Table 1

Cell-line unique CTCF binding events are biased towards genes that are differentially regulated in the corresponding cell line, with respect to other cell lines.

Genes adjacent to cell-line unique CTCF peaks


Genes Differentially Expressed

MCF10A

MCF-7

ZR75-1


MCF10A

p = 4.652e-14

p < 2.2e-16

p = 0.5983


MCF-7

p = 0.06637

p < 2.2e-16

p = 0.4189


ZR75-1

p = 0.5536

p < 2.2e-16

p = 0.002955


The number of genes differentially expressed in each cell line, with respect to both other cell lines, but not in the other cell lines with respect to each other; the number of genes within 20 kb of a cell-line specific CTCF binding site; and the p-values from Fisher's exact test of the overlaps between those sets. The universe of genes is the 24, 928 distinct genes present on the Illumina gene expression arrays used in the experiment.

Ross-Innes et al. BMC Genomics 2011 12:593   doi:10.1186/1471-2164-12-593

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