Legume information system (LegumeInfo.org): a key component of a set of federated data resources for the legume family. Issue Volume 44:Issue D1(2016) (5th November 2015)

• Record Type: Journal Article
• Authors: Dash, Sudhansu; Campbell, Jacqueline D.; Cannon, Ethalinda K.S.; Cleary, Alan M.; Huang, Wei; Kalberer, Scott R.; Karingula, Vijay; Rice, Alex G.; Singh, Jugpreet; Umale, Pooja E.; Weeks, Nathan T.; Wilkey, Andrew P.; Farmer, Andrew D.; Cannon, Steven B.
• Is Part Of: Nucleic acids research. Volume 44:Issue D1(2016)
• Page Start: D1181
• Page End: D1188
• Publication Date: 2015-11-05
• Subjects: Nucleic acids -- Periodicals; Molecular biology -- Periodicals; 572.805
• DOI: 10.1093/nar/gkv1159
• Languages: English
• ISSNs: 0305-1048

Abstract

Abstract: Legume Information System (LIS), at http://legumeinfo.org, is a genomic data portal (GDP) for the legume family. LIS provides access to genetic and genomic information for major crop and model legumes. With more than two-dozen domesticated legume species, there are numerous specialists working on particular species, and also numerous GDPs for these species. LIS has been redesigned in the last three years both to better integrate data sets across the crop and model legumes, and to better accommodate specialized GDPs that serve particular legume species. To integrate data sets, LIS provides genome and map viewers, holds synteny mappings among all sequenced legume species and provides a set of gene families to allow traversal among orthologous and paralogous sequences across the legumes. To better accommodate other specialized GDPs, LIS uses open-source GMOD components where possible, and advocates use of common data templates, formats, schemas and interfaces so that data collected by one legume research community are accessible across all legume GDPs, through similar interfaces and using common APIs. This federated model for the legumes is managed as part of the 'Legume Federation' project (accessible via http://legumefederation.org ), which can be thought of as an umbrella project encompassing LIS and other legume GDPs.