Omics Discovery Index
Names
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Omics Discovery Index
metasource: Fairsharing.org
version: FAIRsharing.org: OmicsDI; Omics Discovery Index; DOI: https://doi.org/10.25504/FAIRsharing.re1278; Last edited: March 11, 2021, 2:46 p.m.; Last accessed: Jan 03 2022 7:09 p.m.
OmicsDI
metasource: Fairsharing.org
version: FAIRsharing.org: OmicsDI; Omics Discovery Index; DOI: https://doi.org/10.25504/FAIRsharing.re1278; Last edited: March 11, 2021, 2:46 p.m.; Last accessed: Jan 03 2022 7:09 p.m.
omicsDI
metasource: bio.tools
version: extracted_at: 2022-11-04T11:31:27.050224
omicsdi
metasource: bio.tools
version: extracted_at: 2022-11-04T11:31:27.050224
Names
More detailed information about this field from each metasource.
Omics Discovery Index
metasource: Fairsharing.orgversion: FAIRsharing.org: OmicsDI; Omics Discovery Index; DOI: https://doi.org/10.25504/FAIRsharing.re1278; Last edited: March 11, 2021, 2:46 p.m.; Last accessed: Jan 03 2022 7:09 p.m.
OmicsDI
metasource: Fairsharing.orgversion: FAIRsharing.org: OmicsDI; Omics Discovery Index; DOI: https://doi.org/10.25504/FAIRsharing.re1278; Last edited: March 11, 2021, 2:46 p.m.; Last accessed: Jan 03 2022 7:09 p.m.
omicsDI
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:31:27.050224
omicsdi
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:31:27.050224
Other names: OmicsDI, omicsDI, omicsdi
Names
More detailed information about this field from each metasource.
Omics Discovery Index
metasource: Fairsharing.orgversion: FAIRsharing.org: OmicsDI; Omics Discovery Index; DOI: https://doi.org/10.25504/FAIRsharing.re1278; Last edited: March 11, 2021, 2:46 p.m.; Last accessed: Jan 03 2022 7:09 p.m.
OmicsDI
metasource: Fairsharing.orgversion: FAIRsharing.org: OmicsDI; Omics Discovery Index; DOI: https://doi.org/10.25504/FAIRsharing.re1278; Last edited: March 11, 2021, 2:46 p.m.; Last accessed: Jan 03 2022 7:09 p.m.
omicsDI
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:31:27.050224
omicsdi
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:31:27.050224
The Omics Discovery Index (OmicsDI) provides dataset discovery across a heterogeneous, distributed group of Transcriptomics, Genomics, Proteomics and Metabolomics data resources, including both open and controlled access data resources. The resource provides a short description of every dataset, including accession, description, sample/data protocols biological evidences, and publication. Based on these metadata, OmicsDI provides extensive search capabilities, as well as identification of related datasets by metadata and data content where possible. In particular, OmicsDI identifies groups of related, multi-omics datasets across repositories by shared identifiers.
Description
More detailed information about this field from each metasource.
The Omics Discovery Index (OmicsDI) provides dataset discovery across a heterogeneous, distributed group of Transcriptomics, Genomics, Proteomics and Metabolomics data resources, including both open and controlled access data resources. The resource provides a short description of every dataset, including accession, description, sample/data protocols biological evidences, and publication. Based on these metadata, OmicsDI provides extensive search capabilities, as well as identification of related datasets by metadata and data content where possible. In particular, OmicsDI identifies groups of related, multi-omics datasets across repositories by shared identifiers.
metasource: Fairsharing.orgversion: FAIRsharing.org: OmicsDI; Omics Discovery Index; DOI: https://doi.org/10.25504/FAIRsharing.re1278; Last edited: March 11, 2021, 2:46 p.m.; Last accessed: Jan 03 2022 7:09 p.m.
Provides dataset discovery across a heterogeneous, distributed group of Transcriptomics, Genomics, Proteomics and Metabolomics data resources.
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:31:27.050224
Webpage:
http://www.omicsdi.org/homeWebpage
More detailed information about this field from each metasource.
http://www.omicsdi.org/home
metasource: Fairsharing.orgversion: FAIRsharing.org: OmicsDI; Omics Discovery Index; DOI: https://doi.org/10.25504/FAIRsharing.re1278; Last edited: March 11, 2021, 2:46 p.m.; Last accessed: Jan 03 2022 7:09 p.m.
http://www.omicsdi.org
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:31:27.050224
Licence:
Name: EMBL-EBI Terms of UseLicence name
More detailed information about this field from each metasource.
EMBL-EBI Terms of Use
metasource: Fairsharing.orgversion: FAIRsharing.org: OmicsDI; Omics Discovery Index; DOI: https://doi.org/10.25504/FAIRsharing.re1278; Last edited: March 11, 2021, 2:46 p.m.; Last accessed: Jan 03 2022 7:09 p.m.
