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Simultaneous mutation and copy number variation (CNV) detection by multiplex PCR-based GS-FLX sequencing.
Uppsala University, Disciplinary Domain of Medicine and Pharmacy, Faculty of Medicine, Department of Immunology, Genetics and Pathology, Molecular and Morphological Pathology.
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2009 (English)In: Human Mutation, ISSN 1059-7794, E-ISSN 1098-1004, Vol. 30, no 3, 472-6 p.Article in journal (Refereed) Published
Abstract [en]

We evaluated multiplex PCR amplification as a front-end for high-throughput sequencing, to widen the applicability of massive parallel sequencers for the detailed analysis of complex genomes. Using multiplex PCR reactions, we sequenced the complete coding regions of seven genes implicated in peripheral neuropathies in 40 individuals on a GS-FLX genome sequencer (Roche). The resulting dataset showed highly specific and uniform amplification. Comparison of the GS-FLX sequencing data with the dataset generated by Sanger sequencing confirmed the detection of all variants present and proved the sensitivity of the method for mutation detection. In addition, we showed that we could exploit the multiplexed PCR amplicons to determine individual copy number variation (CNV), increasing the spectrum of detected variations to both genetic and genomic variants. We conclude that our straightforward procedure substantially expands the applicability of the massive parallel sequencers for sequencing projects of a moderate number of amplicons (50-500) with typical applications in resequencing exons in positional or functional candidate regions and molecular genetic diagnostics.

Place, publisher, year, edition, pages
2009. Vol. 30, no 3, 472-6 p.
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Basic Medicine
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URN: urn:nbn:se:uu:diva-245399DOI: 10.1002/humu.20873PubMedID: 19058222OAI: oai:DiVA.org:uu-245399DiVA: diva2:791150
Available from: 2015-02-26 Created: 2015-02-26 Last updated: 2015-02-26

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