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| Status |
Public on Sep 20, 2019 |
| Title |
High-Throughput Single-Molecule R-loop Footprinting Reveals Principles of R-loop Formation |
| Organisms |
Escherichia coli; Homo sapiens |
| Experiment type |
Other
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| Summary |
We have successfully characterized R-loop structures using non-denaturing bisulfite treatment coupled with single-molecule sequencing to reveal that R-loops form defined overlapping molecular clusters around promoter, gene body, and terminal regions of genes. Our results uncovers that R-loop formation is both driven by favorable DNA sequence as well as topological state.
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| Overall design |
Characterization of R-loop formation of targeted human genes using single-molecule R-loop footprinting couple with Pacific Bioscience's long-read sequencing (SMRF-seq)
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| Contributor(s) |
Malig M, Hartono SR, Giafaglione J, Sanz LA, Chédin F |
| Citation missing |
Has this study been published? Please login to update or notify GEO. |
| |
| Submission date |
May 05, 2019 |
| Last update date |
Sep 20, 2019 |
| Contact name |
Frederic Chedin |
| E-mail(s) |
flchedin@ucdavis.edu
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| Organization name |
UC Davis
|
| Department |
MCB
|
| Lab |
Chedin
|
| Street address |
1 Shields Avenue
|
| City |
Davis |
| State/province |
CA |
| ZIP/Postal code |
95616 |
| Country |
USA |
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| Platforms (3) |
| GPL20301 |
Illumina HiSeq 4000 (Homo sapiens) |
| GPL21311 |
PacBio RS II (Homo sapiens) |
| GPL24462 |
PacBio RS II (Escherichia coli) |
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| Samples (8)
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| Relations |
| BioProject |
PRJNA541182 |
| SRA |
SRP195414 |
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