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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.

From: A co-ordinated interaction between CTCF and ER in breast cancer cells

 

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

  1. 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.
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BMC Genomics

ISSN: 1471-2164

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