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The remaining two preparations were used for qPCR validation of microarray results.
Sequences and primers used for qPCR validation.
Additional file 7: Information on primers used for qPCR validation of candidate genes.
Size-selected libraries of 200 300 bp length were used for Illumina deep-sequencing, whereas libraries with a 300 650 bp length were used for qPCR validation of the quality of the ChIP-seq libraries.
Briefly, 500 700 ng of genomic DNA from six matched tumor/normal AA CRC cases used for WES, and DNA from an additional six AA normal colon samples (Additional file 1: Table S1) was used for qPCR validation of a custom 11-gene panel, with each gene mapping to a distinct genomic locus.
In addition, a gene expression marker that had a distinctly bimodal expression in the DNA microarray analysis (APPLE0F000001974) also had bimodal expression in the O3 × R5 F1 population used for qPCR validation; this bimodal expression segregation was visible among PCR amplicons (Additional file 2: Figure S3).
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Primers used for qPCR are indicated in Supplementary Table 3.
The primers used for qPCR were listed in Table S2.
Primers used for qPCR analysis (XLS 58 kb).
Primers used for qPCR.
Primers used for qPCR ChIP.
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