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Series GSE119877 Query DataSets for GSE119877
Status Public on Aug 06, 2020
Title Genome-wide maps of the chromatin and transcription state transition during conversion from mouse embryonic fibroblasts (MEFs) to hepatocyte-like cells (iHep)
Organism Mus musculus
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary We have found three specific combinations of two transcription factors, comprising Hnf4alpha plus Foxa1, Foxa2, or Foxa3, could convert mouse embryonic fibroblasts (MEFs) into cells that closely resemble hepatocytes (iHep cells) in vitro. Then we mapped 2 histone modification marks (H3K9ac and H3K27me3) and 2 states of Pol2 (with phosphorylated serine 5 and phosphorylated both of serine 5 and serine 2) during the conversion event. Besides we performed FAIRE-Seq to explore the chromatin accessbility in the iHep cells.
Overall design ChIP-Seq for H3K9ac, H3K27me3, and Pol2 (with phosphorylated serine 5 and phosphorylated both of serine 5 and serine 2), and FAIRE-Seq in iHep_4a1 cells (Foxa1/Hnf4alpha), iHep_4a2 cells (Foxa2/Hnf4alpha), iHep_4a3 cells (Foxa3/Hnf4alpha), 3 cells 48 hours after transfection (48hr_4a1, 48hr_4a2, 48hr_4a3). ChIP-Seq for H3K9ac and H3K27me3 in MEF. ChIP-Seq for Pol2 in hepatocyte and a cell 48 hours after transfection of Foxa3 del2 mutant fused with x3 Ty1-tag and Hnf4alpha [iMEF(Day2)_4a3 del2_x3Ty1].
Contributor(s) Suzuki A, Ohkawa Y, Nagasaki M, Horisawa K, Ueno K
Citation(s) 32755593
Submission date Sep 12, 2018
Last update date Aug 10, 2020
Contact name Atsushi Suzuki
Organization name Medical Institute of Bioregulation, Kyushu University
Department Division of Organogenesis and Regeneration
Street address 3-1-1 Maidashi, Higashi-ku
City Fukuoka
State/province Fukuoka
ZIP/Postal code 812-8582
Country Japan
Platforms (2)
GPL18480 Illumina HiSeq 1500 (Mus musculus)
GPL24247 Illumina NovaSeq 6000 (Mus musculus)
Samples (25)
GSM3386218 Hep_3_input_R159
GSM3386219 Hep_3_S5P_R159
GSM3386220 Hep_3_S5PS2P_R159
BioProject PRJNA490543
SRA SRP161612

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Supplementary file Size Download File type/resource
GSE119877_RAW.tar 5.0 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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