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 to 92% human DNA contamination.

Original publication

DOI

10.1186/gb-2011-12-4-r35

Type

Journal article

Journal

Genome biology

Publisher

BioMed Central Ltd

Publication Date

01/2011

Volume

12

Pages

R35 - R35