|
| Status |
Public on Apr 13, 2023 |
| Title |
m6A modification segregates the stemness program from proliferation in ISCs [ATAC-seq] |
| Organism |
Mus musculus |
| Experiment type |
Genome binding/occupancy profiling by high throughput sequencing
|
| Summary |
Purpose: A method for mapping chromatin accessibility genome-wide, to reveal chromatin accessibility in Intestinal stem cells.
Methods: Intestinal stem cells(Lgr5-high cells) were sorted by flow cytometry from wild type mice. The samples were prepared in duplicate. HISAT2 was used to align the sequences to the mouse genome and generate bam files. bamCoverage was used to generate bigwig files from bam files. MACS2 (v2.2.5) was used for peak calling and to generate bed files from aligned reads.
Conclusions: ATAC-seq analysis confirmed that Fosb binding sites in Chip-seq assay were correlated with the chromatin accessibility .
|
| |
|
| Overall design |
Examination of chromatin accessibility in intestinal stem cells.
|
| |
|
| Contributor(s) |
Chen Y, Liu Y, Huang M, Wang X, Liu Z, Li S |
| Citation(s) |
39093347 |
| |
| Submission date |
Nov 01, 2021 |
| Last update date |
Sep 05, 2024 |
| Contact name |
Ye-guang Chen |
| E-mail(s) |
ygchen@mail.tsinghua.edu.cn
|
| Organization name |
Tsinghua University
|
| Department |
School of life science
|
| Lab |
Molcell
|
| Street address |
Tsinghua Road, Medical Building
|
| City |
Beijing |
| ZIP/Postal code |
100084 |
| Country |
China |
| |
|
| Platforms (1) |
| GPL24247 |
Illumina NovaSeq 6000 (Mus musculus) |
|
| Samples (2) |
|
| This SubSeries is part of SuperSeries: |
| GSE186917 |
m6A modification segregates the stemness program from proliferation in ISCs |
|
| Relations |
| BioProject |
PRJNA776757 |
| SRA |
SRP344015 |
