Gramene Diversity TASSEL Web Launch

LAUNCH TASSEL with SNP data sets

Maize

Maize Diversity Hapmap1, AGPv2 coordinates, 1.6 million SNP x 27 NAM lines.[ chr: unmapped 1 2 3 4 5 6 7 8 9 10 ]

Arabidopsis

NSF 2010 Project, Magnus Nordborg, http://walnut.usc.edu NSF Arabidopsis 2010 Project 250K chip, v3.06; 1307 ecotypes x 214,052 SNPs; TAIR10.[ chr: 1 2 3 4 5 ]
Richard Mott; WTCHG(Wellcome Trust Centre for Human Genetics) 1001 Genomes WTCHG/Mott set from dbSNP; 17 ecotypes x 2698797 SNPs; TAIR10.[ chr: 1 2 3 4 5 ]
Atwell S, et. al. Atwell et. al, Nature 2010, GWAS of 107 phenotypes in Arabidopsis thaliana inbred lines; TAIR10.[ chr: 1 2 3 4 5 ALL ]
D. Weigel NSF Arabidopsis 2010 Project SNP Discovery; 20 ecotypes, 637522 SNPs; Clark et. al. 2007; TAIR10.[ chr: 1 2 3 4 5 ]
M. Nordborg NSF Arabidopsis 2010 Project 250K chip, v3.04; 1179 ecotypes x 214,545 SNPs; TAIR10.[ chr: 1 2 3 4 5 ]

Rice

Yulin Jia, USDA-ARS DBNRRC B-Gross/J-Yulin SNP Pi-ta study in AA Oryza; 143 accessions x 632 SNP.[ chr: 12 ]
Rice HaplotypeMap Project, National Center for Gene Research, CAS; www.ncgr.ac.cn/RiceHapMap Huang X, et al, Nat Genetics 2010 Nov. 842,474 SNPs* x 374 landraces, 14 phenotypes. *IRGSP4 coordinates..[ chr: 1 2 3 4 5 6 7 8 9 10 11 12 ]
Zhao K et. al.; ricediversity.org '1536 chip' - 1311 SNPs x 395 rice accessions (Zhao et. al, PLoS, 2010; ricediversity.org).[ chr: 1 2 3 4 5 6 7 8 9 10 11 12 ]
McNally et. al.; oryzaSNP.org ~160K SNPs x 20 accessions (McNally 2009 PNAS/Oryzasnp Project).[ chr: 1 2 3 4 5 6 7 8 9 10 11 12 ]
Susan McCouch RiceDiversity 44K SNP assay, 34 trait GWAS study, Nat Comm Sept 2011 .[ chr: 1 2 3 4 5 6 7 8 9 10 11 12 ]

See our Tools page for Java requirements and details about running TASSEL.