Apache-2.0
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:31:27.050224
Licence URL
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http://www.ebi.ac.uk/about/terms-of-use
metasource: Fairsharing.orgversion: FAIRsharing.org: OmicsDI; Omics Discovery Index; DOI: https://doi.org/10.25504/FAIRsharing.re1278; Last edited: March 11, 2021, 2:46 p.m.; Last accessed: Jan 03 2022 7:09 p.m.
Publications:
Publications
More detailed information about this field from each metasource.
Discovering and linking public omics data sets using the Omics Discovery Index
PMID: 28486464
metasource: Fairsharing.org
version: FAIRsharing.org: OmicsDI; Omics Discovery Index; DOI: https://doi.org/10.25504/FAIRsharing.re1278; Last edited: March 11, 2021, 2:46 p.m.; Last accessed: Jan 03 2022 7:09 p.m.
http://dx.doi.org/10.1101/049205
metasource: bio.tools
version: extracted_at: 2022-11-04T11:31:27.050224
Publications
More detailed information about this field from each metasource.
Discovering and linking public omics data sets using the Omics Discovery Index
PMID: 28486464
metasource: Fairsharing.org
version: FAIRsharing.org: OmicsDI; Omics Discovery Index; DOI: https://doi.org/10.25504/FAIRsharing.re1278; Last edited: March 11, 2021, 2:46 p.m.; Last accessed: Jan 03 2022 7:09 p.m.
http://dx.doi.org/10.1101/049205
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:31:27.050224
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Discovering and linking public omics data sets using the Omics Discovery Index
PubMed citations: 70.
70 articles citing: Discovering and linking public omics data sets using the Omics Discovery Index
A Current Encyclopedia of Bioinformatics Tools, Data Formats and Resources for Mass Spectrometry Lipidomics. PMID:35888710
Ecosystem-specific microbiota and microbiome databases in the era of big data. PMID:35842686
Applications of Omics Technology for Livestock Selection and Improvement. PMID:35719396
BOSO: A novel feature selection algorithm for linear regression with high-dimensional data. PMID:35639775
The Potential of Metabolomics in Biomedical Applications. PMID:35208267
Cloud-based archived metabolomics data: A resource for in-source fragmentation/annotation, meta-analysis and systems biology. PMID:35190800
Integrative OMICS Data-Driven Procedure Using a Derivatized Meta-Analysis Approach. PMID:35186042
Perspective of the GEMSTONE Consortium on Current and Future Approaches to Functional Validation for Skeletal Genetic Disease Using Cellular, Molecular and Animal-Modeling Techniques. PMID:34938269
Supervised Methods for Biomarker Detection from Microarray Experiments. PMID:34902125
Building Structural Models of a Whole Mycoplasma Cell. PMID:34774566
A proteomics sample metadata representation for multiomics integration and big data analysis. PMID:34615866
Omics in a Digital World: The Role of Bioinformatics in Providing New Insights Into Human Aging. PMID:34178042
Proteomics and Epidemiological Models of Human Aging. PMID:34135771
Review of multi-omics data resources and integrative analysis for human brain disorders. PMID:33969380
Multi-Layer Picture of Neurodegenerative Diseases: Lessons from the Use of Big Data through Artificial Intelligence. PMID:33917161
Human OMICs and Computational Biology Research in Africa: Current Challenges and Prospects. PMID:33794662
A Second Look at FAIR in Proteomic Investigations. PMID:33719446
Transcriptomic profiling of long- and short-lived mutant mice implicates mitochondrial metabolism in ageing and shows signatures of normal ageing in progeroid mice. PMID:33454277
State of the Field in Multi-Omics Research: From Computational Needs to Data Mining and Sharing. PMID:33362867
Systematic Review of Multi-Omics Approaches to Investigate Toxicological Effects in Macrophages. PMID:33317022
Multi-omics integration in biomedical research - A metabolomics-centric review. PMID:33248648
Datanator: an integrated database of molecular data for quantitatively modeling cellular behavior. PMID:33174603
Artificial Intelligence (AI)-Based Systems Biology Approaches in Multi-Omics Data Analysis of Cancer. PMID:33154949
Multiomic Integration of Public Oncology Databases in Bioconductor. PMID:33119407
Integrative analysis of multi-omics data for discovering low-frequency variants associated with low-density lipoprotein cholesterol levels. PMID:33070182
Applications of Genome-Wide Screening and Systems Biology Approaches in Drug Repositioning. PMID:32967266
SCALEUS-FD: A FAIR Data Tool for Biomedical Applications. PMID:32908882
Reproducible molecular networking of untargeted mass spectrometry data using GNPS. PMID:32405051
The omics discovery REST interface. PMID:32374843
Multi-omics Data Integration, Interpretation, and Its Application. PMID:32076369
All of gene expression (AOE): An integrated index for public gene expression databases. PMID:31978081
Mass spectrometry searches using MASST. PMID:31894142
