Reactome: A Curated Pathway Database

Reactome will be attending COMBINE 2012

Posted on June 29th, 2012, by robinhaw, under Conference and Meeting

The Computational Modeling in Biology Network (COMBINE) is an initiative to coordinate the development of the various community standards and formats, initially in Systems Biology and related fields. The Annual COMBINE forum is a workshop-style event with oral presentations, posters and breakout sessions.  The meeting provides an opportunity for those involved in many related standardization and software efforts in systems biology to meet and discuss their efforts, with the aim of working more closely together to ensure smooth interoperability between systems.

COMBINE 2012 will take place at The Donnelly Centre building at the University of Toronto from Wednesday August 15 to Sunday Aug. 19, 2012, immediately preceding the 13th International Conference on Systems Biology. The COMBINE conference location is a short walk from ICSB events and COMBINE 2012 is an official satellite meeting of ICSB, so you can follow the same travel and accommodation instructions for ICSB and use the same hotel discounts. Registration for COMBINE is $125 (Canadian) to cover costs associated with the meeting, including a workshop dinner and catering.

We hope to see you there!

Reactome will be visiting Korea and Japan

Posted on June 28th, 2012, by robinhaw, under Reactome Meeting

Reactome outreach coordinator, Robin Haw, will give a talk at the Current and Future in Pathway Research International Workshop at the Korea Institute of Science and Technology (KISTI), Daejeon, Korea on July 6. Robin will then travel onto Japan, to present a seminar entitled “Reactome – Linking pathways, networks and disease” at The Institute of Medical ScienceThe University of Tokyo on July 11 (Shirokanedai campus) and July 12 (Kashiwa campus).

Version 41 Released

Posted on June 26th, 2012, by robinhaw, under Reactome Feature, Reactome Release Announcement

New in Version 41 is the topic Cellular responses to stress, including Regulation of Hypoxia-inducible Factor by oxygen. Topics with new or revised events include Immune System (MHC Class II mediated antigen processing & presentation), Metabolism (Abacavir transport and metabolismGlycerophospholipid biosynthesisGlycosaminoglycan metabolismLinoleic acid and alpha-linolenic acid metabolismO2/CO2 exchange in erythrocytesPI MetabolismReversible hydration of carbon dioxide, and Activation of arylsufatases), Signal transduction (Signaling by TGF-beta Receptor Complex and Gastrin-CREB signalling pathway via PKC and MAPK), Extracellular matrix organization (Collagen biosynthesis and modifying enzymes) and Gene expression. New Disease pathways include Abnormal metabolism in phenylketonuriaLatent infection of H. sapiens with Mycobacterium tuberculosis, and Signaling by FGFR in disease.  R Stephan and S Tripathi are our external authors. EG Canty-LairdS EzzatT HuangJ NeefjesK RantanenF RauscherM Wakelam are our external reviewers. Based upon feedback from our users, Reactome has started to provide Pathway Illustrations. New ones for this release are: Signaling by EGFR, Hemostasis, Respiratory Electron Transport System, RAF/MAP kinase cascade, Signaling by NGF, PIP3 activates AKT signaling, Signaling by FGFR, Signaling by Insulin receptor, Signaling by BMP, Signaling by TGF beta, Signaling by Notch, Pre-NOTCH Expression and Processing, Signaling by NOTCH1, Signaling by NOTCH2, NOTCH3, and NOTCH4, Signaling by PDGF, Integrin cell surface interactions, Signaling by ERBB2 and ERBB4. For the systems biology community, we now offer SBGN export for all pathways.  Our SBGN is generated using libSBGN Milestone 2. Protein pages in Reactome now include link outs to GeneCards annotations. An updated Reactome tutorial has been published in Current Protocols in Bioinformatics.