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The HUGO Journal

Official Journal of the Human Genome Organisation

Fig. 3 | The HUGO Journal

Fig. 3

From: Genome-wide identification and annotation of HIF-1α binding sites in two cell lines using massively parallel sequencing

Fig. 3

Correlations of HIF-1α target genes and their expression levels. a Venn diagram of the number of identified HIF-1α target genes in DLD-1 and TIG-3 cells. The upper panel shows the total number of genes for which HIF-1α binding sites were identified in the flanking regions. The lower panel shows the identified target genes with expression levels that were induced more than twofold under hypoxia, as determined on the basis of digital TSS tag counts. b Fold changes in the expression levels of the identified target genes in HIF-1α knock-down cells. The fold changes were calculated as the TSS tag concentration in knock-down cells/TSS tag concentration in normal cells. The bars below the axis represent cases in which gene expression was repressed in HIF-1α knockdown cells in comparison to normal cells (83% of all cases). See Supplementary Fig. 4 for details of the validation analysis. c Distributions of the fold changes in expression levels of the genes bound by HIF-1α in DLD-1 and TIG-3 cells, as determined by the digital TSS tag counts. The statistical significance of the difference in distributions was evaluated using the Wilcoxon rank sum test (P = 1e–13)

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