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| Status |
Public on Mar 19, 2019 |
| Title |
Signal sequences in the viral genome regulate the generation of copy-back defective viral genomes |
| Organism |
Homo sapiens |
| Experiment type |
Expression profiling by high throughput sequencing
|
| Summary |
We developed VODKA (Viral Opensource DVG Key Algorithm) to identify cbDVGs from RNA-Seq data from infected samples and used these DVG sequences to identify signals that regulate cbDVG generation. We applied VODKA to datasets from RSV-positive patients. VODKA identified common cbDVGs across multiple samples in both patients, and predicted specific genomic loci that mediate cbDVG formation.
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| Overall design |
Total RNA was extracted from 2 RSV positive pediatric samples. RNAs were then used for preparation for the library used in RNA-seq to generate this dataset.
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| Contributor(s) |
Lopez C, Sun Y |
| Citation(s) |
30995283 |
| |
| Submission date |
May 25, 2018 |
| Last update date |
May 29, 2019 |
| Contact name |
Carolina B Lopez |
| E-mail(s) |
clopezzalaquett@wustl.edu
|
| Phone |
3142737026
|
| Organization name |
Washington University in St. Louis
|
| Street address |
425 S Euclid Ave
|
| City |
St Louis |
| State/province |
MO |
| ZIP/Postal code |
63110 |
| Country |
USA |
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| Platforms (1) |
| GPL18573 |
Illumina NextSeq 500 (Homo sapiens) |
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| Samples (4)
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| Relations |
| BioProject |
PRJNA473161 |
| SRA |
SRP149002 |
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