Reactome: A Curated Pathway Database

New publications are online.

Posted on March 11th, 2015, by robinhaw, under Reactome Announcement, Reactome Publication

The Reactome tutorial paper entitled “Expression Data Analysis with Reactome” has been published in Current Protocols in Bioinformatics.  A second paper, “A visual review of the interactome of LRRK2: Using deep-curated molecular interactions data to represent biology“, which describes the use of IntAct data curation and Reactome pathway analysis tools to more accurately represent LRRK2-related knowledge has been published in Proteomics. More publications from the Reactome Team can be found here.

Version 43 Released

Topics with new or revised events include Immune system (TLR4 cascadeMyD88:Mal cascade on plasma membrane, and MyD88-independent cascade), Cell Cycle (Condensation of prometaphase chromosomesMitotic prophase: MASTL facilitates mitotic progression, and Resolution of sister chromatid cohesion), Extracellular matrix organization (Collagen degradationElastic fibre formation, and Assembly of collagen fibrils and other multimeric structures), Metabolism (Inositol Phosphate MetabolismArachidonic acid metabolismMitochondrial Iron-Sulfur Cluster Biogenesis, and Phosphate bond hydrolysis by NUDT proteins), Signal Transduction (Signaling by Activin and Signaling by IGF1R), and Gene expression. New pathway illustrations for this release include Cell Cycle and ApoptosisR Lill is our external author. A BurgessYG ChenKA FitzgeraldF GranucciM HolzenbergerR ItoS KalamajskiV MalhotraV MochidaL MuiznieksJ NapetschnigS RaleighF RauscherS Ricard-BlumTA RouaultM RushT SorsaWH TongT WundenbergI Zanoni, and N Zhang are our external reviewers. Reactome’s SBML export (available here) has been upgraded to Level2 Version4. Our SOAP and RESTful web services, have been moved to a new server. A new series of webinars, which will introduce the Reactome website and our suite of pathway and network visualization and analysis tools, will restart in January 2013. Registration details can be found on EventBrite. A new paper, describing the extension of the Reactome data model and enhancing the web tools to permit the annotation and visualization of protein variants, anti-cancer therapeutics, and other disease processes using Reactome, was published in Cancers.

Version 42 Released

Posted on September 21st, 2012, by robinhaw, under Conference and Meeting, Reactome Publication, Reactome Release Announcement

Topics with new or revised events include Immune system (STING mediated induction of type 1 IFN and DAP12 Interactions and signaling), Disease (Mucopolysaccharidoses and Signaling by PI3K/AKT in Cancer), Cell Cycle (Golgi Cisternae Pericentriolar Stack Reorganization), Metabolism (Regulation of Cholesterol Biosynthesis by SREBP), Metabolism of proteins (Metabolism of Angiotensinogen to Angiotensins), Membrane Trafficking (GLUT4 Translocation), and Gene expression. S AlvesJL AshworthA ColanziMF CoutinhoL JinJ JosephA KlipLL LanierG LiangF RauscherL ThorpeY WangH Yuzugullu, and J Zhao are our external reviewers. New pathway illustrations for this release include Signal transduction Signaling by Hippo, Signaling by SCF-KIT, and Mitochondrial Protein Import. Reactome is hosting two webinars, Using Reactome Pathway Database and Reactome Functional Interaction Network plugin in October. If you are interesting in participating, please register at Eventbrite. A new paper entitled Reactome – a curated knowledgebase of biological pathways: megakaryocytes and platelets has been published in the Journal of Thrombosis and Haemostasis.