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Series GSE111024 Query DataSets for GSE111024
Status Public on Mar 14, 2019
Title Extensive recovery of embryonic enhancer and gene memory stored in hypomethylated enhancer DNA.
Organism Mus musculus
Experiment type Expression profiling by high throughput sequencing
Genome binding/occupancy profiling by high throughput sequencing
Methylation profiling by high throughput sequencing
Summary To understand how dynamics of enhancer features correlates with gene expression in adult tissue and during development, we analyzed histone modifications, chromatin accesibility, DNA methylation and gene expression at multiple time points during mouse development and adult mice.
 
Overall design We conducted RNA-seq, ATAC-seq, ChIP-seq, and WGBS experiments using purified intestinal epithleal cells from mouse embryos and adult cells.
 
Contributor(s) Jadhav U, Cavazza A, Banerjee KK, Xie H, O’Neill NK, Saenz-Vash V, Herbert Z, Madha S, Orkin SH, Zhai H, Shivdasani RA
Citation(s) 30905509
Submission date Feb 22, 2018
Last update date Jun 13, 2019
Contact name Ramesh Shivdasani
E-mail(s) ramesh_shivdasani@dfci.harvard.edu
Organization name Dana Farber Cancer Institute
Department Medical Oncology
Lab Shivdasani
Street address 450 Brookline Ave. Dana 720D
City Boston
State/province MA
ZIP/Postal code 02215
Country USA
 
Platforms (1)
GPL19057 Illumina NextSeq 500 (Mus musculus)
Samples (52)
GSM3020516 WT Adult Intestine ATAC Rep1
GSM3020517 WT Adult Intestine ATAC Rep2
GSM3020526 WT Adult Intestine ChIP INPUT
Relations
BioProject PRJNA435604
SRA SRP133323

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
GSE111024_E11.5_Intestine_ATAC.bw 254.2 Mb (ftp)(http) BW
GSE111024_E12.5_Intestine_ATAC.bw 258.1 Mb (ftp)(http) BW
GSE111024_E14.5_Intestine_ATAC.bw 268.8 Mb (ftp)(http) BW
GSE111024_E16.5_Intestine_ATAC.bw 227.5 Mb (ftp)(http) BW
GSE111024_RAW.tar 12.0 Gb (http)(custom) TAR (of BW, TXT)
GSE111024_Read_Counts_All_Cells.txt.gz 436.7 Kb (ftp)(http) TXT
GSE111024_WT_Adult_Intestine_ATAC.bw 278.9 Mb (ftp)(http) BW
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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