loading...| Number of classes: | 1298 |
|---|---|
| Number of individuals: | 66 |
| Number of properties: | 134 |
| Maximum depth: | 9 |
| Maximum number of siblings: | 61 |
| Average number of siblings: | 20 |
| Classes with a single subclass: |
58Classes with a single subclass'Portion of blood' |
| Classes with more than 25 subclasses: |
8Classes with more than 25 subclasses'permanent cell line' (45) |
| Classes with no definition: | 550 |
Details
| Ontology Id | 1533 |
|---|---|
| Acronym | BAO |
| Visibility | Public |
| BioPortal PURL | http://purl.bioontology.org/ontology/BAO |
| Status | Beta |
| Format | OWL |
| Categories |
Biological Process
Vocabularies Cell Subcellular Physicochemical Molecule Protein Chemical Other |
| Groups | |
| Contact | Stephan Schurer, sschurer@med.miami.edu |
| Home Page | http://www.bioassayontology.org/ |
| Publications Page | http://www.bioassayontology.org/index.php?option=com_content&view=article&id=98&Itemid=141 |
| Documentation Page | http://www.bioassayontology.org/index.php?option=com_content&view=article&id=96&Itemid=137 |
| Description | 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. BAO is an extensible, knowledge-based, highly expressive (currently SHOIQ(D)) description of biological assays making use of descriptive logic based features of the Web Ontology Language (OWL). BAO currently has over 1000 classes and also makes use of several other ontologies. It describes several concepts related to biological screening, including Perturbagen, Format, Meta Target, Design, Detection Technology, and Endpoint. Perturbagens are perturbing agents that are screened in an assay; they are mostly small molecules. Assay Meta Target describes what is known about the biological system and / or its components interrogated in the assay (and influenced by the Perturbagen). Meta target can be directly described as a molecular entity (e.g. a purified protein or a protein complex), or indirectly by a biological process or event (e.g. phosphorylation). Format describes the biological or chemical features common to each test condition in the assay and includes biochemical, cell-based, organism-based, and variations thereof. The assay Design describes the assay methodology and implementation of how the perturbation of the biological system is translated into a detectable signal. Detection Technology relates to the physical method and technical details to detect and record a signal. Endpoints are the final HTS results as they are usually published (such as IC50, percent inhibition, etc.). BAO has been designed to accommodate multiplexed assays. All main BAO components include multiple levels of sub-categories and specification classes, which are linked via object property relationships forming an expressive knowledge-based representation. |
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Versions
| Version | Release Date | Upload Date | Downloads |
|---|---|---|---|
| 1.6.2 | 12/11/2012 | 12/12/2012 | Ontology / Diff |
| 1.6 | 04/06/2012 | 04/12/2012 | Ontology |
| 1.5 | 11/25/2011 | 11/25/2011 | Ontology |
| 1.4 | 10/08/2011 | 10/08/2011 | Ontology |
| 1.3 | 06/30/2011 | 07/13/2011 | Ontology |
| 1.2 archived | 04/29/2011 | 07/06/2011 | Ontology |
| 1.1 archived | 04/29/2011 | 05/09/2011 | Ontology |
| 1.0 | 03/22/2011 | 03/22/2011 | Ontology |
| 0.9.461 archived | 09/17/2010 | 09/23/2010 | Ontology |
| more... | |||
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Projects Using This Ontology Create new project
| Project | Description | People | Institution |
|---|---|---|---|
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Assay Annotation
|
Excel template uses BAO to annotated data into PubChem's Deposi...
Excel template uses BAO to annotated data into PubChem's Deposition System. The template provides dropdown lists for fields where the value is allowed (controlled vocabulary).
|
S. Schurer, U. Vempati, S. Canny, M. Southern
S. Schurer, U. Vempati, S. Canny, M. Southern
|
TSRI and UM |
|
OntoCAT
|
High level abstraction API (Java/REST/R) for interacting with o...
High level abstraction API (Java/REST/R) for interacting with ontology resources including local ontology files in standard OWL and OBO formats (via OWL API) and public ontology repositories: EBI Ontology Lookup Service (OLS) and NCBO BioPortal.
|
Tomasz Adamus...
Tomasz Adamusiak, Helen Parkinson, Natalja Kurbatova, Misha Kapushesky, Morris Swertz
|
EMBL-EBI, University of Groningen |
|
Cell cycle events
|
Notable Cell Cycle events that can be tested with HTS-HCS modes
Notable Cell Cycle events that can be tested with HTS-HCS modes
|
unc chapel hill | |
|
AstraZeneca HTS annotation
|
As a part of the AstraZeneca in kind contribution to the IMI Op...
As a part of the AstraZeneca in kind contribution to the IMI OpenPhacts project, AstraZeneca HTS data is annotated according to the BAO ontology.
|
L. Zander Bal...
L. Zander Balderud, O. Engkvist, M. Bjäreland, N. Blomberg
|
AstraZeneca R&D |
|
OntoMaton
|
OntoMaton is a google spreadsheet application allowing for onto...
OntoMaton is a google spreadsheet application allowing for ontology search and tagging directly within google spreadsheets.
More information can be found here: https://github.com/ISA-tools/OntoMaton
|
ISA team
ISA team
|
Oxford University |
|
BAOSearch
|
BAOSearch is a web-based application for querying, browsing and...
BAOSearch is a web-based application for querying, browsing and downloading small molecule biological screening results, including high-throughput screening (HTS) data.
BAOSearch content was curated from PubChem
|
Mader C, Data...
Mader C, Datar N, Abeyruwan S, Koleti A, Venkatapuram S, Chung C, Puram D, Vempati U, Sakurai K, Przydzial M, Lemmon V, Visser U, Schurer S.
|
University of Miami |
|
PubChem
|
Chemical biology resource providing biological activities of small molecules and substances.
Chemical biology resource providing biological activities of small molecules and substances.
|
NCBI | |
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G PROTEIN-COUPLED RECEPTOR (GPCR) BIOASSAYS
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The G protein-coupled receptors (GPCRs) ontology (http://www.bi...
The G protein-coupled receptors (GPCRs) ontology (http://www.bioassayontology.org/bao_gpcr) describes pharmacology, biochemistry and physiology of these important and therapeutically promising class of academic and pharmaceutical research targets. Incorporation and comparison of various small molecule screening data sets, such as those deposited in PubChem, ChEMBL, KEGG, PDSP, and/or IUPHAR databases, requires a formalized electronic organization system. In order to bridge the gap between the overflow of HTS data and the bottleneck of integrated analysis tools, herein, we provide the first comprehensive GPCR ontology. The development and utility of GPCR ontology was based on previously developed BioAssay Ontology (BAO). The GPCR ontology contains information about biochemical, pharmacological, and functional properties of individual GPCRs as well as GPCR-selective ligands inclusive of their HTS screening results and other records. This provides the first all-inclusive GPCR ontology with all available data to model the relationship between the GPCR binding sites and their physiologic and pharmacologic role in physiology via small molecule chemical structures. We developed this system using emerging semantic technologies, by leveraging existing and descriptive domain level ontologies.
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Przydzial M, Bhhatarai B, Koleti A, Schurer S.
Przydzial M, Bhhatarai B, Koleti A, Schurer S.
|
University of Miami |
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