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United States Department of Agriculture

Agricultural Research Service

Title: THE LEGUME INFORMATION RESOURCE (LIS): AN INTEGRATED INFORMATION RESOURCE FOR COMPARATIVE LEGUME BIOLOGY)

Author
item Gonzales, Michael
item Beavis, Bill
item Gajendran, Kamal
item Farmer, Andrew
item Archuletal, Eric
item Grant, David
item Nelson, Rex
item Shoemaker, Randy
item Waugh, Mark

Submitted to: Plant and Animal Genome VX Conference Abstracts
Publication Type: Abstract Only
Publication Acceptance Date: 10/4/2004
Publication Date: 11/15/2005
Citation: Gonzales, M.D., Beavis, B., Gajendran, K., Farmer, A., Archuletal, E., Grant, D.M., Nelson, R., Shoemaker, R.C., Waugh, M. 2005. The legume information resource (lis): an integrated information resource for comparative legume biology. Plant and Animal Genome Abstracts. p. 873.

Interpretive Summary:

Technical Abstract: The National Center for Genome Resources (NCGR) is in the third year of a cooperative research agreement with the USDA Agricultural Research Service (ARS) to develop the Legume Information System (LIS: http://www.comparative-legumes.org). LIS is a comparative legume resource integrating genetic and molecular data from multiple species enabling cross-species comparisons. The LIS virtual plant interface allows simplified and intuitive navigation of transcript data from Medicago truncatula, Lotus japonicus, Glycine max and Arabidopsis thaliana. Transcript libraries are categorized and can be accessed via images of plant organs in different developmental stages. The clickable images allow queries of the underlying analyzed and annotated data. Complex queries can be accomplished by adding modifiers, keywords and sequence names. LIS also contains annotated genomic data featuring transcript alignments to validate gene predictions as well as sequence motif-based and similarity-based annotation. The genomic browser supports comparative analysis via novel dynamic functional annotation comparisons. CMap, developed as part of the GMOD project (http://www.gmod.org/cmap/index.shtml), has been incorporated to support comparative analyses of community linkage and physical map data. LIS is being expanded to incorporate gene expression data and biochemical pathway information, which will be seamlessly integrated forming a knowledge discovery framework for legume research.

Last Modified: 8/24/2016
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