E-MTAB-739 - Transcription profiling by array of human breast cancer cell lines MCF7, MCF10A and ZR751

Status
Released on 1 January 2012, last updated on 25 January 2012
Organism
Homo sapiens
Samples (12)
Array (1)
Protocols (6)
Description
CCCTC-binding factor (CTCF) is a conserved zinc finger transcription factor involved in chromatin looping. Recent evidence has shown a role for CTCF in ER biology. This experiment maps CTCF binding genome-wide in breast cancer cells and shows that CTCF binding does not change with estrogen or tamoxifen treatment. We find a small but reproducible proportion of CTCF binding events that overlap with both the nuclear receptor estrogen receptor and the forkhead protein FoxA1. These overlapping binding events are likely to be functional as they are biased towards estrogen-regulated genes. In addition, we identify cell-line specific CTCF binding events. These cell-line specific CTCF binding events are more likely to be associated with cell-line specific ER vinding events and are also more likely to be adjacent to genes that are expressed in that particular cell line. These data suggest a positive, pro-transcriptional role for CTCF in ER-mediated gene expression in breast cancer cells.
Experiment types
transcription profiling by array, cell type comparison, co-expression, replicate
Contact
Citations
A co-ordinated interaction between CTCF and ER in breast cancer cells. Caryn S. Ross-Innes; Gordon D. Brown; Jason S. Carroll. BMC Genomics 12:593 (2011), PMID:22142239
A pro-transcriptional interaction between CTCF and ER in breast cancer cells. Caryn S. Ross-Innes; Gordon D. Brown; Jason S. Carroll.
MIAME
PlatformsProtocolsVariablesProcessedRaw
Files
Investigation descriptionE-MTAB-739.idf.txt
Sample and data relationshipE-MTAB-739.sdrf.txt
Raw data (1)E-MTAB-739.raw.1.zip
Processed data (1)E-MTAB-739.processed.1.zip
Array designA-MEXP-1173.adf.txt
Links