Figure 1

Genome-wide STAT binding sites in different cell-types. (A) The number of STAT binding sites identified in various cell types is shown as a bar graph ranging from few hundreds to one hundred thousand. STAT binding sites in each sample were categorized into three confidence classes (high, intermediate and low) based on the number of detections by three peak-calling algorithms, MACS, HOMER and Qeseq. Detailed information (data ids) about ChIP-seq data sets used in this study can be found in Additional file 2, and the analysis pipeline is described in Additional file 1. (B) Heat map shows the unsupervised clustering of 29 samples according to genome-wide STAT binding sites, using a 500-bp window. The percentage of overlapping sites between two samples (x-axis over y-axis) was calculated and used to draw the heat map. OE, Stat5^−/− MEFs overexpressing STAT5A; DKI, STAT5 mutant that prevents the formation of tetramers; KO, STAT5A knock-out; MEF, mouse embryonic fibroblast; ES, embryonic stem cells; 3T3-L1, pre-adipocyte cells; GH, growth hormone; IL, interleukin; Adi., adipogenic inducers; IFNγ, interferon-gamma; IFNβ, interferon-beta; LIF, Leukemia inhibitory factor.