|
| Status |
Public on Apr 24, 2024 |
| Title |
Hep2 cells infected with wt KOS (MOI 5) at 3 hpi synchronous infection replicate 1 |
| Sample type |
SRA |
| |
|
| Source name |
Human, Drosophila, and HSV-1 (KOS)
|
| Organisms |
Drosophila melanogaster; Homo sapiens; Human alphaherpesvirus 1 |
| Characteristics |
cell line: Hep2 Cells (human) S2 cells (Drosophila)
cell type: human epithelial cells arising from a HeLa cell line contaminant and late stage embryo Drosophila melanogaster cells
genotype: wt KOS HSV-1
treatment: infected at MOI 5 for 3 hours
|
| Treatment protocol |
Cells were infected at an MOI of 5
|
| Growth protocol |
Hep2 cells were grown in DMEM supplemented with 10% New Born Calf Serum
|
| Extracted molecule |
nuclear RNA |
| Extraction protocol |
Nuclei were extracted as previously published (Birkenheuer and Baines, 2018)
PRO-seq libraries were constructed using the protocol (doi: https://doi.org/10.1101/2020.05.18.102277)
Single End NextSeq550
|
| |
|
| Library strategy |
OTHER |
| Library source |
transcriptomic |
| Library selection |
other |
| Instrument model |
NextSeq 550 |
| |
|
| Description |
RNA was generated from a nuclear run on containing biotinylated nucleotides ATP, GTP, and CTP
|
| Data processing |
Pro-seq2 pipeline (https://github.com/Danko-Lab/proseq2.0)
Assembly: hg38, HSV-1 (F), Drosophila S2
Supplementary files format and content: bigwig files of read counts for each nt
Library strategy: PRO-Seq
|
| |
|
| Submission date |
Sep 07, 2023 |
| Last update date |
Apr 24, 2024 |
| Contact name |
Joel D Baines |
| E-mail(s) |
[email protected]
|
| Organization name |
Cornell University
|
| Street address |
235 Hungerfordhill Rd
|
| City |
Ithaca |
| State/province |
NY |
| ZIP/Postal code |
14853 |
| Country |
USA |
| |
|
| Platform ID |
GPL29914 |
| Series (1) |
| GSE242636 |
Aberrant RNA polymerase Initiation and Processivity on the Genome of a Herpes Simplex Virus 1 Mutant Lacking ICP27 |
|
| Relations |
| BioSample |
SAMN37316690 |
| SRA |
SRX21662426 |
