103
BGFE: A Deep Learning Model for ncRNA-Protein Interaction Predictions Based on Improved Sequence Information. PMID:30813451
Novel SCN2A mutation in a family associated with juvenile-onset myoclonus: Case report. PMID:30813219
Identifying Windows of Susceptibility by Temporal Gene Analysis. PMID:30809014
Repurposing population genetics data to discern genomic architecture: A case study of linkage cohort detection in mountain pine beetle (Dendroctonus ponderosae). PMID:30805148
Survival Mechanisms of Campylobacter hepaticus Identified by Genomic Analysis and Comparative Transcriptomic Analysis of in vivo and in vitro Derived Bacteria. PMID:30804905
PamulDB: a comprehensive genomic resource for the study of human- and animal-pathogenic Pasteurella multocida. PMID:30799499
Discovery and Characterization of a Nitroreductase Capable of Conferring Bacterial Resistance to Chloramphenicol. PMID:30799223
Prediction of Self-Interacting Proteins from Protein Sequence Information Based on Random Projection Model and Fast Fourier Transform. PMID:30795499
Genome-resolved metagenomics of eukaryotic populations during early colonization of premature infants and in hospital rooms. PMID:30770768
MultiDomainBenchmark: a multi-domain query and subject database suite. PMID:30764761
Molecular Modeling and Functional Analysis of Exome Sequencing-Derived Variants of Unknown Significance Identify a Novel, Constitutively Active FGFR2 Mutant in Cholangiocarcinoma. PMID:30761385
Inhibition of acetylcholinesterase and butyrylcholinesterase with uracil derivatives: kinetic and computational studies. PMID:30734597
Free, unlinked glycosylphosphatidylinositols on mammalian cell surfaces revisited. PMID:30728244
Aminoacyl tRNA synthetases as malarial drug targets: a comparative bioinformatics study. PMID:30728021
Ranking Cancer Proteins by Integrating PPI Network and Protein Expression Profiles. PMID:30723737
Identification and analysis of structurally critical fragments in HopS2. PMID:30717655
Understanding the evolutionary trend of intrinsically structural disorders in cancer relevant proteins as probed by Shannon entropy scoring and structure network analysis. PMID:30717651
Diverse dynamics features of novel protein kinase C (PKC) isozymes determine the selectivity of a fluorinated balanol analogue for PKCε. PMID:30717648
The Gene Toolkit Implicated in Functional Sex in Sparidae Hermaphrodites: Inferences From Comparative Transcriptomics. PMID:30713551
The y-ome defines the 35% of Escherichia coli genes that lack experimental evidence of function. PMID:30698741
Transcriptome Analysis Clarified Genes Involved in Betalain Biosynthesis in the Fruit of Red Pitayas (Hylocereus costaricensis). PMID:30691184
Expression of Immune Regulatory Genes in the Porcine Internal Genital Tract Is Differentially Triggered by Spermatozoa and Seminal Plasma. PMID:30691059
Characterization of the Sinorhizobium meliloti HslUV and ClpXP Protease Systems in Free-Living and Symbiotic States. PMID:30670545
De Novo Sequencing and Hybrid Assembly of the Biofuel Crop Jatropha curcas L.: Identification of Quantitative Trait Loci for Geminivirus Resistance. PMID:30669588
Identification of selective inhibitors of Helicobacter pylori IMPDH as a targeted therapy for the infection. PMID:30655593
AMYCO: evaluation of mutational impact on prion-like proteins aggregation propensity. PMID:30642249
A Markov Chain Monte Carlo Method for Estimating the Statistical Significance of Proteoform Identifications by Top-Down Mass Spectrometry. PMID:30638379
Grafting, Stripping and Stapling of Helical Peptides from the Dimerization Interface of ONFH-Related Bone Morphogenetic Protein-2. PMID:30604108
Capturing variation impact on molecular interactions in the IMEx Consortium mutations data set. PMID:30602777
Integrating node embeddings and biological annotations for genes to predict disease-gene associations. PMID:30598097
Evaluation of top-down mass spectral identification with homologous protein sequences. PMID:30591035
Comparative Transcriptome Analysis Reveals an Efficient Mechanism of α-Linolenic Acid in Tree Peony Seeds. PMID:30586917
MDAD: A Special Resource for Microbe-Drug Associations. PMID:30581775
Biodegradation of the Allelopathic Chemical Pterostilbene by a Sphingobium sp. Strain from the Peanut Rhizosphere. PMID:30578258
