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SRX5323849: GSM3587763: JC4696_FOXA1 Veh MCF7; Homo sapiens; ChIP-Seq
7 ILLUMINA (Illumina HiSeq 4000) runs: 35.8M spots, 1.8G bases, 563.4Mb downloads

Submitted by: NCBI (GEO)
Study: IL6/STAT3 co-opts ER/FOXA1 regulatory elements to drive metastasis in breast cancer (ChIP-Seq)
show Abstracthide Abstract
Interleukin 6 (IL6) signaling has been associated with an aggressive and metastatic phenotype in multiple solid tumors including breast cancer, but its mechanism of action in mediating tumor progression and treatment response is not clear. By exploiting a clinically relevant intraductal xenograft model of estrogen receptor positive (ER+) breast cancer, we demonstrate that IL6 increases both primary tumor growth and distant metastases. By integrating pre-clinical models and clinical specimens, we show that signal transducer and activator of transcription 3 (STAT3) mediates IL6-induced activation of a metastatic gene program from enhancer-elements shared with ER and its pioneer factor FOXA1. Although IL6 activated STAT3 and ER/FOXA1 share cis-regulatory regions, STAT3 drives transcription independent of ER and FOXA1 function, and the IL6/STAT3 gene program is not influenced by ER-targeted therapies, decoupling these two important pathways. This demonstrates that ER/FOXA1 and IL6/STAT3 are two parallel, but independent actionable pathways controlling breast cancer progression. Overall design: ChIP-seq in breast cancer cell lines in response to IL6 and in clinical samples. ChIP-sequencing on ER on T47D cells with FOXA1 siRNA with or without IL6
Sample: JC4696_FOXA1 Veh MCF7
SAMN10861452 • SRS4318626 • All experiments • All runs
Organism: Homo sapiens
Library:
Instrument: Illumina HiSeq 4000
Strategy: ChIP-Seq
Source: GENOMIC
Selection: ChIP
Layout: SINGLE
Construction protocol: Cells were crosslinked with 2mM DSG for 20 min followed by crosslinking in 1% formaldehyde for 10 min and then quenched in 100mM glycine. Nuclear enrichment was performed followed by sonication for 15 minutes (Bioruptor plus, Diagenode). Chromatin was immunoprecipitated over night using specific antibodies. Beads were washed six times in RIPA buffer and eluted from beads using SDS buffer. After RNase and proteinase K treatment, DNA was purified by phenol/chloroform extraction. Libraries were prepared using the Thruplex kit (Illumina) according to the manufacturer's instructions.
Experiment attributes:
GEO Accession: GSM3587763
Links:
Runs: 7 runs, 35.8M spots, 1.8G bases, 563.4Mb
Run# of Spots# of BasesSizePublished
SRR85206985,050,857252.5M80.4Mb2020-07-18
SRR85206995,115,179255.8M80.1Mb2020-07-18
SRR85207005,147,767257.4M80.9Mb2020-07-18
SRR85207015,045,278252.3M79.2Mb2020-07-18
SRR85207025,129,421256.5M80.3Mb2020-07-18
SRR85207035,148,401257.4M80.9Mb2020-07-18
SRR85207045,180,793259M81.6Mb2020-07-18

ID:
7198780

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