standards > terminology artifact > DOI:10.25504/FAIRsharing.4dvtcz


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ready Cell Line Ontology

Abbreviation: CLO


General Information
The Cell Line Ontology (CLO) is a community-driven ontology that is developed to standardize and integrate cell line information and support computer-assisted reasoning. Thousands of cell lines have been artificially developed and used for different applications. Integration of data from multiple sources is a challenge, confounded by lack of consistent naming conventions, contamination of cell lines, and provision of the same cell lines by multiple commercial sources but with different biological attributes. CLO is a community-based effort to represent all cell lines in a standard ontology approach.

Homepage http://www.clo-ontology.org/

Countries that developed this resource European Union , Japan , United States

Created in 2011

Taxonomic range




How to cite this record FAIRsharing.org: CLO; Cell Line Ontology; DOI: https://doi.org/10.25504/FAIRsharing.4dvtcz; Last edited: June 27, 2019, 8:51 p.m.; Last accessed: Jul 20 2019 7:39 p.m.

Publication for citation  CLO: The cell line ontology. Sarntivijai S,Lin Y,Xiang Z,Meehan TF,Diehl AD,Vempati UD,Schurer SC,Pang C,Malone J,Parkinson H,Liu Y,Takatsuki T,Saijo K,Masuya H,Nakamura Y,Brush MH,Haendel MA,Zheng J,Stoeckert CJ,Peters B,Mungall CJ,Carey TE,States DJ,Athey BD,He Y; J Biomed Semantics ; 2014; 10.1186/2041-1480-5-37;


Record updated: June 27, 2019, 8:51 p.m. by The FAIRsharing Team.

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Applies to: Data use

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Publications

CLO: The cell line ontology.

Sarntivijai S,Lin Y,Xiang Z,Meehan TF,Diehl AD,Vempati UD,Schurer SC,Pang C,Malone J,Parkinson H,Liu Y,Takatsuki T,Saijo K,Masuya H,Nakamura Y,Brush MH,Haendel MA,Zheng J,Stoeckert CJ,Peters B,Mungall CJ,Carey TE,States DJ,Athey BD,He Y
J Biomed Semantics 2014

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CLO Ontology Display

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Disclaimer: This widget assumes the availability of the ontology resources in the NCBO BioPortal.

View in OBO Foundry.



Related Standards

Reporting Guidelines

No guidelines defined

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No identifier schema standards defined

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Implementing Databases (6)
ChEMBL
ChEMBL is an open large-scale bioactivity database containing information largely manually extracted from the medicinal chemistry literature. Information regarding the compounds tested (including their structures), the biological or physicochemical assays performed on these and the targets of these assays are recorded in a structured form, allowing users to address a broad range of drug discovery questions.

Biological General Repository for Interaction Datasets
BioGRID is an interaction repository with data compiled through comprehensive curation efforts. BioGRID currently holds over 980,000 interactions curated from both high-throughput datasets and individual focused studies, as derived from over 55,000 publications in the primary literature. Complete coverage of the entire literature is maintained for budding year (S. cerevisiae), fission yeast (S. pome), and thale cress (A. thaliana), and efforts to expand curation across multiple metazoan species are underway. All data are freely provided via the search index and available for download in standardized formats.

ENCODE Project
The ENCODE (Encyclopedia of DNA Elements) Consortium is an international collaboration of research groups funded by the National Human Genome Research Institute (NHGRI). The goal of ENCODE is to build a comprehensive parts list of functional elements in the human genome, including elements that act at the protein and RNA levels, and regulatory elements that control cells and circumstances in which a gene is active. ENCODE results from 2007 and later are available from this project. This covers data generated during the two production phases 2007-2012 and 2013-present.

Immune Epitope Database
The IEDB provides the scientific community with a central repository of freely accessible epitope data and epitope prediction and analysis resources. The IEDB is a publicly accessible, comprehensive immune epitope database containing peptidic linear and conformational epitopes and non peptidic epitopes such as lipids, metals, drugs, carbohydrates, etc, with published or submitted antibody, T cell, MHC binding or MHC ligand elution experimental assays. Epitope data related to infectious diseases, allergy, autoimmunity and transplant tested in humans, non human primates, and any other species can be found in the IEDB.

OBO Foundry
The Open Biological and Biomedical Ontology (OBO) Foundry is a collective of ontology developers that are committed to collaboration and adherence to shared principles. The mission of the OBO Foundry is to develop a family of interoperable ontologies that are both logically well-formed and scientifically accurate. To achieve this, OBO Foundry participants voluntarily adhere to and contribute to the development of an evolving set of principles including open use, collaborative development, non-overlapping and strictly-scoped content, and common syntax and relations, based on ontology models that work well, such as the Gene Ontology (GO). The OBO Foundry is overseen by an Operations Committee with Editorial, Technical and Outreach working groups.

SCPortalen
SCPortalen is a single-cell database created to facilitate and enable researchers to access and explore published single-cell datasets. It integrates human and mouse single-cell transcriptomics datasets, single-cell metadata, cell images and sequence information.

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Grant Number(s)

  • 1R01GM093132-01 (National Institutes of Health (NIH), Bethesda, MD, USA)

  • 1R24OD011883 (National Institutes of Health (NIH), Bethesda, MD, USA)

  • 200754 Gen2Phen (Cordis)

  • U54 DA021519 (National Center for Integrative Biomedical Informatics (NCBCS), Ann Arbor, MI, USA)

  • grants 1R01AI081062 (YH) (Bioinformatics Resource Centers, National Institute of Allergy and Infectious Diseases (NIAID), National Institutes of Health (NIH), Bethesda, MD, USA)