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| Status |
Public on Dec 08, 2020 |
| Title |
Chromatin structure profiling of mouse muscle stem cells by ATAC-seq |
| Organism |
Mus musculus |
| Experiment type |
Genome binding/occupancy profiling by high throughput sequencing
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| Summary |
By comparing ATAC-seq from freshly isolated satellite cells (QSC), satellite cells isolated 2.5 days post-injury (ASC), and satellite cells cultured for differentiation, we observed a gradual opening of satellite cell chromatin structure during activation and differentiation process. We used ATAC-seq to study the functional role of LncMyod during satellite cell differentiation and identified genes that exhibited decrease of accessibilities to their transcription start sites (TSS). The majority of the regions are myogenesis-related genes, suggesting LncMyod plays a critical role in establishing permissive chromatin environment for myogenic progression.
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| Overall design |
Examination of chromatin accessibility using ATAC-seq in QSC, ASC, satellite cells cultured for differentiation with control siRNA (LncMyod Control), and satellite cells cultured for differentiation with siRNA targeting LncMyod (LncMyod Knockdown).
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| Contributor(s) |
Dong A, Preusch CB, Cheung TH |
| Citation(s) |
33293420 |
| |
| Submission date |
Apr 12, 2019 |
| Last update date |
Jan 19, 2021 |
| Contact name |
Tom Cheung |
| Organization name |
Hong Kong University of Science and Technology
|
| Department |
Division of Life Science
|
| Street address |
Clear Water Bay, Kowloon
|
| City |
Hong Kong |
| ZIP/Postal code |
N/A |
| Country |
Hong Kong |
| |
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| Platforms (1) |
| GPL19057 |
Illumina NextSeq 500 (Mus musculus) |
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| Samples (8)
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| This SubSeries is part of SuperSeries: |
| GSE129768 |
A Long Noncoding RNA, LncMyod, Regulates Myogenic Lineage Progression by Modulating Chromatin Accessibility |
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| Relations |
| BioProject |
PRJNA532624 |
| SRA |
SRP192410 |
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