[BiO BB] Reactome version 16 released

Reactome-Knowledgebase at reactome.org Reactome-Knowledgebase at reactome.org
Mon Jan 23 13:40:08 EST 2006

The Reactome Knowledgebase group (Cold Spring Harbor Lab and the European Bioinformatics Institute) is proud to announce the release of Reactome Version 16 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 entries are linked to corresponding ones in NCBI EntrezGene, OMIM, Ensembl genome annotations, UCSC Genome Browser, KEGG, ChEBI and Gene Ontology (GO).
This release features the annotation of host-pathogen pathways in the form of Influenza A ( http://www.reactome.org/cgi-bin/eventbrowser?DB=gk_current&ID=168254&) and HIV-1 (http://www.reactome.org/cgi-bin/eventbrowser?DB=gk_current&ID=162906&) infections. The annotations are available as frameworks that show the entire viral life-cycles and molecular interactions between viral proteins and the host cellular machinery. The release also includes new modules covering the molecular details of the human electron transport chain and its integration with mitochondrial ATP synthesis and thermogenesis, and Drosophila melanogaster signaling pathway mediated by insulin-like proteins, and a substantially revised module covering the G2/M transition of the human mitotic cell cycle. The total number of curated human reactions in the knowledgebase is now 1451 and the total number of annotated human proteins is 1179.
Reactome version 16 features several new software features to facilitate data analysis and downloading:
- The SkyPainter tool (  http://www.reactome.org/cgi-bin/skypainter2?DB=gk_current), which enables users to visualize all Reactome processes "touched" by a user-specified list of proteins, has now been upgraded to return a list of all proteins and the names and identifiers of the specific processes in which they are involved;
- Processes can be visualized in "Cytoscape" format;
- Reactome processes can now be downloaded as PDF documents, enabling users to generate up-to-date, custom textbooks corresponding to part or all of the Knowledgebase; and
- 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 and redistributed freely.
Questions or comments? Please reply to this message.

-from Reactome Teams at CSHL &  EBI

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