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Bioentities

Names
More detailed information about this field from each metasource.

Bioentities
metasource: Biontology / Bioportal
version: 1.0 extracted_at: 2022-11-04T11:10:15.597147, http://bioportal.bioontology.org/ontologies/BE

BE
metasource: Biontology / Bioportal
version: 1.0 extracted_at: 2022-11-04T11:10:15.597147, http://bioportal.bioontology.org/ontologies/BE

Other names: BE

Names

More detailed information about this field from each metasource.

Bioentities

metasource: Biontology / Bioportal
version: 1.0 extracted_at: 2022-11-04T11:10:15.597147, http://bioportal.bioontology.org/ontologies/BE

BE

metasource: Biontology / Bioportal
version: 1.0 extracted_at: 2022-11-04T11:10:15.597147, http://bioportal.bioontology.org/ontologies/BE

Bioentities is a collection of resources for grounding biological entities from text and describing their hierarchical relationships, focusing on protein families and complexes.

Description

More detailed information about this field from each metasource.

Bioentities is a collection of resources for grounding biological entities from text and describing their hierarchical relationships, focusing on protein families and complexes.

metasource: Biontology / Bioportal
version: 1.0 extracted_at: 2022-11-04T11:10:15.597147, http://bioportal.bioontology.org/ontologies/BE

Webpage:

http://github.com/sorgerlab/bioentities

Webpage

More detailed information about this field from each metasource.

http://github.com/sorgerlab/bioentities

metasource: Biontology / Bioportal
version: 1.0 extracted_at: 2022-11-04T11:10:15.597147, http://bioportal.bioontology.org/ontologies/BE

More to explore:

1/20

FamPlex

It is an effective resource for improving named entity recognition, grounding, and relationship resolution in automated reading of biomedical text.

Voronoia4RNA

Packing of RNA molecules and complexes

MegaMotifbase

Structural motifs in protein families and superfamilies

Plant Experimental Assay Ontology

The Plant Experimental Assay Ontology (PEAO) was created to describe experimental procedures within plant research, regardless of the scientific questions that prompted the assays. This ontology model ...

PROSITE

PROSITE is a database of protein families and domains. PROSITE consists of documentation entries describing protein domains, families and functional sites as well as associated patterns and profiles t ...

Planteome

A resource providing data on bioentities and their associated ontology terms for Plant Biology. The database provides access to ontology-based annotations of genes, phenotypes and germplasms from abou ...

SIGnaling Network Open Resource

The SIGnaling Network Open Resource. The core of SIGNOR is a collection of approximately 12,000 manually-annotated causal relationships between over 2800 human proteins participating in signal transdu ...

TIGRFAMs

TIGRFAMs is a collection of manually curated protein families focusing primarily on prokaryotic sequences.It consists of hidden Markov models (HMMs), multiple sequence alignments, Gene Ontology (GO) t ...

Pfam

The Pfam database is a large collection of protein families, each represented by multiple sequence alignments and hidden Markov models (HMMs). Pfam also generates higher-level groupings of related ent ...

NRichD

Efficiency of protein remote homology detection methods depends on the dispersion of the protein sequence space and the availability of intermediate sequences between two related protein families. In ...

Biological Observation Matrix Ontology

The BIOMO ontology maps the HDF5 based BIOM format (http://biom-format.org/) to OWL, offering a method to convert a BIOM file to RDF and therefore publish it as Linked Data

Integrated resource of protein families, domains and functional sites

InterPro is a resource that provides functional analysis of protein sequences by classifying them into families and predicting the presence of domains and important sites. To classify proteins in this ...

ProtoNet

This resource is a hierarchical clustering of UniProt protein sequences into hierarchical trees. This resource allows for the study of sub-family and super-family of a protein, using UniRef50 clusters ...

PIR SuperFamily

The PIR SuperFamily concept is being used as a guiding principle to provide comprehensive and non-overlapping clustering of UniProtKB sequences into a hierarchical order to reflect their evolutionary ...

SUPFAM

During the course of evolution, protein sequences derived from a common ancestor diverge by mutations, insertions and deletions, gene duplication and recombination and give rise to diverse families wi ...

Protein Classification Benchmark Collection

The Protein Classification Benchmark Collection was created in order to create standard datasets on which the performance of machine learning methods can be compared.

PRotein Ontology

Protein Ontology (PRO) provides an ontological representation of protein-related entities by explicitly defining them and showing the relationships between them. Each PRO term represents a distinct cl ...

SSBD: Systems Science of Biological Dynamics

SSBD is a database that collects and shares quantitative biological dynamics data, microscopy images, and software tools. SSBD provides a rich set of resources for analyzing quantitative biological da ...

CORUM

CORUM is a database that provides a manually curated repository of experimentally characterized protein complexes from mammalian organisms, mainly human (64%), mouse (16%) and rat (12%). Each protein ...

BioConceptVec

BioConceptVec is a collection of concept embeddings on primary biological concepts mentioned in the biomedical literature.

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Service status

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Data is amalgamated and only retrieved periodically.
Some of the resources used by the system:

® FAIRsharing.org
® Bioontology/Bioportal Terms
® Nucleic Acid Research - Database
® re3data.org
® bio.tools
® PubMed - Courtesy of the U.S. National Library of Medicine