Figure 4

PopLowess normalization of aCGH data. Data from figure 2 is normalized using popLowess. For normalization data was stratified into populations based on genomic mapping of probes. Box-plots display M values after normalization for data sets with varying fraction of probes with gain. (a) M values for X-chromosome probes after popLowess normalization. (b) M values for autosomal probes after popLowess normalization. (c) M-A plot of un-normalized log ratios for the data with 35 percent of probes with gain. Red line corresponds to the popLowess correction line. (d) Genome plot after popLowess normalization for the data with 35 percent of probes with gain.