 |
 |
GEO help: Mouse over screen elements for information. |
|
Status |
Public on Jul 19, 2018 |
Title |
Relative accessability of HSV1 genomic DNA compared with its host cell (ATAC-seq) |
Organisms |
Homo sapiens; Human alphaherpesvirus 1 strain KOS |
Experiment type |
Other
|
Summary |
To compare the relative accessability of HSV1 DNA compared with its host DNA, we performed ATAC-seq analysis.
|
|
|
Overall design |
Cells were left uninfected; infected for 2, 4, or 6 hours; or infected for 6 hours in the presence of phosphonoacetic acid to prevent genome replication. ATAC-seq was performed as per standard published protocols.
|
|
|
Contributor(s) |
McSwiggen DT, Tjian R, Darzacq X |
Citation(s) |
31038454 |
|
Submission date |
Jul 18, 2018 |
Last update date |
May 29, 2019 |
Contact name |
David Trombley McSwiggen |
Organization name |
University of California Berkeley
|
Department |
Molecular and Cell Biology
|
Lab |
Tjian
|
Street address |
470 Li Ka Shing Center
|
City |
Berkeley |
State/province |
CA |
ZIP/Postal code |
97406 |
Country |
USA |
|
|
Platforms (1) |
GPL25348 |
Illumina HiSeq 2500 (Homo sapiens; Human alphaherpesvirus 1 strain KOS) |
|
Samples (15)
|
GSM3291176 |
HSV1 infected, 6hpi, pooled replicates |
GSM3291177 |
HSV1 infected with PAA, 6hpi, pooled replicates |
GSM3291178 |
U2OS Uninfected, Replicate 1 |
GSM3291179 |
HSV1 infected, 2hpi, Replicate 1 |
GSM3291180 |
HSV1 infected, 4hpi, Replicate 1 |
GSM3291181 |
HSV1 infected, 6hpi, Replicate 1 |
GSM3291182 |
HSV1 infected with PAA, 6hpi, Replicate 1 |
GSM3291183 |
U2OS Uninfected, Replicate 2 |
GSM3291184 |
HSV1 infected, 2hpi, Replicate 2 |
GSM3291185 |
HSV1 infected, 4hpi, Replicate 2 |
GSM3291186 |
HSV1 infected, 6hpi, Replicate 2 |
GSM3291187 |
HSV1 infected with PAA, 6hpi, Replicate 2 |
|
Relations |
BioProject |
PRJNA481773 |
SRA |
SRP154375 |
Supplementary file |
Size |
Download |
File type/resource |
GSE117335_RAW.tar |
6.2 Gb |
(http)(custom) |
TAR (of BW, TXT) |
SRA Run Selector |
Raw data are available in SRA |
Processed data provided as supplementary file |
|
|
|
|
 |