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Series GSE124804 Query DataSets for GSE124804
Status Public on May 09, 2019
Title Defining the dynamic chromatin landscape of nephron progenitors
Organism Mus musculus
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary Six2+ cap mesenchyme cells, also called nephron progenitor cells (NPC), are a multipotent stem cell population and precursors of all epithelial cell types of the nephron, the filtering unit of the kidney. In mammals, formation of new nephrons ceases perinatally associated with a surge in NPC differentiation. Current evidence indicates that perinatal “old” NPC have a greater tendency to exit the progenitor niche and differentiate into nascent nephrons than their embryonic “young” counterparts. Understanding the biological underpinnings of NPC aging may offer insights to rejuvenate old NPC and expand the progenitor pool. In the present study, we compared the chromatin landscape of young and old NPC and found common features reflecting their shared lineage but also intrinsic differences in chromatin accessibility and enhancer landscape supporting the view that old NPC and epigenetically poised for differentiation. Annotation of open chromatin regions and active enhancers uncovered the transcription factor Bach2 as a potential link between the pro-renewal MAPK/AP1 and pro-differentiation Six2/b-catenin pathways that might be of critical importance in regulation of NPC fate. Our data provide the first glimpse of the dynamic chromatin landscape of NPC and serve as a platform for future studies of the impact of genetic or environmental perturbations on the epigenome of NPC.
 
Overall design Bulk ATAC_seq on nephron progenitor cells from representative stages of the kidney
 
Contributor(s) El-Dahr S
Citation(s) 31064740
https://doi.org/10.1101/515429
Submission date Jan 08, 2019
Last update date Sep 23, 2019
Contact name Samir S El-Dahr
E-mail(s) seldahr@tulane.edu
Organization name Tulane University School of Medicine
Department Pediatrics
Lab Dr. El-Dahr
Street address 1430 Tulane Ave
City New Orleans
State/province LA
ZIP/Postal code 70112
Country USA
 
Platforms (1)
GPL19057 Illumina NextSeq 500 (Mus musculus)
Samples (14)
GSM3554294 E13WT
GSM3554295 E13WTA
GSM3554296 E16WTa
Relations
BioProject PRJNA513838
SRA SRP177952

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
GSE124804_RAW.tar 2.7 Gb (http)(custom) TAR (of BW)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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