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| Status |
Public on Jul 25, 2024 |
| Title |
Genome-wide mapping of native G-loops in living cells |
| Organisms |
Homo sapiens; Mus musculus |
| Experiment type |
Genome binding/occupancy profiling by high throughput sequencing
|
| Summary |
G-quadruplex (G4) are four‑stranded DNA secondary structures that form in guanine‑rich regions of the genome, which can enhance or repress gene expression. An R-loop is a special triple-stranded nucleic acid structure formed when nascent RNA invades double-stranded DNA (dsDNA) during transcription. G-loops are constituted by one or more DNA G4 on one strand and a stable RNA/DNA hybrid on the other. We developed the HepG4-seq for mapping the native G4s and the HBD-seq for mapping native R-loops. We combined the HepG4-seq and HBD-seq to profile the genomic native G-loops, which are regions co-occupied by both native G4s and R-loops, in both HEK293 cells and mouse embryonic stem cells (mESCs).
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| |
|
| Overall design |
Cleavage Under Targets and Tagmentation (CUT&Tag) for mapping G4 and R-loop in HEK293 and mESC cells.
|
| Web link |
https://doi.org/10.7554/eLife.99026.1
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| |
|
| Contributor(s) |
Xue Z |
| Citation(s) |
39392462 |
| |
| Submission date |
Jan 31, 2024 |
| Last update date |
Oct 24, 2024 |
| Contact name |
Zhihong Xue |
| E-mail(s) |
xuez85@outlook.com
|
| Organization name |
Sichuan University
|
| Street address |
No. 20, 3rd section, South Renmin Road
|
| City |
Chengdu |
| State/province |
Sichuan |
| ZIP/Postal code |
610041 |
| Country |
China |
| |
|
| Platforms (2) |
| GPL24247 |
Illumina NovaSeq 6000 (Mus musculus) |
| GPL24676 |
Illumina NovaSeq 6000 (Homo sapiens) |
|
| Samples (28)
|
|
| Relations |
| BioProject |
PRJNA1071642 |
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