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Series GSE81714 Query DataSets for GSE81714
Status Public on Dec 06, 2016
Title FOXA1 directs H3K4 monomethylation at enhancers via recruitment of the methyltransferase MLL3
Organism Homo sapiens
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary We performed MLL3 ChIP-seq in breast cancer cells and unexpectedly found that MLL3 binds mostly at non-promoter regions enhancers, in contrast to the prevailing hypothesis. MLL3 was shown to occupy regions marked by FOXA1 occupancy and as expected, H3K4me1 and H3K4me2. MLL3 binding was dependent on FOXA1, indicating that FOXA1 recruits MLL3 to chromatin. Motif analysis and subsequent genomic mapping revealed a role for Grainy head like protein-2 (GRHL2) which was shown to co-occupy regions of the chromatin with MLL3. Regions occupied by all three factors, namely FOXA1, MLL3 and GRHL2, were most enriched in H3K4me1. MLL3 silencing decreased H3K4me1 at enhancer elements, but had no appreciable impact on H3K4me3 at enhancer elements. We identify a complex relationship between FOXA1, MLL3 and H3K4me1 at enhancers in breast cancer and propose a mechanism whereby the pioneer factor FOXA1 can interact with a chromatin modifier MLL3, recruiting it to chromatin to facilitate the deposition of H3K4me1 histone marks, subsequently demarcating active enhancer elements.
Overall design ChIPseq of MLL3, FOXA1, GRHL2, H3K4me3, H3K4me1 in asynchronous MCF7 cells
Contributor(s) Jozwik KM, Chernukhin I, Nagarajan S, Serandour AA, Carroll JS
Citation(s) 27926873
Submission date May 20, 2016
Last update date May 15, 2019
Contact name Jason Carroll
Phone +44 1223 769649
Organization name Cancer Research UK, Cambridge Institute
Street address Li Ka Shing Centre, Robinson Way
City Cambridge
ZIP/Postal code CB2 ORE
Country United Kingdom
Platforms (1)
GPL9115 Illumina Genome Analyzer II (Homo sapiens)
Samples (37)
GSM2171829 jc1782 siCT FoxA1 Rep0
GSM2171830 jc1786 siCT FoxA1 Rep1
GSM2171831 jc1856 siCt FOXA1 Rep2
BioProject PRJNA322347
SRA SRP075495

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Supplementary file Size Download File type/resource
GSE81714_foxa1_sict-sict_input_peaks.narrowPeak.gz 1.7 Mb (ftp)(http) NARROWPEAK
GSE81714_foxa1_untreated-mcf7_input_peaks.narrowPeak.gz 1.2 Mb (ftp)(http) NARROWPEAK
GSE81714_grhl2_untreated-mcf7_input_peaks.narrowPeak.gz 1.8 Mb (ftp)(http) NARROWPEAK
GSE81714_h3k4me1_sict-sict_input_peaks.broadPeak.gz 4.0 Mb (ftp)(http) BROADPEAK
GSE81714_h3k4me1_simll3-sict_input_peaks.broadPeak.gz 4.2 Mb (ftp)(http) BROADPEAK
GSE81714_h3k4me3_sict-sict_input_peaks.broadPeak.gz 988.3 Kb (ftp)(http) BROADPEAK
GSE81714_h3k4me3_simll3-sict_input_peaks.broadPeak.gz 855.1 Kb (ftp)(http) BROADPEAK
GSE81714_mll3_sict-sict_input_peaks.narrowPeak.gz 1.2 Mb (ftp)(http) NARROWPEAK
GSE81714_mll3_sifoxa1-sict_input_peaks.narrowPeak.gz 855.4 Kb (ftp)(http) NARROWPEAK
GSE81714_mll3_untreated-sict_input_peaks.narrowPeak.gz 488.7 Kb (ftp)(http) NARROWPEAK
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