Human Genes Encoding Transcription Factors and Chromatin-Modifying Proteins Have Low Levels of Promoter Polymorphism: A Study of 1000 Genomes Project Data

Figure 3

Comparison of SNP content distributions in upstream regions for human genes encoding transcription factors with the distribution in the whole-genome dataset (Table 1). The 5′-regulatory regions between −600 and +100 bp around TSSs are analyzed. The datasets of transcripts/genes (Table 1) are derived from TFClass [9]: (a) all transcription factors, (b) helix-turn-helix factor genes, (c) transcription factors with zinc-coordinating DBDs, (d) basic domain factor genes, and (e) genes encoding factors with DBDs of all other types. In panels (a) to (e) the -axis denotes the SNP content; the -axis means the fraction of transcripts with specific content of SNPs in their 5′-regulatory regions. Panel (f) presents the significance of the -test (-axis), which compare the above-described SNP contents in test groups with the content in the whole-genome dataset as a function of the threshold of SNP content (-axis). The -test was applied as described in Section 2.

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