| Quantitative determination of allele frequency in pooled DNA by using sequencing method. | |
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MedLine Citation:
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PMID: 21277843 Owner: NLM Status: Publisher |
Abstract/OtherAbstract:
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Quantitative determination of the allele frequency of single-nucleotide polymorphism (SNP) in pooled DNA samples is a promising approach to clarify the relationships between SNPs and diseases. Here, we present such a simple, accurate, and inexpensive method for quantitative determining the allele frequency in pooled DNA samples. Three steps of DNA pooling, PCR amplification and sequencing are involved in this assay. Although direct determination of the allele frequency from the two allele-specific fluorescence intensities is possible, correction for differential response of alleles is important. We explored the effect of differential response of alleles on test statistics and provide a solution to this problem based on heterozygous fluorescence intensities. We demonstrate the accuracy and reliability of this assay on pooled DNA samples with pre-determined allele frequencies from 7.1% to 53.9%. The accuracy of allele frequency measurements is high, with a correlation coefficient of r(2)=0.997 between measured and known frequencies. We believe that by providing a means for SNP genotyping up to hundreds of samples simultaneously, inexpensively, and reproducibly, this method is a powerful strategy for detecting meaningful polymorphic differences in candidate gene association studies. |
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Authors:
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Peng Cao; Qiu-Jun Wang; Xu-Ting Zhu; Huan Zhou; Rui Li; Wei-Peng Wang |
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Publication Detail:
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Type: JOURNAL ARTICLE Date: 2011-1-15 |
Journal Detail:
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Title: Journal of chromatography. B, Analytical technologies in the biomedical and life sciences Volume: - ISSN: 1873-376X ISO Abbreviation: - Publication Date: 2011 Jan |
Date Detail:
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Created Date: 2011-1-31 Completed Date: - Revised Date: - |
Medline Journal Info:
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Nlm Unique ID: 101139554 Medline TA: J Chromatogr B Analyt Technol Biomed Life Sci Country: - |
Other Details:
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Languages: ENG Pagination: - Citation Subset: - |
Copyright Information:
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Copyright © 2011 Elsevier B.V. All rights reserved. |
Affiliation:
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School of Pharmacy, Medical College, Soochow University, No. 199 Ren'ai Road, Dushu Lake Higher Education Town, Suzhou 215123, China. |
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From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine
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