Additional file 2.

Dose response of probes deteriorates as the number of genomic hits increases. Panel a shows the frequency distribution of genomic matches for a set of 80,000 randomly selected chromosome X probes. Panels b-c are box-plots showing the distribution of linear correlation coefficient and regression slope grouped by the number of genomic hits of a set of 80000 randomly selected chromosome X probes. Panel d shows chromosome X hits frequency distribution of the same set of randomly selected 80000 chromosome X probes. Panels e-f are box-plots showing the distribution of linear correlation coefficient and regression slope grouped by the number of chromosome X hits of this set of 80,000 randomly selected chromosome X probes. Natural log-transformed normalized (as described in Methods) intensity of chromosome X probes of a representative set of 1X–5X samples and natural log-transformed copy number were used to calculate linear correlation coefficient and regression slope for each probe.

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Shen et al. BMC Genetics 2008 9:27   doi:10.1186/1471-2156-9-27