|
| Status |
Public on Jan 11, 2021 |
| Title |
SARS-CoV-2_Unmod_Rep1 |
| Sample type |
SRA |
| |
|
| Source name |
Vero Cells
|
| Organism |
Severe acute respiratory syndrome coronavirus 2 |
| Characteristics |
strain: SARS-CoV-2 isolate USA-WA1/2020 (BEI Resources #NR-52281)
chemical modification: dimethyl sulfoxide
|
| Treatment protocol |
At 4dpi, each sample was collected and treated with either 200mM NAI (final) or equivalent volume DMSO
|
| Growth protocol |
Vero cells were cultured in T150 flasks
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Trizol
cDNA was prepared from modified RNA using gene-specific RT primers, followed by generation of amplicons with gene-specific primers. Nextera-XT kit was used for library construction
|
| |
|
| Library strategy |
OTHER |
| Library source |
transcriptomic |
| Library selection |
other |
| Instrument model |
Illumina NextSeq 500 |
| |
|
| Data processing |
Library strategy: SHAPE-MaP
ShapeMapper
Supplementary_files_format_and_content: ShapeMapper output file for each replicate
|
| |
|
| Submission date |
Jul 10, 2020 |
| Last update date |
Jan 11, 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 |
| |
|
| Platform ID |
GPL28588 |
| Series (1) |
| GSE154171 |
Complete in vivo SHAPE-MaP structure of the SARS-CoV-2 genome |
|
| Relations |
| BioSample |
SAMN15502292 |
| SRA |
SRX8706453 |
