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Series GSE244998 Query DataSets for GSE244998
Status Public on Oct 10, 2024
Title Unraveling Epigenetic and Immune Mechanisms Underlying Cystogenesis in Autosomal Dominant Polycystic Kidney Disease [ChIP-Seq]
Organism Mus musculus
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary Autosomal Dominant Polycystic Kidney Disease (ADPKD) is a prevalent, life-threatening monogenetic disorder that affects millions worldwide. Currently, therapeutic options are limited and often associated with complications. To find more effective treatments, this study aimed to understand the molecular mechanisms driving cystogenesis in ADPKD. By analysing various epigenetic factors, we identified a set of master transcription factors that guided a core regulatory circuitry and remodeled chromatin accessibility in ADPKD. We further explored the role of immune cells, notably macrophages, in the disease’s progression using single-cell RNA sequencing. A subgroup of Lhfpl2+/Fat3+ macrophages, which reactivated the Hgf-Met-Nfkb1-Runx1 pathways, was found essential for cystic cell fate transition. Targeting the identified epigenetic regulators, H3K4me3 and TF Runx1, effectively halted disease progression in a mouse model. These findings may lead to innovative treatments for ADPKD in humans.
 
Overall design Chromatin immunoprecipitation followed by sequencing (ChIP-seq) in primary WT and PKD DBA positive cells.
 
Contributor(s) Geng M
Citation(s)
  • Liu Z, Zhang L, Chen Y. Epigenomic, cistromic, and transcriptomic profiling of primary kidney tubular cells. J Biol Methods 2024;11(2):e99010015. PMID: 39323486
Submission date Oct 10, 2023
Last update date Oct 11, 2024
Contact name Jiayuan Chen
E-mail(s) jy_chen@tmu.edu.cn
Phone +8617320260315
Organization name Tianjin Medical University
Street address Heping
City Tianjin
State/province State...
ZIP/Postal code 300070
Country China
 
Platforms (1)
GPL24247 Illumina NovaSeq 6000 (Mus musculus)
Samples (15)
GSM7833993 ADPKD_H3K27ac
GSM7833994 ADPKD_H3K27me3
GSM7833995 ADPKD_H3K36me3
This SubSeries is part of SuperSeries:
GSE244450 Unraveling Epigenetic and Immune Mechanisms Underlying Cystogenesis in Autosomal Dominant Polycystic Kidney Disease
Relations
BioProject PRJNA1026595

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
GSE244998_RAW.tar 832.0 Mb (http)(custom) TAR (of BW)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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