|
| Status |
Public on Apr 03, 2023 |
| Title |
DENV3 ex virion RNA 1M7 |
| Sample type |
SRA |
| |
|
| Source name |
kidney
|
| Organism |
dengue virus type 3 |
| Characteristics |
tissue: kidney
cell line: Vero
cell type: epithelial
treatment: 10mM 1M7
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA gently extracted from purified virus particles
Nextera XT workflow
SHAPE-MaP and RNP-MaP
|
| |
|
| Library strategy |
OTHER |
| Library source |
transcriptomic |
| Library selection |
other |
| Instrument model |
Illumina MiSeq |
| |
|
| Description |
reverse transcribed RNA
dengue virus 3
SHAPE-MaP
|
| Data processing |
Adduct locations identified by Shapemapper2 software
RNA structure models were generated from SHAPE data using SuperFold software
RNP-MaP analysis was generated with in-house software from shapemapper outputs
Supplementary files format and content: filename_shapemapper.txt; shapemapper output text file
Supplementary files format and content: filename_SHAPE-MaP.shape; shapemapper output shape file
|
| |
|
| Submission date |
Mar 07, 2023 |
| Last update date |
Apr 04, 2023 |
| Contact name |
Mark A Boerneke |
| Organization name |
University of North Carolina
|
| Department |
Chemistry
|
| Lab |
Kevin Weeks
|
| Street address |
Campus Box 3290
|
| City |
Chapel Hill |
| State/province |
NC |
| ZIP/Postal code |
27599-3290 |
| Country |
USA |
| |
|
| Platform ID |
GPL33223 |
| Series (1) |
| GSE226865 |
Structure-first identification of RNA elements that regulate dengue virus genome architecture and replication |
|
| Relations |
| BioSample |
SAMN33619487 |
| SRA |
SRX19580503 |
