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Series GSE197214 Query DataSets for GSE197214
Status Public on Dec 01, 2023
Title ATACseq analysis of granulocyte-monocyte progenitor cells (GMPs) with GFI1 wildtype and low level of GFI1 expression
Organism Mus musculus
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary GFI1 is a transcriptional repressor protein that represses the transcription by mediating chromatin modifications such as histone demethylation, methylation and deacetylation of target genes. The genes with significant open chromatin configuration in the promoter and enhancer regions of GFI1-KI and GFI1-KD mice are identified in this study. This aids in the identification of unique additional genes that might be GFI1 protein's potential targets. We showed a significant open chromatin configuration of Foxo1 promoter and enhancer regions with reduced GFI1 expression. This gives additional support for hypothesising FOXO1 as a target gene of GFI1, along with the data from CHIPseq and RNAseq analysis.
 
Overall design Two mouse models were employed in this study: GFI1-KI, in which murine Gfi1 is replaced by human GFI1, and GFI1-KD, in which mice express 10-20% human GFI1 rather than murine Gfi1. FACS sorting was used to isolate granulocyte monocyte progenitor cells (GMPs) of GFI1-KI and GFI1-KD mice, which were then processed for ATACseq analysis immediately after sorting.
 
Contributor(s) Khandanpour C, Xie X, Patnana PK, Frank D, Wei L
Citation(s) 37423893
Submission date Feb 22, 2022
Last update date Mar 03, 2024
Contact name Pradeep Kumar Patnana
E-mail(s) pradeep.patnana@gmail.com
Organization name University Hospital Muenster
Street address Domagkstr 3
City Muenster
State/province NRW
ZIP/Postal code 48149
Country Germany
 
Platforms (1)
GPL19057 Illumina NextSeq 500 (Mus musculus)
Samples (6)
GSM5911073 S1 GFI1_KI_1
GSM5911074 S2 GFI1_KI_2
GSM5911075 S3 GFI1_KI_3
Relations
BioProject PRJNA809373

Download family Format
SOFT formatted family file(s) SOFTHelp
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Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE197214_consensus_peak_normalized_counts.txt.gz 5.9 Mb (ftp)(http) TXT
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Raw data are available in SRA
Processed data are available on Series record

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