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Series GSE85401 Query DataSets for GSE85401
Status Public on May 22, 2017
Title Ets homologous factor has critical roles in epithelial dysfunction in airway disease [ChIP-seq]
Organism Homo sapiens
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary Ets homologous factor (EHF) is an Ets family transcription factor expressed in many epithelial cell types including those lining the respiratory system. Disruption of the airway epithelium is central to many lung diseases, and a network of transcription factors coordinates its normal function. EHF can act as a transcriptional activator or a repressor. Chromatin immunoprecipitation followed by deep sequencing (ChIP-seq), showed that EHF binding sites in lung epithelial cells are enriched at promoters and coincide with putative enhancers, marked by specific histone modifications. Using EHF ChIP-seq and RNA-seq after EHF depletion, we show its targets in HBE cells are enriched for genes involved in degradation of misfolded proteins, inflammation, and wound repair.
Overall design Examination of EHF binding plus three histone modifications in primary human bronchial epithelial (HBE) cells. Also examined c-Jun and JunD binding in Calu-3 cells. There are two replicates of the EHF, c-Jun and JunD ChIP-seq plus an input sample (control). There is one replicate each of the three histone modifications.
Contributor(s) Fossum S, Michael M, Tugores A, Gosh S, Randell S, Jones L, Leir S, Harris A
Citation(s) 28461336, 29572268
Submission date Aug 09, 2016
Last update date May 15, 2019
Contact name Ann Harris
Organization name Lurie Children's Hospital of Chicago Research Center
Department Human Molecular Genetics
Street address 2430 N Halsted Street Box 211
City Chicago
State/province IL
ZIP/Postal code 60614
Country USA
Platforms (1)
GPL11154 Illumina HiSeq 2000 (Homo sapiens)
Samples (11)
GSM2266284 HBE Input
GSM2266285 HBE_EHF ChIP-seq replicate 1
GSM2266286 HBE_EHF ChIP-seq replicate 2
This SubSeries is part of SuperSeries:
GSE85403 Ets homologous factor has critical roles in epithelial dysfunction in airway disease
BioProject PRJNA338328
SRA SRP081175

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE85401_AH137-249_EHF-HBE-IDR_Peaks.bed.gz 143.2 Kb (ftp)(http) BED
GSE85401_AH198-281_Calu3-cJun_IDR_peaks.bed.gz 143.4 Kb (ftp)(http) BED
GSE85401_AH201-282_Calu3-JunD_IDR_Peaks.bed.gz 94.9 Kb (ftp)(http) BED
GSE85401_RAW.tar 163.1 Mb (http)(custom) TAR (of BEDGRAPH)
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Raw data are available in SRA
Processed data are available on Series record

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