e.g., HRA000087; HRA000150
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HRA004381
Title:
The essential role of RNA polymerase I transcription in establishing the chromatin architecture in mouse embryos
Release date:
2025-04-11
Description:
Here, we found global three-dimensional genome reorganization from human oogenesis to early embryonic development, and different characteristics and mechanisms from those in mice. Furthermore, integrative analysis by clustered regularly interspaced short palindromic repeat/Cas13a gene editing, low-input genome-wide chromosome conformation capture, cleavage under targets and tagmentation, and RNA-sequencing showed that RNA polymerase I (Pol I) was essential for the de novo chromatin structure during mouse embryonic development. Mouse embryos were blocked at the 2-cell phase after knockout or inhibition of Pol I, and the biological processes related to chromatin silencing was enriched. More importantly, inhibition of Pol I transcription prevented establishment of the TAD structure in mouse embryos, but not in human embryos. Additionally, the TAD structure was weakened in mouse female germline stem cells lacking Pol I transcription, but was enhanced in human female germline stem cells.
Data Accessibility:   
Open access
BioProject:
PRJCA016057
Study type:
Human metagenome
Individuals & samples
Individual Accession
Individual Name
Gender
Sample Accession
Sample Name
Sample Description
Individual Accession
Individual Name
Gender
Sample Accession
Sample Name
Sample Description
HRI604762hFGSCfemaleHRS800321hFGSC_rep1hFGSC_rep1
HRI604762hFGSCfemaleHRS800322hFGSC_rep2hFGSC_rep2
HRI604762hFGSCfemaleHRS800341hFGSC_CX_rep1hFGSC_CX_rep1
HRI604762hFGSCfemaleHRS800342hFGSC_CX_rep2hFGSC_CX_rep2
HRI604763hGVfemaleHRS800323hGV_rep1hGV_rep1
HRI604763hGVfemaleHRS800324hGV_rep2hGV_rep2
HRI604764hMIIfemaleHRS800325hMII_rep1hMII_rep1
HRI604764hMIIfemaleHRS800326hMII_rep2hMII_rep2
HRI604765hSSCmaleHRS800327hSSC_rep1hSSC_rep1
HRI604765hSSCmaleHRS800328hSSC_rep2hSSC_rep2
Showing 1 to 10 of 22 rows rows per page
Files
Run accession
Files
Experiment
Experiment title
Platform
Sample
Run accession
Files
Experiment
Experiment title
Platform
Sample
HRR1169028HRR1169028_f1.fastq.gz (29.63 GB)HRX916559hFGSC_rep1Illumina HiSeq 3000HRS800321 (SAMC2693351)
HRR1169028HRR1169028_r2.fastq.gz (30.46 GB)HRX916559hFGSC_rep1Illumina HiSeq 3000HRS800321 (SAMC2693351)
HRR1169029HRR1169029_f1.fastq.gz (34.85 GB)HRX916560hFGSC_rep2Illumina HiSeq 3000HRS800322 (SAMC2693355)
HRR1169029HRR1169029_r2.fastq.gz (37.32 GB)HRX916560hFGSC_rep2Illumina HiSeq 3000HRS800322 (SAMC2693355)
HRR1169030HRR1169030_f1.fastq.gz (33.96 GB)HRX916561hGV_rep1Illumina HiSeq 3000HRS800323 (SAMC2693363)
HRR1169030HRR1169030_r2.fastq.gz (35.71 GB)HRX916561hGV_rep1Illumina HiSeq 3000HRS800323 (SAMC2693363)
HRR1169031HRR1169031_f1.fastq.gz (34.64 GB)HRX916562hGV_rep2Illumina HiSeq 3000HRS800324 (SAMC2693367)
HRR1169031HRR1169031_r2.fastq.gz (36.76 GB)HRX916562hGV_rep2Illumina HiSeq 3000HRS800324 (SAMC2693367)
HRR1169032HRR1169032_f1.fastq.gz (29.99 GB)HRX916563hMII_rep1Illumina HiSeq 3000HRS800325 (SAMC2693371)
HRR1169032HRR1169032_r2.fastq.gz (30.80 GB)HRX916563hMII_rep1Illumina HiSeq 3000HRS800325 (SAMC2693371)
Showing 1 to 10 of 44 rows rows per page
Submitter:   Wu Ji / jiwu@sjtu.edu.cn
Organization:   Shanghai Jiao Tong University
Submission date:   2023-04-11