Classification, substrate specificity and structural features of D-2-hydroxyacid dehydrogenases: 2HADH knowledgebase. PMID:30577795
Prediction of protein self-interactions using stacked long short-term memory from protein sequences information. PMID:30577794
iTextMine: integrated text-mining system for large-scale knowledge extraction from the literature. PMID:30576489
NBDC RDF portal: a comprehensive repository for semantic data in life sciences. PMID:30576482
psims - A Declarative Writer for mzML and mzIdentML for Python. PMID:30563850
Identifying mouse developmental essential genes using machine learning. PMID:30563825
Vertebrate SLRP family evolution and the subfunctionalization of osteoglycin gene duplicates in teleost fish. PMID:30545285
SYNGAP1 encephalopathy: A distinctive generalized developmental and epileptic encephalopathy. PMID:30541864
Development of Onchocerca volvulus in humanized NSG mice and detection of parasite biomarkers in urine and serum. PMID:30540742
Mitoproteomics: Tackling Mitochondrial Dysfunction in Human Disease. PMID:30533169
GABA-modulating bacteria of the human gut microbiota. PMID:30531975
Structural and functional characterization of an intradiol ring-cleavage dioxygenase from the polyphagous spider mite herbivore Tetranychus urticae Koch. PMID:30529144
Comparative analysis of interactions between aryl hydrocarbon receptor ligand binding domain with its ligands: a computational study. PMID:30522477
Taxonomic and functional heterogeneity of the gill microbiome in a symbiotic coastal mangrove lucinid species. PMID:30518817
Discovery of Novel Conotoxin Candidates Using Machine Learning. PMID:30513724
ARP3 Controls the Podocyte Architecture at the Kidney Filtration Barrier. PMID:30503751
Protein variability in cerebrospinal fluid and its possible implications for neurological protein biomarker research. PMID:30496192
The genome of an underwater architect, the caddisfly Stenopsyche tienmushanensis Hwang (Insecta: Trichoptera). PMID:30476205
Ethylene Receptors, CTRs and EIN2 Target Protein Identification and Quantification Through Parallel Reaction Monitoring During Tomato Fruit Ripening. PMID:30467512
Harmonizing semantic annotations for computational models in biology. PMID:30462164
Quantitative metaproteomics of medieval dental calculus reveals individual oral health status. PMID:30459334
BioGraph: a web application and a graph database for querying and analyzing bioinformatics resources. PMID:30458802
The predictive performance of short-linear motif features in the prediction of calmodulin-binding proteins. PMID:30453876
The codon sequences predict protein lifetimes and other parameters of the protein life cycle in the mouse brain. PMID:30443017
WebNetCoffee: a web-based application to identify functionally conserved proteins from Multiple PPI networks. PMID:30419809
NAT/NCS2-hound: a webserver for the detection and evolutionary classification of prokaryotic and eukaryotic nucleobase-cation symporters of the NAT/NCS2 family. PMID:30418564
A fast-evolving X-linked duplicate of importin-α2 is overexpressed in sex-ratio drive in Drosophila neotestacea. PMID:30411843
Exploring Exercise- and Context-Induced Peptide Changes in Mice by Quantitative Mass Spectrometry. PMID:30411050
Correlating enzyme annotations with a large set of microbial growth temperatures reveals metabolic adaptations to growth at diverse temperatures. PMID:30400856
PlantPAN3.0: a new and updated resource for reconstructing transcriptional regulatory networks from ChIP-seq experiments in plants. PMID:30395277
Genome sequencing of oomycete isolates from Chile supports the New Zealand origin of Phytophthora kernoviae and makes available the first Nothophytophthora sp. genome. PMID:30390404
The Bipartite Network Projection-Recommended Algorithm for Predicting Long Non-coding RNA-Protein Interactions. PMID:30388620
Identification of key differentially expressed MicroRNAs in cancer patients through pan-cancer analysis. PMID:30384176
A planarian nidovirus expands the limits of RNA genome size. PMID:30383829
Discovery Methodology of Novel Conotoxins from Conus Species. PMID:30380764
qPhos: a database of protein phosphorylation dynamics in humans. PMID:30380102
Species-level functional profiling of metagenomes and metatranscriptomes. PMID:30377376
The in silico human surfaceome. PMID:30373828
