W403
Plant Reactome

Date: Tuesday, January 14, 2014
Time: 1:50 PM
Room: California
Vindya Amarasinghe , Dept. of Botany & Plant Pathology, Oregon State University, Corvallis, OR
Justin Preece , Department of Botany & Plant Pathology, Oregon State University, Corvallis, OR
Palitha Dharmawardhana , Department of Botany & Plant Pathology, Oregon State University, Corvallis, OR
Guanming Wu , Ontario Institute for Cancer Research, Toronto,, ON, Canada
Sushma Naithani , Department of Botany & Plant Pathology, Oregon State University, Corvallis, OR
Peter D'Eustachio , NYU School of Medicine, New York, NY
Marcela Karey Tello-Ruiz , Cold Spring Harbor Laboratory, Cold Spring Harbor, NY
Dylan Beorchia , Oregon State University, Corvallis, OR
Alex Roos , Oregon State University
Kindra Amoss , Oregon State University, Corvallis, OR
David Croft , European Bioinformatics Institute, Cambridge, United Kingdom
Robin Haw , Ontario Institute for Cancer Research, Toronto, ON, Canada
Henning Hermjakob , European Bioinformatics Institute, Cambridge, United Kingdom
Lincoln Stein , Ontario Institute of Cancer Research, Toronto, ON, Canada
Doreen Ware , Cold Spring Harbor Laboratory, Cold Spring Harbor, NY
Pankaj Jaiswal , Department of Botany & Plant Pathology, Oregon State University, Corvallis, OR
PDF file
In collaboration with the Human Reactome project, Gramene has developed a new platform for the comparative analysis of plant metabolic and regulatory pathways. The core unit of the Reactome data model is the reaction. In addition to classical biochemical reactions, changes in state, such as binding, activation, translocation, degradation and regulation are also represented as reactions, and the reactions are grouped into pathways.  Here we present rice regulatory and metabolic pathways on the Reactome platform.  The current Plant Reactome featuring over 150 rice pathways was built by a combination of computational conversion of RiceCyc, projections from human Reactome, de novo reconstruction of reactions on the Reactome platform, accompanied by manual curation. We are in the process of extending the Reactome platform to Arabidopsis as well as expanding the analytical capabilities of the Plant Reactome.
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