|
| Status |
Public on Sep 24, 2016 |
| Title |
Global analyses of RNA G-quadruplexes |
| Organisms |
Pseudomonas putida; Escherichia coli; Saccharomyces cerevisiae; Homo sapiens; Mus musculus; Parasynechococcus marenigrum WH 8102 |
| Experiment type |
Other
|
| Summary |
In vitro, some RNAs can form stable four-stranded structures known as G-quadruplexes. Although RNA G-quadruplex structures have been implicated in post-transcriptional gene regulation and diseases, direct evidence for quadruplex formation in cells has been lacking. Here, we developed a suite of methods that identify RNAs with quadruplex-forming ability and measure their folding state in living cells. Applying these methods to mammalian cell lines, the budding yeast S. cerevisiae and several bacteria, we characterized the folding landscapes of RNA G-quadruplexes in these species.
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| |
|
| Overall design |
RT-stop profiling of untreated, DMS- or NAI-treated RNA samples from 6 species
|
| |
|
| Contributor(s) |
Guo JU, Bartel DP |
| Citation(s) |
27708011 |
| Submission date |
Jun 22, 2016 |
| Last update date |
May 15, 2019 |
| Contact name |
Junjie Guo |
| E-mail(s) |
jguo@wi.mit.edu
|
| Organization name |
Whitehead Institute
|
| Lab |
David Bartel
|
| Street address |
9 Cambridge Center
|
| City |
Cambridge |
| State/province |
MA |
| ZIP/Postal code |
02142 |
| Country |
USA |
| |
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| Platforms (6)
|
| GPL11154 |
Illumina HiSeq 2000 (Homo sapiens) |
| GPL13112 |
Illumina HiSeq 2000 (Mus musculus) |
| GPL13821 |
Illumina HiSeq 2000 (Saccharomyces cerevisiae) |
| GPL14548 |
Illumina HiSeq 2000 (Escherichia coli) |
| GPL19659 |
Illumina HiSeq 2000 (Pseudomonas putida) |
| GPL21126 |
Illumina HiSeq 2000 (Synechococcus sp. WH 8102) |
|
| Samples (35)
|
|
| Relations |
| BioProject |
PRJNA326510 |
| SRA |
SRP076921 |
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