RefSeq database growth influences the accuracy of k-mer-based lowest common ancestor species identification. PMID:30373669
SEdb: a comprehensive human super-enhancer database. PMID:30371817
A GPU-based algorithm for fast node label learning in large and unbalanced biomolecular networks. PMID:30367594
Multiple model species selection for transcriptomics analysis of non-model organisms. PMID:30367568
Repellency, Toxicity, Gene Expression Profiling and In Silico Studies to Explore Insecticidal Potential of Melaleuca alternifolia Essential Oil against Myzus persicae. PMID:30366370
Phylotranscriptomic Insights into the Diversification of Endothermic Thunnus Tunas. PMID:30364966
ConfeitoGUI: A toolkit for size-sensitive community detection from a correlation network. PMID:30352084
HSP90-incorporating chaperome networks as biosensor for disease-related pathways in patient-specific midbrain dopamine neurons. PMID:30341316
Whole Proteome Profiling of N-Myristoyltransferase Activity and Inhibition Using Sortase A. PMID:30341083
EBP1 nuclear accumulation negatively feeds back on FERONIA-mediated RALF1 signaling. PMID:30339663
A most wanted list of conserved microbial protein families with no known domains. PMID:30332487
De novo genome and transcriptome analyses provide insights into the biology of the trematode human parasite Fasciolopsis buski. PMID:30325945
Deep-RBPPred: Predicting RNA binding proteins in the proteome scale based on deep learning. PMID:30323214
Preassembled GPCR signaling complexes mediate distinct cellular responses to ultralow ligand concentrations. PMID:30301787
Comparative transcriptomic profile of tolerogenic dendritic cells differentiated with vitamin D3, dexamethasone and rapamycin. PMID:30297862
In silico characterization of the global Geobacillus and Parageobacillus secretome. PMID:30285747
Assessment of shared alleles in drought-associated candidate genes among southern California white oak species (Quercus sect. Quercus). PMID:30285631
Fire ant social chromosomes: Differences in number, sequence and expression of odorant binding proteins. PMID:30283649
Exploration of Survival Traits, Probiotic Determinants, Host Interactions, and Functional Evolution of Bifidobacterial Genomes Using Comparative Genomics. PMID:30275399
Darkness in the Human Gene and Protein Function Space: Widely Modest or Absent Illumination by the Life Science Literature and the Trend for Fewer Protein Function Discoveries Since 2000. PMID:30265449
SemGen: a tool for semantics-based annotation and composition of biosimulation models. PMID:30256901
Glucocerebrosidase deficiency promotes protein aggregation through dysregulation of extracellular vesicles. PMID:30256786
Novel Metabolic Pathways and Regulons for Hexuronate Utilization in Proteobacteria. PMID:30249705
Genome-wide diversity in temporal and regional populations of the betabaculovirus Erinnyis ello granulovirus (ErelGV). PMID:30249206
Viruses.STRING: A Virus-Host Protein-Protein Interaction Database. PMID:30249048
Evolutionary Pressure against MHC Class II Binding Cancer Mutations. PMID:30245014
The Grayling Genome Reveals Selection on Gene Expression Regulation after Whole-Genome Duplication. PMID:30239729
Wide-scope biomedical named entity recognition and normalization with CRFs, fuzzy matching and character level modeling. PMID:30239666
Transcriptomic response of female adult moths to host and non-host plants in two closely related species. PMID:30236059
Systematic identification of cancer-specific MHC-binding peptides with RAVEN. PMID:30228952
Functional classification of long non-coding RNAs by k-mer content. PMID:30224646
Exploring Selectivity of Multikinase Inhibitors across the Human Kinome. PMID:30221217
Differences in possible TCA cycle replenishing pathways in purple non-sulfur bacteria possessing glyoxylate pathway. PMID:30219941
Integrated human-virus metabolic stoichiometric modelling predicts host-based antiviral targets against Chikungunya, Dengue and Zika viruses. PMID:30209043
Knockout of the Hmt1p Arginine Methyltransferase in Saccharomyces cerevisiae Leads to the Dysregulation of Phosphate-associated Genes and Processes. PMID:30206180
Computational systems pharmacology analysis of cannabidiol: a combination of chemogenomics-knowledgebase network analysis and integrated in silico modeling and simulation. PMID:30202014
