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Series GSE183675 Query DataSets for GSE183675
Status Public on Aug 11, 2023
Title Tet2 deficiency altered hematopoietic stem and progenitor cells ageing process
Organism Mus musculus
Experiment type Expression profiling by high throughput sequencing
Genome binding/occupancy profiling by high throughput sequencing
Methylation profiling by high throughput sequencing
Other
Summary we compared self-renewal and lineage specification of WT and Tet2-deficient HSPCs during ageing and demonstrated that Tet2 ablation alters age-dependent HSC functional decline, revealing a disparate ageing process in the Tet2-deficient haemopoietic system.
 
Overall design We collected hematopoietic progenitor and stem cells (HSPCs) from young and aged WT/ Tet2KO/Dnmt3aKO mice for WGBS, 5hmC mapping (CMSIP), SMART-seq, H3K9me3 CHIP seq, and scATAC seq. We captured and compared the 3D genome structure among four groups ( WT-young, WT-old, T2KO-young and T2KO-old).
 
Contributor(s) Hong T, Li J, Fang S, Guzman AG, Han W, Zhou Y, Goodell MA, Huang Y
Citation(s) 37884767
Submission date Sep 08, 2021
Last update date Nov 27, 2024
Contact name Jia Li
E-mail(s) jiali@tamu.edu
Organization name Texas A&M U Health Science Center
Department CEDP
Lab Jia Li Lab
Street address 2121 W HOLCOMBE BLVD
City Houston
State/province Texas
ZIP/Postal code 77030
Country USA
 
Platforms (2)
GPL19057 Illumina NextSeq 500 (Mus musculus)
GPL24247 Illumina NovaSeq 6000 (Mus musculus)
Samples (53)
GSM5567406 RNAseq for LSK cells from WT2 young mouse
GSM5567407 RNAseq for LSK cells from WT1 young mouse
GSM5567408 RNAseq for LSK cells from WT2 old mouse
Relations
BioProject PRJNA761674
SRA SRP336168

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
GSE183675_Dnmt3ako-LSK-H3K9me2.mrg.10k.bw 3.9 Mb (ftp)(http) BW
GSE183675_Dnmt3ako-LSK-H3K9me3.mrg.5k.bw 3.9 Mb (ftp)(http) BW
GSE183675_LSK-Dnmt3aKO4m.d5.bw 189.9 Mb (ftp)(http) BW
GSE183675_LSK-MxCre-Ctrl.d5.bw 179.8 Mb (ftp)(http) BW
GSE183675_RAW.tar 5.1 Gb (http)(custom) TAR (of HIC)
GSE183675_T2KO-Old-LSK-H3K9me2.mrg.10k.bw 3.9 Mb (ftp)(http) BW
GSE183675_T2KO-Young-LSK-H3K9me2.mrg.10k.bw 3.9 Mb (ftp)(http) BW
GSE183675_T2KOo-LSK-H3K9me3.mrg.5k.bw 3.9 Mb (ftp)(http) BW
GSE183675_T2KOo-LSK.d5.bw 172.2 Mb (ftp)(http) BW
GSE183675_T2KOo.mrg.smooth_CMS.bw 375.7 Mb (ftp)(http) BW
GSE183675_T2KOo_linNeg_scATAC_fragments.tsv.gz 866.0 Mb (ftp)(http) TSV
GSE183675_T2KOy-LSK-H3K9me3.mrg.5k.bw 3.9 Mb (ftp)(http) BW
GSE183675_T2KOy-LSK.d5.bw 179.8 Mb (ftp)(http) BW
GSE183675_T2KOy.mrg.smooth_CMS.bw 359.9 Mb (ftp)(http) BW
GSE183675_T2KOy_linNeg_scATAC_fragments.tsv.gz 882.5 Mb (ftp)(http) TSV
GSE183675_WT-Old-LSK-H3K9me2.mrg.10k.bw 3.9 Mb (ftp)(http) BW
GSE183675_WT-Young-LSK-H3K9me2.mrg.10k.bw 3.9 Mb (ftp)(http) BW
GSE183675_WT-mid_18m_scRNAseq.mtx.csv.gz 20.6 Mb (ftp)(http) CSV
GSE183675_WT-old_30m_scRNAseq.mtx.csv.gz 22.3 Mb (ftp)(http) CSV
GSE183675_WTo-LSK-H3K9me3.mrg.5k.bw 3.9 Mb (ftp)(http) BW
GSE183675_WTo-LSK.d5.bw 191.2 Mb (ftp)(http) BW
GSE183675_WTo.mrg.smooth_CMS.bw 397.9 Mb (ftp)(http) BW
GSE183675_WTo_linNeg_scATAC_fragments.tsv.gz 960.8 Mb (ftp)(http) TSV
GSE183675_WTy-LSK-H3K9me3.mrg.5k.bw 3.9 Mb (ftp)(http) BW
GSE183675_WTy-LSK.d5.bw 193.3 Mb (ftp)(http) BW
GSE183675_WTy-WTo-T2KOy-T2KOo.normalize.txt.gz 953.3 Kb (ftp)(http) TXT
GSE183675_WTy.mrg.smooth_CMS.bw 368.8 Mb (ftp)(http) BW
GSE183675_WTy_linNeg_scATAC_fragments.tsv.gz 1.0 Gb (ftp)(http) TSV
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