standards > terminology artifact > DOI:10.25504/FAIRsharing.mye76w
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ready BioAssay Ontology

Abbreviation: BAO


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General Information
The BioAssay Ontology (BAO) describes chemical biology screening assays and their results including high-throughput screening (HTS) data for the purpose of categorizing assays and data analysis.


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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.


This record is maintained by cchung  ORCID

Record updated: Feb. 25, 2020, 9:37 a.m. by The FAIRsharing Team.

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General

Additional Information

External Links



Schemas

No XSD schemas defined


Access / Retrieve Data

Conditions of Use

Applies to: Data use




Publications

Digitoxin metabolism by rat liver microsomes.

Schmoldt A,Benthe HF,Haberland G
Biochem Pharmacol 1975

View Paper (PubMed) View Publication

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

View Paper (PubMed) View Publication

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

View Paper (PubMed) View Publication

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 Paper (PubMed) View Publication

BAO Ontology Display

View in BioPortal.


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


Related Standards

Reporting Guidelines

No guidelines defined

Models and Formats

Identifier Schemas

No identifier schema standards defined

Metrics

No metrics standards defined


Related Databases (5)
ChEMBL
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.


Credit

Record Maintainer

Funds

Maintains

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)