[BiO BB] Reactome - Ver 15 released!
Reactome-Knowledgebase at reactome.org
Reactome-Knowledgebase at reactome.org
Mon Sep 26 18:09:18 EDT 2005
The Reactome Knowledgebase group (Cold Spring Harbor Lab and the European
Bioinformatics Institute) is proud to announce the release of Reactome
Version 15 today, accessible at http://www.reactome.org .
Reactome is a curated knowledgebase of biological processes in humans. It
covers processes ranging from basic pathways of metabolism to complex events
such as hormonal signaling and apoptosis. The information in Reactome is
provided by expert bench biologists, and edited and managed as a relational
database by the Reactome staff. New material is peer-reviewed and revised as
necessary before publication to the web.
Reactome version 15 features:
- a new module on the integration of energy metabolism, bringing the total
number of curated reactions in the knowledgebase to 1463 and the total
number of annotated human proteins to 1095; [that's the number of
reference UniProt protein entities - would be 1525 if we counted each modified form of a
protein as a separate entity]
- a revised data model improves the handling of physical entities (molecules
and complexes) and introduces the concept of an entity set to allow the
explicit annotation of functions shared by a family of molecules such as
protein isoforms;
- a new strategy for electronic inference of events in model organisms from
curated human reactions that uses OrthoMCL to identify the human : model
organism protein orthologies for event inference. The sensitivity of
OrthoMCL has enabled the inference of event sets for organisms ranging from
the laboratory mouse (inferences made for 1368 of 1463 human reactions, a
93.5% success rate) to the archaebacterium Methanococcus jannaschii (185
events, 12.6% success).
- new web features for display of event hierarchies and the components of
individual reactions, and an on-line editorial calendar, linked to the
Reactome home page, that summarizes work in progress on new modules for the
knowledgebase.
Links from and to Reactome are available for corresponding entries in NCBI Entrez
Gene, Protein, OMIM, Ensembl genome annotations, UCSC Genome Browser,
KEGG, ChEBI and Gene Ontology databases.
Questions or comments? Reply to this email or please send e-mail to help at reactome.org.
- Reactome Group at CSHL and EBI
www.reactome.org
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