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[gofriends] [Reactome-announce] Version 23 released

Gopal Gopinathrao gopinath at cshl.edu
Wed Dec 12 11:59:27 PST 2007


Version 23 of the Reactome Knowledgebase has been released and is  
accessible at http://www.reactome.org.

Reactome is a curated knowledgebase developed and maintained by the  
Reactome Knowledgebase team (Lincoln Stein's group at CSHL, Ewan  
Birney's group at the European Bioinformatics Institute, and Peter  
D’Eustachio’s group at NYU). Reactome covers human biological  
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 entries are linked to corresponding ones in NCBI, Entrez  
Gene, RefSeq, OMIM, Ensembl genome annotations, HapMap, UCSC Genome  
Browser, KEGG, ChEBI and Gene Ontology (GO).
The web interface allows users to view the curated annotations of  
human biological processes and orthology-based electronic inferences  
from these annotations for 22 other species.

Additions to curated content include a new pathway, Signaling in BMP,  
and new modules within existing pathways: Apoptotic Execution Phase  
(Apoptosis), Cell Surface Interactions (Hemostasis), and TRKA  
Signaling (NGF signaling).
A new pathway visualization tool (beta version) is available with  
this release. Please try it, and send us feedback.

Pathway annotations from Reactome are now incorporated into the  
Pathway Interaction Database (PID), a collaborative project between  
the US National Cancer Institute and Nature Publishing Group. Access  
to 703 Reactome curated pathways and a primer for using Reactome data  
are available from PID’s website at http://pid.nci.nih.gov/

Updated release statistics and the Editorial Calendar are available.  
Data download including database dumps and protein-protein  
interaction datasets are available from the download page on the  
website. Reactome data can be exported in SMBL, Protégé, and BioPAX  
level 2 formats. Like everything in Reactome, these downloaded and  
exported materials can be reused. Users can subscribe to Reactome  
announcement list from the webpage at http://mail.reactome.org/ 
mailman/listinfo/reactome-announce.

Reactome is seeking expert help for the curation of new modules. The  
Reactome knowledgebase relies on collaborations with research  
biologists to construct expert consensus views of key biological  
processes, and to integrate these with other processes already in  
Reactome. We are seeking new author-collaborators. If you're  
interested, or would like more information about our data acquisition  
process, please contact us at editorial at reactome.org.

For questions and comments please reply to this message or write to  
help at reactome.org.

-The Reactome team
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