|
| Status |
Public on Aug 01, 2011 |
| Title |
endo cells, mock infected, rep3 |
| Sample type |
RNA |
| |
|
| Source name |
TIME cells, mock infected
|
| Organism |
Homo sapiens |
| Characteristics |
cell type: tert-immoralized microvascular endothelial cells
infection: mock
|
| Treatment protocol |
TIME cells were HHV-8 or mock infected in the presence of polybrene for 3 hours and then the innoculum was washed off and the cells were overlayed with complete endothelial cell media. After 48 hours cells were harvested.
|
| Growth protocol |
Tert-immortalized dermal microvascular endothelial cells (TIME cells) are described in Venetsanakos et al (2002) and were maintained in EBM-2 bullet kits from Lonza
|
| Extracted molecule |
total RNA |
| Extraction protocol |
TRizol (Invitrogen), DNase treatment and RNeasy Mini Kit (Qiagen).
|
| Label |
biotin
|
| Label protocol |
Labeling, hybridization and scanning were performed as per Affymetrix GeneChip® Whole Transcript (WT) Sense Target Labeling Assay Manual version 4 (P/N 701880 Rev 4).
|
| |
|
| Hybridization protocol |
Labeling, hybridization and scanning were performed as per Affymetrix GeneChip® Whole Transcript (WT) Sense Target Labeling Assay Manual version 4 (P/N 701880 Rev 4).
|
| Scan protocol |
Labeling, hybridization and scanning were performed as per Affymetrix GeneChip® Whole Transcript (WT) Sense Target Labeling Assay Manual version 4 (P/N 701880 Rev 4).
|
| Data processing |
Data were analyzed using aroma.affymetrix. Signal intensity was background corrected using the RMA algorithm and quantile normalized. Gene-level summaries were computed by fitting the data using the RMA probe-level model (RmaPlm).
|
| |
|
| Submission date |
Feb 08, 2011 |
| Last update date |
Sep 01, 2016 |
| Contact name |
Lynn M Amon |
| E-mail(s) |
lynn.amon@cidresearch.org
|
| Organization name |
Fred Hutchinson Cancer Research Center
|
| Department |
Division of Public Health Sciences
|
| Lab |
Computation Biology Program
|
| Street address |
1100 Fairview, M1-C108
|
| City |
Seattle |
| State/province |
WA |
| ZIP/Postal code |
98109-1024 |
| Country |
USA |
| |
|
| Platform ID |
GPL6244 |
| Series (1) |
| GSE27136 |
Expression changes in cultured endothelial cells upon infection with HHV-8 |
|
| Relations |
| Reanalyzed by |
GSE86357 |
