SNP Data

The 13,461 Picea glauca single nucleotide polymorphisms (SNPs) described in two articles by Pavy and collaborators in 2013 (BMC Biology 10:184. (27p.) and Molecular Ecology Resources 13(2): 324 -336) are now available in the Single Nucleotide Polymorphism Database of NCBI. SNP detection methods and genotyping results are described in the publications.

An atlas of 212,765 high-confidence SNPs

SNPs were detected among the sequences of several thousands of expressed gene sequences using Varscan software. Next-generation sequences were aligned on white spruce gene catalogue (GCAT) using Mosaik software. SNPs with minor allele frequency MAF < 0.01 were automatically discarded. The detection accuracy was verified with large genotyping datasets and indicated an overall high-confidence of the SNPs reported. These SNPs can also be accessed and retrieved from the Single Nucleotide Polymorphism Database of NCBI.

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Polymorphe_SNPs genotyped_infinium
Polymorphe_SNPs_genotyped_ GoldenGate
SNPs_atlas_Pavy2013