BioAssay Ontology
Abbreviation: BAO
Homepage http://bioassayontology.org
Countries that developed this resource United States
Created in 2009
Taxonomic range
Knowledge Domains
Subjects
How to cite this record FAIRsharing.org: BAO; BioAssay Ontology; DOI: https://doi.org/10.25504/FAIRsharing.mye76w; Last edited: Feb. 27, 2020, 11:19 a.m.; Last accessed: Sep 27 2021 5:59 a.m.
Record updated: Feb. 25, 2020, 9:37 a.m. by The FAIRsharing Team.
| online documentation | BAO Life wiki |
Additional Information
| Contact | Stephan Schurer |
External Links
| Bioportal | http://bioportal.bioontology.org/ontologies/BAO |
| LINCS Data Portal | http://lincsportal.ccs.miami.edu/dcic-portal/ |
No XSD schemas defined
Digitoxin metabolism by rat liver microsomes.
Schmoldt A,Benthe HF,Haberland G
Biochem Pharmacol 1975
Evolving BioAssay Ontology (BAO): modularization, integration and applications.
Abeyruwan S,Vempati UD,Kucuk-McGinty H,Visser U,Koleti A,Mir A,Sakurai K,Chung C,Bittker JA,Clemons PA,Brudz S,Siripala A,Morales AJ,Romacker M,Twomey D,Bureeva S,Lemmon V,Schurer SC
J Biomed Semantics 2014
Formalization, annotation and analysis of diverse drug and probe screening assay datasets using the BioAssay Ontology (BAO).
Vempati UD,Przydzial MJ,Chung C,Abeyruwan S,Mir A,Sakurai K,Visser U,Lemmon VP,Schurer SC
PLoS One 2012
BioAssay Ontology (BAO): a semantic description of bioassays and high-throughput screening results.
Visser U,Abeyruwan S,Vempati U,Smith RP,Lemmon V,Schurer SC
BMC Bioinformatics 2011
View in BioPortal.
Reporting Guidelines
No guidelines defined
Terminology Artifacts
Models and Formats
Identifier Schemas
No identifier schema standards defined
Metrics
No metrics standards defined
ChEMBL is an open, manually-curated, large-scale bioactivity database containing information from medicinal chemistry literature. It brings together chemical, bioactivity and genomic data to aid the translation of genomic information into effective new drugs. 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.
PubChem
PubChem is organized as three linked databases within the NCBI's Entrez information retrieval system. These are PubChem Substance, PubChem Compound, and PubChem BioAssay. PubChem also provides a fast chemical structure similarity search tool. More information about using each component database may be found using the links in the homepage.
Library of Integrated Network-Based Cellular Signatures Data Portal
The LINCS Data Portal provides a unified interface for searching LINCS dataset packages and reagents. LINCS data are being made openly available as a community resource through a series of data releases, so as to enable scientists to address a broad range of basic research questions and to facilitate the identification of biological targets for new disease therapies. LINCS datasets consist of assay results from cultured and primary human cells treated with bioactive small molecules, ligands such as growth factors and cytokines, or genetic perturbations. Many different assays are used to monitor cell responses, including assays measuring transcript and protein expression; cell phenotype data are captured by biochemical and imaging readouts. Assays are typically carried out on multiple cell types, and at multiple timepoints; perturbagen activity is monitored at multiple doses.
RegenBase
RegenBase is a knowledge base of SCI biology. RegenBase integrates curated literature-sourced facts and experimental details from publications, raw assay data profiling the effect of compounds on enzyme activity and cell growth, and structured SCI domain knowledge in the form of the first ontology for SCI, using Semantic Web representation languages and frameworks. RegenBase enables researchers to organize and interrogate experimental data generated by spinal cord injury (SCI) research, with the ultimate goal of translating SCI experimental findings in model organisms into human therapies.
Drug Target Commons
Drug Target Commons (DTC) is a crowd-sourcing platform to improve the consensus and use of drug-target interactions. The end users can search, view and download bioactivity data using various compound, target and publications identifiers. Expert users may also submit suggestions to edit and upload new bioactivity data, as well as participate in the assay annotation and data curation processes.
Record Maintainer
Funds
ELIXIR Italy (Government body)
National Human Genome Research Institute (NHGRI), Bethesda, MD, USA (Government body)
National Heart, Lung and Blood Institute (NHLBI), National Institutes of Health (NIH), Bethesda, MD, USA (Government body)
National Institutes of Health (NIH), Bethesda, MD, USA (Government body)
National Institute of Neurological Disorders and Stroke (NINDS), Bethesda, MD, USA (Government body)
Maintains
BAO Administrators (Consortium)
Grant Number(s)
1RC2HG00566801 (National Institutes of Health (NIH), Bethesda, MD, USA)
R01-NS080145 (National Institute of Neurological Disorders and Stroke (NINDS), Bethesda, MD, USA)
RC2 HG005668 (National Institutes of Health (NIH), Bethesda, MD, USA)
U01 HL111561 (National Institutes of Health (NIH), Bethesda, MD, USA)
U54-HG004028 (ELIXIR Italy)
