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SRX1441560: GSM1945876: NC_H3K27me3; Homo sapiens; ChIP-Seq
1 ILLUMINA (Illumina HiSeq 2500) run: 8.7M spots, 1.7G bases, 995.1Mb downloads

Submitted by: NCBI (GEO)
Study: EZH1/SUZ12 complex positively regulates the transcription of NF-?B target genes via interaction with UXT
show Abstracthide Abstract
EZH1 is one of polycomb group genes which positively regulates transcription in the genome-wide scale. However, the underlying mechanisms still remain elusive. Here we report that EZH1 physically interacts with UXT, one small chaperon-like transcription co-activator of NF-?B. UXT specifically interacts with EZH1 and SUZ12, but not EED or EZH2. Similar to UXT, RNA interference of EZH1 and SUZ12 in the cell impairs the transcriptional activation of NF-?B target genes after TNFa treatment, and increases the induced cell death. Then RNA-Sequencing analysis was used to analysis the transcriptome in HCT116 cells after EZH1 or UXT knockdown. EZH1 or UXT deficiency nearly impaired the induced expression of all the genes by TNFa. ChIP-Sequencing was used to analysis the H3K27me1, H3K27me2 and H3K27me3 levels in HCT116 cells after EZH1 or UXT knockdown. However, the results show that H3K27 mono-, di- and trimethylation on NF-?B target genes are not affected with EZH1 or UXT deficiency. EZH1 does not affect the translocation of RELA/p65 from cytosol to nuclear either. Instead, EZH1 regulates the recruitment of RELA/p65 and RNA POLII to target genes. Taken together, our study demonstrates EZH1 as a positive regulator for NF-?B signaling and reveals the underlying mechanism how EZH1 and UXT work together in transcription regulation. Overall design: RNA-Sequencing and ChIP-Sequencing were used to analysis the transcriptome and H3K27 methylations in HCT116 cells after EZH1 or UXT knockdown.
Sample: NC_H3K27me3
SAMN04283940 • SRS1171510 • All experiments • All runs
Organism: Homo sapiens
Library:
Instrument: Illumina HiSeq 2500
Strategy: ChIP-Seq
Source: GENOMIC
Selection: ChIP
Layout: PAIRED
Construction protocol: For RNASeq 10ug total RNA was used, and mRNA purification was performed using oligo-dT magnic beads(NEBNext PolyA mRAN magnetic isolation module # E7490). mRNA was fragmented and reverse transcript into 200-400bp dscDNA for library construction(NEB # E7525 # E6111). For ChIPSeq chromatin was fragmented into single nucleosome by micrococcal nuclease, and H3K27me1(Millipore Cat. 17-643),H3K27me2(Active Motif Cat. 61435),H3K27me3(Millipore Cat. 17-622 ) ChIP grade antibody were used for ChIP. ChIPed DNA was eluted in TE buffer. Rubicon ThruPLEX DNA-seq 48D kit was used for RNASeq and ChIPSeq library construction. Brifely, about 100ng dscDNA was used as initiation for end repair and prepared for adaptor ligation. After adaptor ligation, PCR amplification with 15 cycles for each library and gel selection was used for library size selection and purification. For ChIPSeq library construction, 10ng-20ng ChIP eluted DNA was used as initiation and after adaptor ligation, PCR with 15-18 cycles was used to amplify library. Size selection of ChIPSeq library by electrophoresis gel.
Experiment attributes:
GEO Accession: GSM1945876
Links:
Runs: 1 run, 8.7M spots, 1.7G bases, 995.1Mb
Run# of Spots# of BasesSizePublished
SRR29389348,724,3581.7G995.1Mb2016-05-12

ID:
2038777

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