|
| Status |
Public on Jan 11, 2021 |
| Title |
Complete in vivo SHAPE-MaP structure of the SARS-CoV-2 genome |
| Organism |
Severe acute respiratory syndrome coronavirus 2 |
| Experiment type |
Other
|
| Summary |
SHAPE-MaP structure probing experiment was performed on SARS-CoV-2 infected Vero cells at 4 days post infection with two biological replicates. For each replciate, SHAPE-MaP includes a sample treated with 2-methylnicotinic acid imidazolide acid (modified) or a minue reagent (unmodified). NAI preferentially reacts with unpaired bases in RNA, forming acylated bases. These modifications are encoded as mutation during reverse transcripatse and library preparation. After sequencing and alignment, the reactivity profiles of 'modified' and 'unmodified' samples are used to calculate SHAPE reactivity of each base
|
| |
|
| Overall design |
SHAPE-MaP on SARS-CoV-2 genomic RNA growing in Vero cells
|
| |
|
| Contributor(s) |
Huston NC, Wan H, Wilen C, Pyle A |
| Citation(s) |
33444546 |
| Submission date |
Jul 10, 2020 |
| Last update date |
Jan 18, 2021 |
| Contact name |
Nicholas Huston |
| Organization name |
Yale University
|
| Street address |
260 Whitney Avenue, YSB 308
|
| City |
New Haven |
| State/province |
Connecticut |
| ZIP/Postal code |
06511 |
| Country |
USA |
| |
|
| Platforms (1) |
| GPL28588 |
Illumina NextSeq 500 (Severe acute respiratory syndrome coronavirus 2) |
|
| Samples (4)
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| Relations |
| BioProject |
PRJNA645342 |
| SRA |
SRP271238 |
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