E-MTAB-1534 - ChIP-seq of human breast cancer core needle biopsy samples and cell lines to investigate Estrogen Receptor-chromatin interactions

Status
Released on 1 April 2013, last updated on 3 May 2014
Organism
Homo sapiens
Samples (5)
Protocols (9)
Description
The Estrogen Receptor alpha (ERa) is the key transcriptional regulator in luminal breast cancer and the main target for adjuvant treatment. Luminal gene signatures are dictated by the transcriptional capacities of ERa, which are a direct consequence of the receptors binding preference at specific sites on the chromatin. The identification of ERa binding signatures on a genome-wide level has greatly enhanced our understanding of Estrogen Receptor biology in cell lines, but the technique has its limitations with respect its applicability in limit amounts of tumor tissue. Here, we present a refinement of the ChIP-seq procedures to enable transcription factor mapping on limited amounts of tissue culture cells and illustrate the applicability of this refined technology by mapping the ERa genome-wide chromatin binding landscape in core needle biopsy material from primary breast tumors.
Experiment types
ChIP-seq, ChiP-seq, ex vivo, in vitro
Contact
Citation
A carrier-assisted ChIP-seq method for Estrogen Receptor-chromatin interactions from breast cancer core needle biopsy samples. Wilbert Zwart, Rutger Koornstra, Jelle Wesseling, Emiel Rutgers, Sabine Linn, Jason Carroll.
MINSEQE
Exp. designProtocolsFactorsProcessedSeq. reads
Files
Investigation descriptionE-MTAB-1534.idf.txt
Sample and data relationshipE-MTAB-1534.sdrf.txt
Processed data (1)E-MTAB-1534.processed.1.zip
Links