standards > terminology artifact > DOI:10.25504/FAIRsharing.1414v8


ready BRENDA tissue / enzyme source

Abbreviation:BTO


General Information
A structured controlled vocabulary for the source of an enzyme. It comprises terms for tissues, cell lines, cell types and cell cultures from uni- and multicellular organisms.

Homepage http://www.brenda-enzymes.info

Developed in Germany

Created in 1991

Taxonomic range




Scope and data types





How to cite this record FAIRsharing.org: BTO; BRENDA tissue / enzyme source; DOI: https://doi.org/10.25504/FAIRsharing.1414v8; Last edited: Feb. 22, 2018, 1:45 p.m.; Last accessed: Sep 25 2018 10:18 p.m.


Record updated: Oct. 11, 2016, 9:46 p.m. by The FAIRsharing Team.

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Publications

The BRENDA Tissue Ontology (BTO): the first all-integrating ontology of all organisms for enzyme sources.


Nucleic Acids Res. 2011

View Paper (PubMed)

BRENDA in 2015: exciting developments in its 25th year of existence.

Chang A,Schomburg I,Placzek S,Jeske L,Ulbrich M,Xiao M,Sensen CW,Schomburg D
Nucleic Acids Res 2014

View Paper (PubMed) View Publication

BRENDA in 2013: integrated reactions, kinetic data, enzyme function data, improved disease classification: new options and contents in BRENDA.

Schomburg I,Chang A,Placzek S,Sohngen C,Rother M,Lang M,Munaretto C,Ulas S,Stelzer M,Grote A,Scheer M,Schomburg D
Nucleic Acids Res 2012

View Paper (PubMed) View Publication

BTO Ontology Display

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Related Standards

Models and Formats

No syntax standards defined

Identifier Schemas

No identifier schema standards defined


Implementing Databases (6)
Stem Cell Discovery Engine
Comparison system for cancer stem cell analysis

MetaboLights
MetaboLights is a database is a collection of metabolite structures. This resource provides information on the compound origins,the biological roles, locations and concentrations, as well as experimental data from metabolic experiments. The tools and capabilities of this database is firmly routed in collaborative working worldwie with the metabolomics community such as the Metabolomics Society and the associated Metabolomics Standards Initiative (MSI).

BRENDA
BRENDA is the main collection of enzyme functional data available to the scientific community.

The Global Proteome Machine Database
Rather than being a complete record of a proteomics experiment, this database holds the minimum amount of information necessary for certain bioinformatics-related tasks, such as sequence assignment validation. Most of the data is held in a set of XML files.

Target Central Resource Database
TCRD is the central resource behind the Illuminating the Druggable Genome Knowledge Management Center (IDG-KMC). TCRD contains information about human targets, with special emphasis on four families of targets that are central to the NIH IDG initiative: GPCRs, kinases, ion channels and nuclear receptors. Olfactory GPCRs (oGPCRs) are treated as a separate family. A key aim of the KMC is to classify the development/druggability level of targets. The official public portal for TCRD is Pharos (pharos.nih.gov). Based on modern web design principles the Pharos interface provides facile access to all data types collected by the KMC. Given the complexity of the data surrounding any target, efficient and intuitive visualization has been a high priority, to enable users to quickly navigate & summarize search results and rapidly identify patterns. A critical feature of the interface is the ability to perform flexible search and subsequent drill down of search results. Underlying the interface is a RESTful API that provides programmatic access to all KMC data, allowing for easy consumption in user applications.

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.

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Grant Number(s)

  • 01KX1235 (The Federal Ministry of Education and Research (BMBF))