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[go-friends] Reactome Announcement: New Reactome Website and Data Analysis Portal

Robin Haw Robin.Haw at oicr.on.ca
Tue Oct 1 13:21:36 PDT 2013


<http://www.reactome.org/>Reactome<http://www.reactome.org/> has released a new web interface for its open-source curated database of pathways and reactions. The redesigned web site is a faster, more flexible tool to query, analyze and visualize pathway and network data. New features include:

  *   Access to visualization and data analysis tools via a simpler home page.
  *   New data model and visualization strategies to annotate and display disease counterparts of normal human processes, supporting descriptions of diseases due to infection and mutation at the molecular level.
  *   Revised event hierarchy panel to provide interactivity and access to the entire listing of all the Reactome pathways.
  *   Improved flexibility and performance of our pathway browser with a new pathway diagram visualization tool using HTML5 Canvas.
  *   Extended data overlaying technologies to support molecular interaction data from the <http://www.ebi.ac.uk/Tools/webservices/psicquic/view/> PSIQUIC<http://www.ebi.ac.uk/Tools/webservices/psicquic/view/> registry, including <http://www.bindingdb.org/> BindingDB<http://www.bindingdb.org/>, <http://www.drugbank.ca/> DrugBank<http://www.drugbank.ca/>, and <http://www.genemania.org/> GeneMANIA<http://www.genemania.org/>.
  *   New pathway diagram tools to search within the displayed pathway, overlay the pathway with functional interactors, and download the diagram as a snapshot or PNG file.
  *   Enhanced “Details” panel providing alternative displays of graphical and textual information, such as 3D structural data and citations for proteins from <http://www.ebi.ac.uk/pdbe/> PDB<http://www.ebi.ac.uk/pdbe/>, for small molecules from <http://www.ebi.ac.uk/chebi/> ChEBI<http://www.ebi.ac.uk/chebi/>, for the stoichiometry of metabolic reactions from <http://www.ebi.ac.uk/rhea/> Rhea<http://www.ebi.ac.uk/rhea/>, and for expression data from <http://www.ebi.ac.uk/gxa/> Gene Expression Atlas<http://www.ebi.ac.uk/gxa/>.
  *   Merged pathway identifier mapping, over-representation, and expression analysis tools into a tabbed data analysis portal with integrated visualization for improved pathway diagram colorization with user-supplied experimental data.
  *   Updated Reactome Functional Interaction plugin supports <http://www.cytoscape.org/> Cytoscape<http://www.cytoscape.org/> v3.x., providing useful tools for the discovery of network patterns related to cancer and other types of disease.

Reactome<http://www.reactome.org/> is a collaboration among groups at the <http://oicr.on.ca/> Ontario Institute for Cancer Research<http://oicr.on.ca/>, <http://www.cshl.edu/> Cold Spring Harbor Laboratory<http://www.cshl.edu/>, <http://www.med.nyu.edu/> New York University Medical Center<http://www.med.nyu.edu/>, and <http://www.ebi.ac.uk/> The European Bioinformatics Institute<http://www.ebi.ac.uk/>. Freely available to all users worldwide, the Reactome database offers human pathway data that span and integrate metabolism, signaling cascades, and cellular processes like apoptosis, extracted from the published literature in collaboration with experts from the scientific community and cross-referenced to a wide range of biological databases. Reactome data and software are distributed under the terms of the <http://creativecommons.org/licenses/by/3.0/> Creative Commons Attribution 3.0 Unported License<http://creativecommons.org/licenses/by/3.0/>.

For more information contact:
Robin Haw
Email: help [at] reactome.org<http://reactome.org/>
Tel: 647-260-7985<tel:647-260-7985>

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