Transcriptomic Analysis Reveals Sex-Dependent Expression Patterns in the Basolateral Amygdala of Dominant and Subordinate Animals After Acute Social Conflict. PMID:30196395
Phylogenomics Reveal the Dynamic Evolution of Fungal Nitric Oxide Reductases and Their Relationship to Secondary Metabolism. PMID:30165640
A potential central role of Thaumarchaeota in N-Cycling in a semi-arid environment, Fort Stanton Cave, Snowy River passage, New Mexico, USA. PMID:30165514
Comparative analysis of whole flower transcriptomes in the Zingiberales. PMID:30155368
Models of cell signaling uncover molecular mechanisms of high-risk neuroblastoma and predict disease outcome. PMID:30134948
Discovering Putative Prion-Like Proteins in Plasmodium falciparum: A Computational and Experimental Analysis. PMID:30131778
ACP Acylation Is an Acetyl-CoA-Dependent Modification Required for Electron Transport Chain Assembly. PMID:30118679
DPAGT1 Deficiency with Encephalopathy (DPAGT1-CDG): Clinical and Genetic Description of 11 New Patients. PMID:30117111
Proteomics for blood biomarker exploration of severe mental illness: pitfalls of the past and potential for the future. PMID:30115926
Approaches to target tractability assessment - a practical perspective. PMID:30108951
Identification of potent cholecystokinin-B receptor antagonists: synthesis, molecular modeling and anti-cancer activity against pancreatic cancer cells. PMID:30108868
Cooperativity in Plant Plasma Membrane Intrinsic Proteins (PIPs): Mechanism of Increased Water Transport in Maize PIP1 Channels in Hetero-tetramers. PMID:30104609
Computational resources associating diseases with genotypes, phenotypes and exposures. PMID:30102366
Recent applications of deep learning and machine intelligence on in silico drug discovery: methods, tools and databases. PMID:30084866
Quantitative Yeast Genetic Interaction Profiling of Bacterial Effector Proteins Uncovers a Role for the Human Retromer in Salmonella Infection. PMID:30077634
The scale-free nature of protein sequence space. PMID:30067815
OC-2-KB: integrating crowdsourcing into an obesity and cancer knowledge base curation system. PMID:30066655
BARM and BalticMicrobeDB, a reference metagenome and interface to meta-omic data for the Baltic Sea. PMID:30063227
Cotton rat lung transcriptome reveals host immune response to Respiratory Syncytial Virus infection. PMID:30054492
KampoDB, database of predicted targets and functional annotations of natural medicines. PMID:30046160
Novel 3D Structure Based Model for Activity Prediction and Design of Antimicrobial Peptides. PMID:30046138
A Genome-Scale Metabolic Reconstruction of Phytophthora infestans With the Integration of Transcriptional Data Reveals the Key Metabolic Patterns Involved in the Interaction of Its Host. PMID:30042788
Network Rewiring in Cancer: Applications to Melanoma Cell Lines and the Cancer Genome Atlas Patients. PMID:30042785
Exploring Structural Relationships between Bioactive and Commercial Chemical Space and Developing Target Hypotheses for Compound Acquisition. PMID:30023563
IRWNRLPI: Integrating Random Walk and Neighborhood Regularized Logistic Matrix Factorization for lncRNA-Protein Interaction Prediction. PMID:30023002
Leveraging prior knowledge for protein-protein interaction extraction with memory network. PMID:30010731
Structure and energy based quantitative missense variant effect analysis provides insights into drug resistance mechanisms of anaplastic lymphoma kinase mutations. PMID:30006516
Impact of Leishmania donovani infection on the HLA I self peptide repertoire of human macrophages. PMID:30001391
Improving Prediction of Self-interacting Proteins Using Stacked Sparse Auto-Encoder with PSSM profiles. PMID:29989064
Defining the Species Micromonospora saelicesensis and Micromonospora noduli Under the Framework of Genomics. PMID:29988535
Engineering orthogonal synthetic timer circuits based on extracytoplasmic function σ factors. PMID:29986061
Development and validation of an updated computational model of Streptomyces coelicolor primary and secondary metabolism. PMID:29973148
Hypothesis on monochromatic vision in scorpionflies questioned by new transcriptomic data. PMID:29959337
Post-translational buffering leads to convergent protein expression levels between primates. PMID:29950183
