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Series GSE221224 Query DataSets for GSE221224
Status Public on Nov 28, 2023
Title Profiling Sox4 binding sites and histone post-translational modifications in adult hepatocytes (CUT&RUN II)
Organism Mus musculus
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary Recent studies have demonstrated that hepatocytes can be reprogrammed into biliary epithelial cell-like cells. An earlier work in our laboratory nominated Sox4 as an initiation factor of this reprogramming event. To investigate the effect of Sox4 on the change of chromatin landscape of hepatocytes, we exogenosly expressed Sox4 in adult hepatocytes, and profiled its binding sites in a genome wide manner by CUT&RUN-seq. We also profiled histone post-translational modifications of H3K4me1, H3K4me3, H3K27ac and H3K27me3 to explore the influence of Sox4 on the epigenetic landscape of hepatocytes.
 
Overall design Mice were injected with adeno-associated viruses (AAVs) packaged with mouse Sox4 (AAV8-TBG-HA-Sox4-P2A-Cre), and hepatocytes were harvested 18 hours post injection (18 hpi) and 4 days post injection (4 dpi) by a standard 2-step liberase digestion method followed by a Percoll enrichment step.
 
Contributor(s) Katsuda T, Sussman J, Stanger BZ
Citation(s) 38409161
Submission date Dec 17, 2022
Last update date Mar 11, 2024
Contact name Takeshi Katsuda
E-mail(s) tkatsuda412@gmail.com
Phone +1-215-746-5559
Organization name University of Pennsylvania
Department Perelman School of Medicine
Lab Gastroenterology Division
Street address 421 Curie Blvd, BRB II/III Rm531
City Philadelphia
State/province PA
ZIP/Postal code 19104
Country USA
 
Platforms (1)
GPL30172 NextSeq 2000 (Mus musculus)
Samples (24)
GSM6856415 Sox4_18hpi, rep1 NextSeq 2000
GSM6856416 Sox4_18hpi, rep2 NextSeq 2000
GSM6856417 Sox4_18hpi, rep3 NextSeq 2000
This SubSeries is part of SuperSeries:
GSE221225 Sox4 in adult hepatocytes
Relations
BioProject PRJNA913432

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
GSE221224_RAW.tar 1.9 Gb (http)(custom) TAR (of BED, BW)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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