1. Gramene database: Navigating plant comparative genomics resources
- Author
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Paul J. Kersey, Yinping Jiao, Robert Petryszak, Joshua C. Stein, Lincoln D. Stein, Doreen Ware, Antonio Fabregat, Sunita Kumari, Kapeel Chougule, Justin Preece, Laura Huerta, Peter D'Eustachio, Sharon Wei, Parul Gupta, Sushma Naithani, Andrew Olson, Pankaj Jaiswal, Maria Keays, Joel Weiser, Young Koung Lee, Marcela K. Tello-Ruiz, and Joseph Mulvaney
- Subjects
0301 basic medicine ,Systems biology ,Genomic data ,Plant Science ,Biology ,computer.software_genre ,Biochemistry ,Genome ,Article ,03 medical and health sciences ,Annotation ,lcsh:Botany ,Genetics ,2. Zero hunger ,Comparative genomics ,Phylogenetic tree ,Database ,food and beverages ,Cell Biology ,15. Life on land ,Pathway analysis ,Data science ,lcsh:QK1-989 ,030104 developmental biology ,Expression data ,computer ,Developmental Biology - Abstract
Gramene (http://www.gramene.org) is an online, open source, curated resource for plant comparative genomics and pathway analysis designed to support researchers working in plant genomics, breeding, evolutionary biology, system biology, and metabolic engineering. It exploits phylogenetic relationships to enrich the annotation of genomic data and provides tools to perform powerful comparative analyses across a wide spectrum of plant species. It consists of an integrated portal for querying, visualizing and analyzing data for 44 plant reference genomes, genetic variation data sets for 12 species, expression data for 16 species, curated rice pathways and orthology-based pathway projections for 66 plant species including various crops. Here we briefly describe the functions and uses of the Gramene database.
- Published
- 2016
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