The choice of sequence homologs included in multiple sequence alignments has a dramatic impact on evolutionary conservation analysis. PMID:29947739
Systems-Based Interactome Analysis for Hematopoiesis Effect of Angelicae sinensis Radix: Regulated Network of Cell Proliferation towards Hemopoiesis. PMID:29943236
2-[2-(4-(trifluoromethyl)phenylamino)thiazol-4-yl]acetic acid (Activator-3) is a potent activator of AMPK. PMID:29942003
A CAZyme-Rich Genome of a Taxonomically Novel Rhodophyte-Associated Carrageenolytic Marine Bacterium. PMID:29936557
Proximal Pathway Enrichment Analysis for Targeting Comorbid Diseases via Network Endopharmacology. PMID:29932108
RBPMetaDB: a comprehensive annotation of mouse RNA-Seq datasets with perturbations of RNA-binding proteins. PMID:29931156
Exploring the functional impact of alternative splicing on human protein isoforms using available annotation sources. PMID:29931155
Homeobox Gene Duplication and Divergence in Arachnids. PMID:29924328
Differential Proteomic Analysis of Lactic Acid Bacteria-Escherichia coli O157:H7 Interaction and Its Contribution to Bioprotection Strategies in Meat. PMID:29922248
Tissue-Specific Analysis of Pharmacological Pathways. PMID:29920991
Molecular Determinants of the Promiscuity of MexB and MexY Multidrug Transporters of Pseudomonas aeruginosa. PMID:29910784
Probiotic strains detect and suppress cholera in mice. PMID:29899022
iProt-Sub: a comprehensive package for accurately mapping and predicting protease-specific substrates and cleavage sites. PMID:29897410
Prion-like Domains in Eukaryotic Viruses. PMID:29895872
Blazing Signature Filter: a library for fast pairwise similarity comparisons. PMID:29890950
Molecular profiling and sequential somatic mutation shift in hypermutator tumours harbouring POLE mutations. PMID:29880869
Weibel-Palade Body Localized Syntaxin-3 Modulates Von Willebrand Factor Secretion From Endothelial Cells. PMID:29880488
Venom allergen-like protein 28 in Clonorchis sinensis: four epitopes on its surface and the potential role of Cys124 for its conformational stability. PMID:29876859
Predicting Adverse Drug Effects from Literature- and Database-Mined Assertions. PMID:29876834
PTMscape: an open source tool to predict generic post-translational modifications and map modification crosstalk in protein domains and biological processes. PMID:29876573
MU-LOC: A Machine-Learning Method for Predicting Mitochondrially Localized Proteins in Plants. PMID:29875778
Genomic atlas of the human plasma proteome. PMID:29875488
MGOGP: a gene module-based heuristic algorithm for cancer-related gene prioritization. PMID:29871590
Protein Expression Profile of Twenty-Week-Old Diabetic db/db and Non-Diabetic Mice Livers: A Proteomic and Bioinformatic Analysis. PMID:29857581
PhosContext2vec: a distributed representation of residue-level sequence contexts and its application to general and kinase-specific phosphorylation site prediction. PMID:29844483
Recovery of genomes from metagenomes via a dereplication, aggregation and scoring strategy. PMID:29807988
Taxon Richness of "Megaviridae" Exceeds those of Bacteria and Archaea in the Ocean. PMID:29806626
Genomes of all known members of a Plasmodium subgenus reveal paths to virulent human malaria. PMID:29784978
Estimates of genomic heritability and genome-wide association study for fatty acids profile in Santa Inês sheep. PMID:29783944
Chemokine C-C motif ligand 33 is a key regulator of teleost fish barbel development. PMID:29760055
Xpo7 is a broad-spectrum exportin and a nuclear import receptor. PMID:29748336
Identification and application of exogenous dsRNA confers plant protection against Sclerotinia sclerotiorum and Botrytis cinerea. PMID:29743510
PANNZER2: a rapid functional annotation web server. PMID:29741643
Overview of Virus Metagenomic Classification Methods and Their Biological Applications. PMID:29740407
Potential molecular mechanisms of overgrazing-induced dwarfism in sheepgrass (Leymus chinensis) analyzed using proteomic data. PMID:29739327
Control of mitotic chromosome condensation by the fission yeast transcription factor Zas1. PMID:29735745
The Disordered C-Terminus of Yeast Hsf1 Contains a Cryptic Low-Complexity Amyloidogenic Region. PMID:29734798
High quality draft genome sequences of Mycoplasma agassizii strains PS6T and 723 isolated from Gopherus tortoises with upper respiratory tract disease. PMID:29725499
