|
Status |
Public on Jan 11, 2021 |
Title |
SARS-CoV-2_Mod_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: 2-methylnicotinic acid imidazolide
|
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 |
SAMN15502293 |
SRA |
SRX8706452 |