An optimized microarray platform for assaying genomic variation in Plasmodium falciparum field populations.
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ABSTRACT:
SUBMITTER: Tan JC
PROVIDER: S-EPMC3218861 | biostudies-literature | 2011
REPOSITORIES: biostudies-literature
Publications
An optimized microarray platform for assaying genomic variation in Plasmodium falciparum field populations.
Tan John C JC Miller Becky A BA Tan Asako A Patel Jigar J JJ Cheeseman Ian H IH Anderson Tim J C TJ Manske Magnus M Maslen Gareth G Kwiatkowski Dominic P DP Ferdig Michael T MT
Genome biology 20110408 4
We present an optimized probe design for copy number variation (CNV) and SNP genotyping in the Plasmodium falciparum genome. We demonstrate that variable length and isothermal probes are superior to static length probes. We show that sample preparation and hybridization conditions mitigate the effects of host DNA contamination in field samples. The microarray and workflow presented can be used to identify CNVs and SNPs with 95% accuracy in a single hybridization, in field samples containing up t ...[more]
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