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Series GSE64173 Query DataSets for GSE64173
Status Public on Jun 01, 2015
Title Bacterial Infection Remodels the DNA Methylation Landscape of Human Dendritic Cells (ATAC-Seq)
Organism Homo sapiens
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary DNA methylation is an epigenetic mark thought to be robust to environmental perturbations on a short time scale. Here, we challenge that view by demonstrating that the infection of human dendritic cells with a live pathogenic bacteria is associated with rapid changes in methylation levels at thousands of loci. We performed an integrated analysis of data on genome-wide DNA methylation, histone mark patterns, chromatin accessibility, and gene expression, before and after infection. We found that infection-induced changes in methylation rarely occur at promoter regions and instead localize to distal enhancer elements. Active demethylation is associated with extensive epigenetic remodeling, including the gain of histone activation marks and the induction of enhancer RNAs, and is strongly predictive of changes in the expression levels of nearby genes. Collectively, our observations show that active, rapid changes in DNA methylation in enhancers play a previously unappreciated role in regulating the transcriptional response of immune cells to infection.
Overall design Chromatin accessibility profiles of one non-infected and one MTB-infected dendritic cell sample.
Contributor(s)  Pacis A, Barreiro LB
Citation(s) 26392366
Submission date Dec 15, 2014
Last update date May 15, 2019
Contact name Alain Pacis
Organization name Canadian Centre for Computational Genomics (C3G)
Street address 740 Dr Penfield Ave
City Montreal
State/province QC
ZIP/Postal code H3A 0G1
Country Canada
Platforms (1)
GPL16791 Illumina HiSeq 2500 (Homo sapiens)
Samples (2)
GSM1565734 DC_MTB (ATAC-Seq)
GSM1565735 DC_NI (ATAC-Seq)
This SubSeries is part of SuperSeries:
GSE64183 Bacterial Infection Remodels the DNA Methylation Landscape of Human Dendritic Cells
BioProject PRJNA270813
SRA SRP051364

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Supplementary file Size Download File type/resource
GSE64173_RAW.tar 440.4 Mb (http)(custom) TAR (of BW)
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Raw data are available in SRA
Processed data provided as supplementary file

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