Reactome and ORCID-fine-grained credit attribution for community curation. PMID:31802127
Cardioinformatics: the nexus of bioinformatics and precision cardiology. PMID:31802103
An omics perspective on drug target discovery platforms. PMID:31774113
DDBJ Database updates and computational infrastructure enhancement. PMID:31724722
The ProteomeXchange consortium in 2020: enabling 'big data' approaches in proteomics. PMID:31686107
The Signaling Pathways Project, an integrated 'omics knowledgebase for mammalian cellular signaling pathways. PMID:31672983
InterSpin: Integrated Supportive Webtools for Low- and High-Field NMR Analyses Toward Molecular Complexity. PMID:31459550
Quantifying the impact of public omics data. PMID:31383865
In Silico Toxicology Data Resources to Support Read-Across and (Q)SAR. PMID:31244651
Mass Spectrometry Data Repository Enhances Novel Metabolite Discoveries with Advances in Computational Metabolomics. PMID:31238512
MENDA: a comprehensive curated resource of metabolic characterization in depression. PMID:31157825
Systems Biology and Multi-Omics Integration: Viewpoints from the Metabolomics Research Community. PMID:31003499
The EMBL-EBI search and sequence analysis tools APIs in 2019. PMID:30976793
Unsupervised classification of multi-omics data during cardiac remodeling using deep learning. PMID:30853547
A Primer on Data Analytics in Functional Genomics: How to Move from Data to Insight? PMID:30522862
The PRIDE database and related tools and resources in 2019: improving support for quantification data. PMID:30395289
iProX: an integrated proteome resource. PMID:30252093
Sustainable data and metadata management at the BD2K-LINCS Data Coordination and Integration Center. PMID:29917015
Uniform resolution of compact identifiers for biomedical data. PMID:29737976
Biomedical Informatics on the Cloud: A Treasure Hunt for Advancing Cardiovascular Medicine. PMID:29700073
Cardiovascular Metabolomics. PMID:29700070
A FAIR guide for data providers to maximise sharing of human genomic data. PMID:29543799
A lost opportunity for science: journals promote data sharing in metabolomics but do not enforce it. PMID:29479297
DataMed - an open source discovery index for finding biomedical datasets. PMID:29346583
Accurate and fast feature selection workflow for high-dimensional omics data. PMID:29261781
The European Bioinformatics Institute in 2017: data coordination and integration. PMID:29186510
BioModels: expanding horizons to include more modelling approaches and formats. PMID:29106614
LiverWiki: a wiki-based database for human liver. PMID:29029599
Proteomics Standards Initiative: Fifteen Years of Progress and Future Work. PMID:28849660
Advances in metabolome information retrieval: turning chemistry into biology. Part II: biological information recovery. PMID:28842777
Search Datasets in Literature: A Case Study of GWAS. PMID:28815103
OLS Client and OLS Dialog: Open Source Tools to Annotate Public Omics Datasets. PMID:28792687
Workflow and web application for annotating NCBI BioProject transcriptome data. PMID:28605765
DATS, the data tag suite to enable discoverability of datasets. PMID:28585923
Finding useful data across multiple biomedical data repositories using DataMed. PMID:28546571
Unbiased Protein Association Study on the Public Human Proteome Reveals Biological Connections between Co-Occurring Protein Pairs. PMID:28480704
A Golden Age for Working with Public Proteomics Data. PMID:28118949
Microbial phenomics information extractor (MicroPIE): a natural language processing tool for the automated acquisition of prokaryotic phenotypic characters from text sources. PMID:27955641 - http://dx.doi.org/10.1101/049205
Tags:
Tags
More detailed information about this field from each metasource.
data identity and mapping
metasource: Fairsharing.org
version: FAIRsharing.org: OmicsDI; Omics Discovery Index; DOI: https://doi.org/10.25504/FAIRsharing.re1278; Last edited: March 11, 2021, 2:46 p.m.; Last accessed: Jan 03 2022 7:09 p.m.
transcriptomics
metasource: bio.tools
version: extracted_at: 2022-11-04T11:31:27.050224
genomics
metasource: bio.tools
version: extracted_at: 2022-11-04T11:31:27.050224
proteomics
metasource: bio.tools
version: extracted_at: 2022-11-04T11:31:27.050224
Tags
More detailed information about this field from each metasource.
data identity and mapping
metasource: Fairsharing.orgversion: FAIRsharing.org: OmicsDI; Omics Discovery Index; DOI: https://doi.org/10.25504/FAIRsharing.re1278; Last edited: March 11, 2021, 2:46 p.m.; Last accessed: Jan 03 2022 7:09 p.m.
transcriptomics
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:31:27.050224
genomics
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:31:27.050224
proteomics
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:31:27.050224
data identity and mapping transcriptomics genomics proteomics
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