Dataset Information

Two methods of whole-genome amplification enable accurate genotyping across a 2320-SNP linkage panel.

ABSTRACT: Comprehensive genome scans involving many thousands of SNP assays will require significant amounts of genomic DNA from each sample. We report two successful methods for amplifying whole-genomic DNA prior to SNP analysis, multiple displacement amplification, and OmniPlex technology. We determined the coverage of amplification by analyzing a SNP linkage marker set that contained 2320 SNP markers spread across the genome at an average distance of 2.5 cM. We observed a concordance of >99.8% in genotyping results from genomic DNA and amplified DNA, strongly indicating the ability of both methods used to amplify genomic DNA in a highly representative manner. Furthermore, we were able to achieve a SNP call rate of >98% in both genomic and amplified DNA. The combination of whole-genome amplification and comprehensive SNP linkage analysis offers new opportunities for genetic analysis in clinical trials, disease association studies, and archiving of DNA samples.

SUBMITTER: Barker DL

PROVIDER: S-EPMC479118 | biostudies-literature | 2004 May

REPOSITORIES: biostudies-literature

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Two methods of whole-genome amplification enable accurate genotyping across a 2320-SNP linkage panel.

Barker David L DL Hansen Mark S T MS Faruqi A Fawad AF Giannola Diane D Irsula Orlando R OR Lasken Roger S RS Latterich Martin M Makarov Vladimir V Oliphant Arnold A Pinter Jonathon H JH Shen Richard R Sleptsova Irina I Ziehler William W Lai Eric E

Genome research 20040501 5

Comprehensive genome scans involving many thousands of SNP assays will require significant amounts of genomic DNA from each sample. We report two successful methods for amplifying whole-genomic DNA prior to SNP analysis, multiple displacement amplification, and OmniPlex technology. We determined the coverage of amplification by analyzing a SNP linkage marker set that contained 2320 SNP markers spread across the genome at an average distance of 2.5 cM. We observed a concordance of >99.8% in genot ...[more]

PMID: 15123587

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Dataset Information

Two methods of whole-genome amplification enable accurate genotyping across a 2320-SNP linkage panel.

Publications

Two methods of whole-genome amplification enable accurate genotyping across a 2320-SNP linkage panel.

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