Genome-wide expert annotation of the epigenetic machinery of the plant-parasitic nematodes Meloidogyne spp., with a focus on the asexually reproducing species. PMID:29724186
Brain gene expression analyses in virgin and mated queens of fire ants reveal mating-independent and socially regulated changes. PMID:29721300
A proteomic analysis of an in vitro knock-out of miR-200c. PMID:29720730
A Strategy for Discovery of Endocrine Interactions with Application to Whole-Body Metabolism. PMID:29719227
Innovative assembly strategy contributes to understanding the evolution and conservation genetics of the endangered Solenodon paradoxus from the island of Hispaniola. PMID:29718205
Comparative genomics of the nonlegume Parasponia reveals insights into evolution of nitrogen-fixing rhizobium symbioses. PMID:29717040
Sensing the cilium, digital capture of ciliary data for comparative genomics investigations. PMID:29713460
Shared strategies for β-lactam catabolism in the soil microbiome. PMID:29713061
Functional and structural characterization of osteocytic MLO-Y4 cell proteins encoded by genes differentially expressed in response to mechanical signals in vitro. PMID:29712973
Computational Characterization of Small Molecules Binding to the Human XPF Active Site and Virtual Screening to Identify Potential New DNA Repair Inhibitors Targeting the ERCC1-XPF Endonuclease. PMID:29710850
The Egyptian Rousette Genome Reveals Unexpected Features of Bat Antiviral Immunity. PMID:29706541
Characterization of a novel organic solute transporter homologue from Clonorchis sinensis. PMID:29702646
Precision Profiling of the Cardiovascular Post-Translationally Modified Proteome: Where There Is a Will, There Is a Way. PMID:29700069
Cross-species inference of long non-coding RNAs greatly expands the ruminant transcriptome. PMID:29690875
Worldwide Protein Data Bank biocuration supporting open access to high-quality 3D structural biology data. PMID:29688351
YAAM: Yeast Amino Acid Modifications Database. PMID:29688347
Collection of analog series-based scaffolds from public compound sources. PMID:29682322
High quality draft genome sequence of Mycoplasma testudineum strain BH29T, isolated from the respiratory tract of a desert tortoise. PMID:29682170
CD81 Receptor Regions outside the Large Extracellular Loop Determine Hepatitis C Virus Entry into Hepatoma Cells. PMID:29677132
The architecture of an empirical genotype-phenotype map. PMID:29676774
A Novel Method for Drug Screen to Regulate G Protein-Coupled Receptors in the Metabolic Network of Alzheimer's Disease. PMID:29675426
Computational Prediction and Analysis of Associations between Small Molecules and Binding-Associated S-Nitrosylation Sites. PMID:29671802
Genome-Wide Analyses of Calcium Sensors Reveal Their Involvement in Drought Stress Response and Storage Roots Deterioration after Harvest in Cassava. PMID:29671773
Larval transcriptomic response to host plants in two related phytophagous lepidopteran species: implications for host specialization and species divergence. PMID:29669517
The role of the Human Metabolome Database in inborn errors of metabolism. PMID:29663269
SPIDR: small-molecule peptide-influenced drug repurposing. PMID:29661129
Targeted next generation sequencing identifies functionally deleterious germline mutations in novel genes in early-onset/familial prostate cancer. PMID:29659569
Tracing the evolution of the heterotrimeric G protein α subunit in Metazoa. PMID:29642851
Hospitalized Premature Infants Are Colonized by Related Bacterial Strains with Distinct Proteomic Profiles. PMID:29636439
Genomic architecture of haddock (Melanogrammus aeglefinus) shows expansions of innate immune genes and short tandem repeats. PMID:29636006
Conditional mouse models support the role of SLC39A14 (ZIP14) in Hyperostosis Cranialis Interna and in bone homeostasis. PMID:29621230
Integrating images from multiple microscopy screens reveals diverse patterns of change in the subcellular localization of proteins. PMID:29620521
Global gene regulation in tomato plant (Solanum lycopersicum) responding to vector (Bactericera cockerelli) feeding and pathogen ('Candidatus Liberibacter solanacearum') infection. PMID:29619663
A novel method for improved accuracy of transcription factor binding site prediction. PMID:29617876
