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RiceVarMap specifications

Information


Unique identifier OMICS_05869
Name RiceVarMap
Alternative name Rice Variation Map
Restrictions to use None
Maintained Yes

Taxon


  • Plants and Fungi
    • Oryza sativa

Publication for Rice Variation Map

RiceVarMap citations

 (3)
library_books

Genetic Architecture of Natural Variation in Rice Nonphotochemical Quenching Capacity Revealed by Genome Wide Association Study

2017
Front Plant Sci
PMCID: 5645755
PMID: 29081789
DOI: 10.3389/fpls.2017.01773

[…] encing, SNP identification, and imputation of the association panel have been reported in previous studies (Wang et al., ; Xie et al., ). The SNPs of the 529 O. sativa accessions are available at the RiceVarMap (http://ricevarmap.ncpgr.cn). There were 2,767,191, 1,857,866, 1,925,362, and 3,916,415 SNPs (minor allele frequency ≥0.05; the number of accessions with minor alleles ≥6) used in GWAS for […]

library_books

A Novel Tiller Angle Gene, TAC3, together with TAC1 and D2 Largely Determine the Natural Variation of Tiller Angle in Rice Cultivars

2016
PLoS Genet
PMCID: 5096673
PMID: 27814357
DOI: 10.1371/journal.pgen.1006412

[…] re genotyped with approximately 2.5× coverage, and the genome was sequenced using a bar-coded multiplex sequencing approach on an Illumina Genome Analyzer II []. We obtained the genome sequences from RiceVarMap (http://ricevarmap.ncpgr.cn/) []. A total of 446 O. rufipogon accessions were used to calculate nucleotide diversity (π). The details of these accessions and their sequencing data have been […]

library_books

Comparative and parallel genome wide association studies for metabolic and agronomic traits in cereals

2016
Nat Commun
PMCID: 5059443
PMID: 27698483
DOI: 10.1038/ncomms12767

[…] Sequence data were obtained from the website RiceVarMap (http://ricevarmap.ncpgr.cn). Only SNPs with an MAF≥0.05 and the number of varieties with a minor allele≥6 in a (sub) panel were used to perform the mGWAS. There are 2,767,191, 1,857,866 an […]

Citations

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RiceVarMap institution(s)
National Key Laboratory of Crop Genetic Improvement, National Center of Plant Gene Research (Wuhan), Huazhong Agricultural University, Wuhan, China
RiceVarMap funding source(s)
National High Technology Research and Development Program of China (863 Program) [2012AA10A304, 2014AA10A602]; National Natural Science Foundation of China [31100962, 31123009, J1103510]; Fundamental Research Funds for the Central Universities [2011PY068]

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