|
| Status |
Public on May 10, 2022 |
| Title |
Integrative epigenomic and transcriptomic analysis reveals the requirement of JUNB for hematopoietic fate induction |
| Organism |
Homo sapiens |
| Experiment type |
Genome binding/occupancy profiling by high throughput sequencing
|
| Summary |
To advance our understanding of the dynamics of the gene regulation during each step of in vitro HSPC, we surveyed global gene expression, chromatin accessibility (ATAC-seq), chromatin immunoprecipitation sequencing (ChIP-seq) for active H3K4me3 and repressive H3K27me3 histone mark, from hPSCs and purified intermediates across HSPC differentiation.
Methods: ATAC-seq, bulk RNA-seq, scRNA-seq, ChIP-seq, scATAC-seq, Cut & Tag
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| |
|
| Overall design |
Bulk RNA-seq, ATAC-seq, H3K4me3 and H3K27me3 ChIP-seq were performed with hPSCs and hPSC derived VMEs, EPCs and HPCs . Besides, we performed scATAC-seq and scRNA-seq to investigate the transcriptomic signature of HEC generated in in vitro system.
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| |
|
| Contributor(s) |
Na J, Chen X |
| Citation(s) |
35668082 |
| |
| Submission date |
Mar 05, 2021 |
| Last update date |
Nov 29, 2022 |
| Contact name |
Jie Na |
| E-mail(s) |
jie.na@tsinghua.edu.cn
|
| Organization name |
Tsinghua University
|
| Department |
Basic Medical Sciences, School of Medicine
|
| Street address |
Qing Hua Yuan
|
| City |
Beijing |
| ZIP/Postal code |
100086 |
| Country |
China |
| |
|
| Platforms (1) |
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| Samples (41)
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|
| Relations |
| BioProject |
PRJNA707048 |
| SRA |
SRP309501 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE168372_ATAC_EPC_MergePeak.bed.gz |
2.2 Mb |
(ftp)(http) |
BED |
| GSE168372_ATAC_HEC_KO_MergePeak.bed.gz |
587.8 Kb |
(ftp)(http) |
BED |
| GSE168372_ATAC_HEC_WT_MergePeak.bed.gz |
728.2 Kb |
(ftp)(http) |
BED |
| GSE168372_ATAC_HPC_MergePeak.bed.gz |
1.7 Mb |
(ftp)(http) |
BED |
| GSE168372_ATAC_VME_MergePeak.bed.gz |
2.2 Mb |
(ftp)(http) |
BED |
| GSE168372_ATAC_hPSC_MergePeak.bed.gz |
1.5 Mb |
(ftp)(http) |
BED |
| GSE168372_H3K27me3_EPC_MergePeak.bed.gz |
1.5 Mb |
(ftp)(http) |
BED |
| GSE168372_H3K27me3_HPC_MergePeak.bed.gz |
2.0 Mb |
(ftp)(http) |
BED |
| GSE168372_H3K27me3_VME_MergePeak.bed.gz |
1.5 Mb |
(ftp)(http) |
BED |
| GSE168372_H3K27me3_hPSC_MergePeak.bed.gz |
462.4 Kb |
(ftp)(http) |
BED |
| GSE168372_H3K4me3_EPC_MergePeak.bed.gz |
2.4 Mb |
(ftp)(http) |
BED |
| GSE168372_H3K4me3_HPC_MergePeak.bed.gz |
718.6 Kb |
(ftp)(http) |
BED |
| GSE168372_H3K4me3_VME_MergePeak.bed.gz |
2.0 Mb |
(ftp)(http) |
BED |
| GSE168372_H3K4me3_hPSC_MergePeak.bed.gz |
1.2 Mb |
(ftp)(http) |
BED |
| GSE168372_HEC_trans_RNA_Count.txt.gz |
471.2 Kb |
(ftp)(http) |
TXT |
| GSE168372_RAW.tar |
1.8 Gb |
(http)(custom) |
TAR (of BED, BW, H5, MTX, TSV) |
| GSE168372_trans_RNA_Count.xls.gz |
839.5 Kb |
(ftp)(http) |
XLS |
SRA Run Selector |
| Processed data are available on Series record |
| Processed data provided as supplementary file |
| Raw data are available in SRA |
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