Journal: Genome Biology
Article Title: An optimized microarray platform for assaying genomic variation in Plasmodium falciparum field populations
Figure Lengend Snippet: Field sample analysis with the CNV-SNP array . (a) The manufacturer-recommended starting amount is 1,000 ng of DNA to produce at least 10 μg of labeled product. However, 250 ng of parasite DNA consistently produced sufficient labeled product when using 65% AT nonamers. Error bars indicate one standard deviation. (b) Hybridizations with field samples - straight from patient blood, or whole genome amplified - produced microarray data on par with standard lab clones, even when significant human DNA contamination was present. Microarray accuracy was determined through Illumina sequencing of lab-adapted parasites. Patient blood samples were hybridized with the addition of 1× Denhardt's solution while WGA samples were not.
Article Snippet: Labeled product was resuspended in water, and 10 μg of test and reference samples combined (6 μg for 5K SNP chip samples), dried down, and resuspended in hybridization buffer (Roche NimbleGen, Inc., Madison, WI, USA); hybridizations for patient blood samples included 1× Denhardt's solution (Sigma Aldrich) in the hybridization buffer.
Techniques: Labeling, Produced, Standard Deviation, Amplification, Microarray, Clone Assay, Sequencing, Whole Genome Amplification