TY - JOUR
T1 - The Reactome Pathway Knowledgebase
AU - Fabregat, Antonio
AU - Jupe, Steven
AU - Matthews, Lisa
AU - Sidiropoulos, Konstantinos
AU - Gillespie, Marc
AU - Garapati, Phani
AU - Haw, Robin
AU - Jassal, Bijay
AU - Korninger, Florian
AU - May, Bruce
AU - Milacic, Marija
AU - Roca, Corina Duenas
AU - Rothfels, Karen
AU - Sevilla, Cristoffer
AU - Shamovsky, Veronica
AU - Shorser, Solomon
AU - Varusai, Thawfeek
AU - Viteri, Guilherme
AU - Weiser, Joel
AU - Wu, Guanming
AU - Stein, Lincoln
AU - Hermjakob, Henning
AU - D'Eustachio, Peter
N1 - Funding Information:
National Institutes of Health [P41HG003751 and U54GM114833]; European Bioinformatics Institute (EMBL-EBI); Open Targets (The Target Validation Platform); Medicine by Design (University of Toronto). Funding for open access charge: National Institutes of Health [P41HG003751]. Conflict of interest statement. None declared.
Publisher Copyright:
© The Author(s) 2017. Published by Oxford University Press on behalf of Nucleic Acids Research.
PY - 2018/1/1
Y1 - 2018/1/1
N2 - The Reactome Knowledgebase (https://reactome.org) provides molecular details of signal transduction, transport, DNA replication, metabolism, and other cellular processes as an ordered network of molecular transformations - an extended version of a classic metabolic map, in a single consistent data model. Reactome functions both as an archive of biological processes and as a tool for discovering unexpected functional relationships in data such as gene expression profiles or somatic mutation catalogues from tumor cells. To support the continued brisk growth in the size and complexity of Reactome, we have implemented a graph database, improved performance of data analysis tools, and designed new data structures and strategies to boost diagram viewer performance. To make our website more accessible to human users, we have improved pathway display and navigation by implementing interactive Enhanced High Level Diagrams (EHLDs) with an associated icon library, and subpathway highlighting and zooming, in a simplified and reorganized web site with adaptive design. To encourage re-use of our content, we have enabled export of pathway diagrams as 'PowerPoint' files.
AB - The Reactome Knowledgebase (https://reactome.org) provides molecular details of signal transduction, transport, DNA replication, metabolism, and other cellular processes as an ordered network of molecular transformations - an extended version of a classic metabolic map, in a single consistent data model. Reactome functions both as an archive of biological processes and as a tool for discovering unexpected functional relationships in data such as gene expression profiles or somatic mutation catalogues from tumor cells. To support the continued brisk growth in the size and complexity of Reactome, we have implemented a graph database, improved performance of data analysis tools, and designed new data structures and strategies to boost diagram viewer performance. To make our website more accessible to human users, we have improved pathway display and navigation by implementing interactive Enhanced High Level Diagrams (EHLDs) with an associated icon library, and subpathway highlighting and zooming, in a simplified and reorganized web site with adaptive design. To encourage re-use of our content, we have enabled export of pathway diagrams as 'PowerPoint' files.
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U2 - 10.1093/nar/gkx1132
DO - 10.1093/nar/gkx1132
M3 - Article
C2 - 29145629
AN - SCOPUS:85040929878
SN - 0305-1048
VL - 46
SP - D649-D655
JO - Nucleic Acids Research
JF - Nucleic Acids Research
IS - D1
ER -