TY - JOUR
KW - Arabidopsis
KW - Chromosome Mapping
KW - Crops, Agricultural
KW - Databases, Genetic
KW - Genetic Markers
KW - Genetic Variation
KW - Genome, Plant
KW - Genomics
KW - Internet
KW - Oryza sativa
KW - Poaceae
KW - Triticum
KW - User-Computer Interface
KW - Zea mays
AU - Chengzhi Liang
AU - Pankaj Jaiswal
AU - Claire Hebbard
AU - Shuly Avraham
AU - Edward Buckler
AU - Terry Casstevens
AU - Bonnie Hurwitz
AU - Susan McCouch
AU - Junjian Ni
AU - Anuradha Pujar
AU - Dean Ravenscroft
AU - Liya Ren
AU - William Spooner
AU - Isaak Tecle
AU - Jim Thomason
AU - Chih-Wei Tung
AU - Xuehong Wei
AU - Immanuel Yap
AU - Ken Youens-Clark
AU - Doreen Ware
AU - Lincoln Stein
AB - Gramene (www.gramene.org) is a curated resource for genetic, genomic and comparative genomics data for the major crop species, including rice, maize, wheat and many other plant (mainly grass) species. Gramene is an open-source project. All data and software are freely downloadable through the ftp site (ftp.gramene.org/pub/gramene) and available for use without restriction. Gramene's core data types include genome assembly and annotations, other DNA/mRNA sequences, genetic and physical maps/markers, genes, quantitative trait loci (QTLs), proteins, ontologies, literature and comparative mappings. Since our last NAR publication 2 years ago, we have updated these data types to include new datasets and new connections among them. Completely new features include rice pathways for functional annotation of rice genes; genetic diversity data from rice, maize and wheat to show genetic variations among different germplasms; large-scale genome comparisons among Oryza sativa and its wild relatives for evolutionary studies; and the creation of orthologous gene sets and phylogenetic trees among rice, Arabidopsis thaliana, maize, poplar and several animal species (for reference purpose). We have significantly improved the web interface in order to provide a more user-friendly browsing experience, including a dropdown navigation menu system, unified web page for markers, genes, QTLs and proteins, and enhanced quick search functions.
BT - Nucleic acids research
C1 - http://www.ncbi.nlm.nih.gov/pubmed/17984077?dopt=Abstract
DA - 2008 Jan
IS - Database issue
J2 - Nucleic Acids Res.
LA - eng
N2 - Gramene (www.gramene.org) is a curated resource for genetic, genomic and comparative genomics data for the major crop species, including rice, maize, wheat and many other plant (mainly grass) species. Gramene is an open-source project. All data and software are freely downloadable through the ftp site (ftp.gramene.org/pub/gramene) and available for use without restriction. Gramene's core data types include genome assembly and annotations, other DNA/mRNA sequences, genetic and physical maps/markers, genes, quantitative trait loci (QTLs), proteins, ontologies, literature and comparative mappings. Since our last NAR publication 2 years ago, we have updated these data types to include new datasets and new connections among them. Completely new features include rice pathways for functional annotation of rice genes; genetic diversity data from rice, maize and wheat to show genetic variations among different germplasms; large-scale genome comparisons among Oryza sativa and its wild relatives for evolutionary studies; and the creation of orthologous gene sets and phylogenetic trees among rice, Arabidopsis thaliana, maize, poplar and several animal species (for reference purpose). We have significantly improved the web interface in order to provide a more user-friendly browsing experience, including a dropdown navigation menu system, unified web page for markers, genes, QTLs and proteins, and enhanced quick search functions.
PY - 2008
SP - D947
EP - 53
T2 - Nucleic acids research
TI - Gramene: a growing plant comparative genomics resource.
VL - 36
SN - 1362-4962
ER -