Fig. 1.

Effect of the erroneous multiplication step on the ratio of Pol II binding on X-linked genes compared to autosomal genes. (A) We have reproduced the analysis pipeline in (5). The upper plot reports the average Pol II ChIP over input log2 enrichment ratio along X-linked (red) and autosomal (grey) genes in male salivary glands. The lower plot reports the ratio between X and autosomes. The same annotations and gene lists from Figure 2 by Conrad et al. (5) are used here. (B) Same data as in panel A, but processed without the erroneous multiplication step. (C) Average Pol II binding ratios between X and autosomal genes in male (black) and female (grey) salivary glands, as measured at the promoter, gene body and 3'-end regions. Male over female ratios are also indicated. The data were processed using the ChIP-seq processing pipeline in (5). (D) Same as panel C, but processed without the erroneous amplification step.