Poster: Large scale technologies and resources

Abs # P44012: Gramene: A Resource for Comparative Grass Genomics

Presenter:	Ren, Liya       Contact Presenter
Authors	Ren, Liya  (A)   Spooner, William  (A)   Youens-Clark, Ken  (A)   Wei, Xuehong  (A)   Avraham, Shuly  (A)   Liang, Chengzhi  (A)   Jaiswal, Pankaj  (B)   Ni, Junjian  (B)   Yap, Immanuel  (B)   Ravenscroft, Dean  (B)   Tecle, Isaak Y. (B)   Hebbard, Claire  (B)   Buckler, Edward  (C) (D)  McCouch, Susan R. (B)   Stein, Lincoln  (A)   Ware, Doreen  (A) (D)
Affiliations:	(A): Cold Spring Harbor Laboratory (B): Department of Plant Breeding and Genetics, Cornell University (C): Institute for Genomic Diversity, Cornell University (D): USDA-ARS NAA Plant, Soil & Nutrition Laboratory Research Unit
Web Site:	http://www.gramene.org

Gramene (http://www.gramene.org) is a curated, open-source, web-accessible data resource for comparative genome analysis in the grasses. The goal of Gramene is to help geneticists, plant breeder and genome researchers to identify and understand the relationships among genes, pathways and phenotypes in a wide range of grass species. Building upon the near complete rice genome sequence, Gramene presents information on sequence related features, maps, markers, genes, proteins, QTL, germplasm and metabolic pathways. Information is organized by modules, where the relationships between data sets are generated in a semi-automated and curated fashion and annotated using controlled vocabularies (ontologies) and literature citations. Recent updates to Gramene include the addition of a diversity module and pathway tools as well as enhanced information pages. The diversity module will highlight data sets delivered as part of the NSF sponsored maize, rice and wheat diversity projects. The pathway module RiceCyc is based upon the MetaCyc pathway tools, where the initial implementation includes automatically generated biochemical pathways, with a focus on manual curation in the upcoming year. Updates to the information pages include the addition of maize and wheat species pages, which contain general information for researchers, breeders and educators alike. In addition, the tutorials and exercises have been updated to reflect new additions and enhancements to the interfaces in Gramene. The Gramene project is supported by National Science Foundation grant No. 0321685 and USDA ARS.