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| Status |
Public on Jun 12, 2024 |
| Title |
ssDRIP-seq: a high-throughput method for R-loop mapping and quantitative assessment |
| Organisms |
Escherichia coli; Homo sapiens; Mus musculus |
| Experiment type |
Other
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| Summary |
Current methods for R-loop mapping need to perform DNA:RNA immunoprecipitation for each sample individually, with consequent limitations in throughput. Here, we develop and validate mDRIP-seq, a multi-sample barcoding and pooling method for R-loop mapping. We show mDRIP-seq performs equivalently as conventional methods, but with the merits of high throughput and cost-efficiency. We also show the simplicity of mDRIP-seq for relative and absolute quantitation of genomic R-loop fractions for multiple samples. Together, mDRIP-seq is a high-throughput and cost-efficient method for R-loop mapping and quantitative assessment and can be widely applied to large-scale dynamic profiles of these important structures for diverse organisms.
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| Overall design |
ssDRIP-seq for R-loop mapping
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| Contributor(s) |
Sun C, Xu W |
| Citation missing |
Has this study been published? Please login to update or notify GEO. |
| |
| Submission date |
Nov 30, 2022 |
| Last update date |
Jun 13, 2024 |
| Contact name |
Changbin Sun |
| Organization name |
Chinese Academy of Agricultural Sciences
|
| Department |
Agricultural Genomics Institute at Shenzhen
|
| Lab |
Guangdong Laboratory of Lingnan Modern Agriculture
|
| Street address |
Dapeng
|
| City |
Shenzhen |
| ZIP/Postal code |
518120 |
| Country |
China |
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| Platforms (3) |
| GPL24247 |
Illumina NovaSeq 6000 (Mus musculus) |
| GPL24676 |
Illumina NovaSeq 6000 (Homo sapiens) |
| GPL25368 |
Illumina NovaSeq 6000 (Escherichia coli) |
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| Samples (6)
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| This SubSeries is part of SuperSeries: |
| GSE219071 |
mDRIP-seq is a high-throughput method for quantitative R-loop landscape profiling |
|
| Relations |
| BioProject |
PRJNA906982 |
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