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Series GSE179184 Query DataSets for GSE179184
Status Public on Jul 23, 2021
Title Mapping the 3D genome and epigenome in SARS-CoV-2 infected human cells
Organism Homo sapiens
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Other
Expression profiling by high throughput sequencing
Summary Many viruses can significantly impact host chromatin, but such roles of SARS-CoV-2 are unknown. Here, we characterized the three-dimensional (3D) genome architecture and epigenome landscapes in human cells after SARS-CoV-2 infection, revealing remarkable restructuring of host chromatin architectures.
 
Overall design We utlizied Hi-C 3.0, spike-in calibrated ChIP-Seq to map the alterations of 3D genome and epigenome in SARS-CoV-2 infected human cells
 
Contributor(s) Li W, Lee J, Wang R
Citation missing Has this study been published? Please login to update or notify GEO.
Submission date Jun 30, 2021
Last update date Mar 26, 2022
Contact name Ruoyu Wang
E-mail(s) ruoyu.wang@uth.tmc.edu
Organization name UTHealth McGovern Medical School
Street address 6431 Fannin St
City HOUSTON
State/province Texas
ZIP/Postal code 77054
Country USA
 
Platforms (1)
GPL21697 NextSeq 550 (Homo sapiens)
Samples (65)
GSM5411173 A549-ACE2 Mock rep1 Hi-C
GSM5411174 A549-ACE2 Mock rep2 Hi-C
GSM5411175 A549-ACE2 SARS-CoV-2 rep1 Hi-C
Relations
BioProject PRJNA742664
SRA SRP326251

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
GSE179184_A549-ACE2-CTCF-ChIP-Seq.merged.peak.bed.gz 368.4 Kb (ftp)(http) BED
GSE179184_A549-ACE2-H3K27ac-ChIP-Seq.merged.peak.bed.gz 453.5 Kb (ftp)(http) BED
GSE179184_A549-ACE2-H3K4me3-ChIP-Seq.merged.peak.bed.gz 246.1 Kb (ftp)(http) BED
GSE179184_A549-ACE2-RAD21-ChIP-Seq.merged.peak.bed.gz 540.5 Kb (ftp)(http) BED
GSE179184_A549-ACE2-SMC3-ChIP-Seq.merged.peak.bed.gz 522.8 Kb (ftp)(http) BED
GSE179184_RAW.tar 11.2 Gb (http)(custom) TAR (of BW, MCOOL)
GSE179184_a549.condense.rnaseq.all.rpkm.tsv.gz 893.3 Kb (ftp)(http) TSV
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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