De novo draft assembly of the Botrylloides leachii genome provides further insight into tunicate evolution. PMID:29615780
Teleost Fish-Specific Preferential Retention of Pigmentation Gene-Containing Families After Whole Genome Duplications in Vertebrates. PMID:29599177
HLPI-Ensemble: Prediction of human lncRNA-protein interactions based on ensemble strategy. PMID:29583068
Systematic Characterization of Stress-Induced RNA Granulation. PMID:29576526
Association Between Serotonin Syndrome and Second-Generation Antipsychotics via Pharmacological Target-Adverse Event Analysis. PMID:29575568
The Catalytically Inactive Mutation of the Ubiquitin-Conjugating Enzyme CDC34 Affects its Stability and Cell Proliferation. PMID:29564676
The mRNA and miRNA transcriptomic landscape of Panax ginseng under the high ambient temperature. PMID:29560829
Evaluation of variability in high-resolution protein structures by global distance scoring. PMID:29560428
Heterodimer Binding Scaffolds Recognition via the Analysis of Kinetically Hot Residues. PMID:29547506
Charge and Polarity Preferences for N-Glycosylation: A Genome-Wide In Silico Study and Its Implications Regarding Constitutive Proliferation and Adhesion of Carcinoma Cells. PMID:29541627
Molecular evolution and functional divergence of eukaryotic translation initiation factor 2-alpha kinases. PMID:29538447
Statistically derived asymmetric membrane potentials from α-helical and β-barrel membrane proteins. PMID:29535329
GATA3 zinc finger 2 mutations reprogram the breast cancer transcriptional network. PMID:29535312
MetaGO: Predicting Gene Ontology of Non-homologous Proteins Through Low-Resolution Protein Structure Prediction and Protein-Protein Network Mapping. PMID:29534977
Loss and gain of N-linked glycosylation sequons due to single-nucleotide variation in cancer. PMID:29531238
Molecular Modeling of Structures and Interaction of Human Corticotropin-Releasing Factor (CRF) Binding Protein and CRF Type-2 Receptor. PMID:29515519
On the Regularities of the Polar Profiles of Proteins Related to Ebola Virus Infection and their Functional Domains. PMID:29511990
Multi-chaperone function modulation and association with cytoskeletal proteins are key features of the function of AIP in the pituitary gland. PMID:29507682
STRENDA DB: enabling the validation and sharing of enzyme kinetics data. PMID:29498804
Computational de novo discovery of distinguishing genes for biological processes and cell types in complex tissues. PMID:29494600
Data processing, multi-omic pathway mapping, and metabolite activity analysis using XCMS Online. PMID:29494574
The End of a 60-year Riddle: Identification and Genomic Characterization of an Iridovirus, the Causative Agent of White Fat Cell Disease in Zooplankton. PMID:29487186
Bioinformatics for Prohormone and Neuropeptide Discovery. PMID:29476505
The transcriptomic signature of different sexes in two protogynous hermaphrodites: Insights into the molecular network underlying sex phenotype in fish. PMID:29476120
Unexplored therapeutic opportunities in the human genome. PMID:29472638
Worlds Apart - Transcriptome Profiles of Key Oral Microbes in the Periodontal Pocket Compared to Single Laboratory Culture Reflect Synergistic Interactions. PMID:29467738
Expanded diversity of microbial groups that shape the dissimilatory sulfur cycle. PMID:29467397
Cooption of heat shock regulatory system for anhydrobiosis in the sleeping chironomid Polypedilum vanderplanki. PMID:29463761
Genome-Wide Analysis of the GRF Family Reveals Their Involvement in Abiotic Stress Response in Cassava. PMID:29461467
Comprehensive Analysis of Constraint on the Spatial Distribution of Missense Variants in Human Protein Structures. PMID:29455857
Exploring autophagy with Gene Ontology. PMID:29455577
AOP-DB: A database resource for the exploration of Adverse Outcome Pathways through integrated association networks. PMID:29454060
Structural and compositional diversity of fibrillin microfibrils in human tissues. PMID:29453284
A comprehensive and quantitative comparison of text-mining in 15 million full-text articles versus their corresponding abstracts. PMID:29447159
Interacting-heads motif has been conserved as a mechanism of myosin II inhibition since before the origin of animals. PMID:29444861
Draft genomes of two blister b