From lmatthews.nyumc at gmail.com Tue Dec 15 13:45:21 2009 From: lmatthews.nyumc at gmail.com (Lisa Matthews) Date: Tue Dec 15 14:29:24 2009 Subject: [Reactome-announce] Reactome version 31 released Message-ID: <2e52b33c0912151045t4c666445u5a78fc38ff11852b@mail.gmail.com> Version 31 of the Reactome Knowledgebase has been released and is accessible at http://www.reactome.org. *New and Updated Topics* Version 31 includes the new topics: Metabolism of mRNA and Cell junction organization. Topics revised and updated with new events in this release include Transmembrane transport of small molecules (SLC-mediated transmembrane transport), Muscle contraction (Smooth muscle contraction), Hemostasis, the Nuclear receptor transcription pathway, and the Olfactory signaling pathway. *Other news* As part of the HUPO Proteomics Standards Initiative (PSI), we now annotate modified residues of proteins using MOD terms, and provide listings of protein-protein interactions in PSI-MOD format. Reactome is now on Facebook, Twitter , and LinkedIn. *Reactome User Survey* Reactome would like to thank all those who participated in the User Survey. Your comments and feedback will allow Reactome to continue to provide access to high-quality pathway information and useful data analysis tools to the research community. *About Reactome* Reactome is a curated knowledgebase developed and maintained by the Reactome Knowledgebase team (Lincoln Stein's group at OICR/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. 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, PSI MITAB, Prot?g?, and BioPAX Level 3 (Release 1.0) and Level 2 format. Like everything in Reactome, these downloaded and exported materials can be reused. Users can subscribe to Reactome announcement list from the webpage 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@reactome.org. For questions and comments please reply to this message or write to help@reactome.org. *Other Reactome projects* A preliminary list of projects now underway to extend Reactome pathway curation spin-offs specific to non-human model organisms with contact information is available from http://www.reactome.org/other_reactomes.html. Users interested in contributing to these endeavors or expanding them scope of pathway annotations in the Reactome model to more organisms can write to help@reactome.org. *Reactome Outreach * Reactome Outreach takes on a variety of forms, such as public talks, lectures, visiting schools and colleges and supporting science events. Education is a major focus of Reactome's community outreach and aims to inform biologists, clinicians, and bioinformaticians about what Reactome can do. Reactome training teaches new and current users how to use Reactome resources to help meet the efforts of their organizations, groups, or specific audiences. Training and outreach is managed by Robin Haw; please contact him at outreach@reactome.org if you have an outreach request. The development of Reactome is supported by a grant from the US National Institutes of Health (P41 HG003751), EU grant LSHG-CT-2005-518254 "ENFIN", and the EBI Industry Programme. -------------- next part -------------- An HTML attachment was scrubbed... URL: http://brie4.cshl.edu/pipermail/reactome-announce/attachments/20091215/80b31516/attachment.html