Figure 2

Genes that contain NFI in vivo site in their 5 kb upstream regions exhibit higher expression levels. Using ChIP-Seq data, 39,807 in vivo NFI sites were defined genome-wide in mouse embryonic fibroblasts. Out of this number 3,120 in vivo sites were located within the 5 kb upstream regions of RefSeq annotated genes. 2881 RefSeq genes were selected that contained one or more in vivo NFI sites in their 5 kb upstream regions and the same number of genes were randomly chosen from the RefSeq gene annotation. Random selection was repeated 3 times. Histograms represent the distribution of gene expression levels for each of such defined groups. Affymetrix expression data were obtained from the same cell type (mouse embryonic fibroblasts), from the same embryo, and using the same culturing conditions. A-C. Randomly selected groups. D. Group of NFI occupied genes.