SNP array imaging results for chr3 and chr9 of the benign serous tumour 1781T.
2011-12-06T01:40:03Z (GMT) by
<p>SNP array imaging results for chr3 (<b>A, C, E</b>) and chr9 (<b>B, D, F</b>) of the benign serous tumour 1781T, using Illumina's HumanHap300-Duo Genotyping BeadChip (<b>A</b> and <b>B</b>) and Illumina's Human610-Quad Genotyping BeadChip (<b>C–F</b>). Two different DNA preparations were used with the HumanHap610-Quad Genotyping BeadChip. The top plot of each figure shows the B allele frequency (BAF) for each SNP marker aligned to its chromosomal position. In heterozygous diploid cells, alleles are present in AA, AB or BB pairs. The B Allele frequencies for these possible allele pairs are 0, 0.5 or 1, respectively. Any deviation from this ratio indicates a chromosomal aberration. In one DNA preparation, the double row in the BAF plot indicates allelic imbalance of SNP markers across the entire chromosome (<b>C</b> and <b>D</b>). A 9.1 Mb ROH is observed on chr3 and is highlighted in blue. No markers are located in the centromeric region of either chromosome, as noted by a lack of markers in both the B allele frequency and Log R ratio (LRR) plots. The bottom plot of each figure contains the Log R ratio, which provides an indication of the copy number for each SNP marker aligned to its chromosomal position. Note the absence of a drop in the Log R ratio in the highlighted ROH.</p>