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Literature DB >> 18804445

High fractions of exogenous DNA in human buccal samples reduce the quality of large-scale genotyping.

Abstract

Buccal cell samples are considered a reliable source of DNA for genotyping studies. However, a potential drawback is the presence of exogenous DNA that is coextracted with human genomic DNA. A set of saliva and cheek swab samples, in which the fraction of human DNA varies from 10 to 96%, was genotyped using the Affymetrix Mapping 500 K Array. Samples containing less than 30% human DNA performed poorly in terms of accuracy and reliability. Therefore, we recommend quantitating the amount of human DNA in buccal samples to be used for large-scale genotyping and eliminating samples with less than 30% human DNA.

Entities: Species

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DNA

Year: 2008 PMID： 18804445 DOI： 10.1016/j.ab.2008.08.015

Source DB: PubMed Journal: Anal Biochem ISSN： 0003-2697 Impact factor: 3.365

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Cited

11 in total

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Journal: J Mol Diagn Date: 2017-03-18 Impact factor: 5.568

2. Evaluation of quality of DNA extracted from buccal swabs for microarray based genotyping.

Authors: Alex Livy; Sayhean Lye; Chahil K Jagdish; Nurul Hanis; Velapasamy Sharmila; Lian Wee Ler; Bagali Pramod
Journal: Indian J Clin Biochem Date: 2011-08-23

3. Resequencing of nicotinic acetylcholine receptor genes and association of common and rare variants with the Fagerström test for nicotine dependence.

Authors: Jennifer Wessel; Sarah M McDonald; David A Hinds; Renee P Stokowski; Harold S Javitz; Michael Kennemer; Ruth Krasnow; William Dirks; Jill Hardin; Steven J Pitts; Martha Michel; Lisa Jack; Dennis G Ballinger; Jennifer B McClure; Gary E Swan; Andrew W Bergen
Journal: Neuropsychopharmacology Date: 2010-08-25 Impact factor: 7.853

4. Feasibility of High-Throughput Genome-Wide Genotyping using DNA from Stored Buccal Cell Samples.

Authors: Stephanie J Loomis; Lana M Olson; Louis R Pasquale; Janey Wiggs; Daniel Mirel; Andrew Crenshaw; Melissa Parkin; Brandon Rahhal; Stephanie Tetreault; Peter Kraft; Shelley S Tworoger; Jonathan L Haines; Jae H Kang
Journal: Biomark Insights Date: 2010-05-20

High fractions of exogenous DNA in human buccal samples reduce the quality of large-scale genotyping.

1. Chromosomal Microarray Detection of Constitutional Copy Number Variation Using Saliva DNA.

2. Evaluation of quality of DNA extracted from buccal swabs for microarray based genotyping.

3. Resequencing of nicotinic acetylcholine receptor genes and association of common and rare variants with the Fagerström test for nicotine dependence.

4. Feasibility of High-Throughput Genome-Wide Genotyping using DNA from Stored Buccal Cell Samples.

5. Evaluating genomic DNA extraction methods from human whole blood using endpoint and real-time PCR assays.

6. Genotyping performance between saliva and blood-derived genomic DNAs on the DMET array: a comparison.

7. Global Methylation and Hydroxymethylation in DNA from Blood and Saliva in Healthy Volunteers.

8. A novel candidate region for genetic adaptation to high altitude in Andean populations.

9. Saliva as an alternative source of high yield canine genomic DNA for genotyping studies.

10. Clinical trial participant characteristics and saliva and DNA metrics.