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Series GSE171285 Query DataSets for GSE171285
Status Public on Apr 08, 2021
Title The genome-wide analysis of H3K4me3 in human umbilical cord blood
Organism Homo sapiens
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary We hypothesised that gestational exposure to chlordecone (CD) can lead to alteration of epigenetic landscape, specifically marks associated with transcriptional activity of the genes, such as H3K4me3 marks. We performed ChIP using anti-H3K4me3 commercial antibody (Millipore - 07-473). DNA-protein complexes were immunoprecipitated, eluted and then DNA were purified. We prepared libraries using NEBNext Ultra II DNA Library Prep Kit for Illumina. 13 libraries were prepared: 6 control, 6 CD-exposed and 1 input. After pre-processing of the sequencing data, we performed a comparison of peaks occupancy between control and exposed samples.
 
Overall design H3K4me3 ChIP-seq of human umbilical cord blood.
 
Contributor(s) Smagulova F, Legoff L
Citation(s) 33837044
Submission date Mar 31, 2021
Last update date May 19, 2021
Contact name Fatima SMAGULOVA
E-mail(s) fatima.smagulova@inserm.fr
Phone +3323233662
Organization name Irset - U1085
Lab Meiosis, epigenetics, reproduction
Street address 9 av. Prof. Léon Bernard
City Rennes
ZIP/Postal code 35000
Country France
 
Platforms (1)
GPL20301 Illumina HiSeq 4000 (Homo sapiens)
Samples (13)
GSM5222154 Blood_H3K4me3_Input
GSM5222155 Blood_H3K4me3_C1
GSM5222156 Blood_H3K4me3_C2
Relations
BioProject PRJNA718913
SRA SRP313021

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
GSE171285_CD_average.bigwig 1.6 Gb (ftp)(http) BIGWIG
GSE171285_Control_average.bigwig 1.4 Gb (ftp)(http) BIGWIG
GSE171285_H3K4me3_all_peaks.bed.gz 274.4 Kb (ftp)(http) BED
GSE171285_RAW.tar 2.7 Gb (http)(custom) TAR (of BIGWIG)
GSE171285_differential_peaks.bed.gz 13.3 Kb (ftp)(http) BED
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file
Processed data are available on Series record

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