|
Status |
Public on Feb 16, 2012 |
Title |
4 hrs post-infection |
Sample type |
RNA |
|
|
Channel 1 |
Source name |
Infected NIH 3T3 fibroblasts
|
Organism |
Mus musculus |
Characteristics |
infection: murid herpesvirus 4 (MHV68 WUMS strain) timepoint: 4 hrs timepoint: 8 hrs reference
|
Treatment protocol |
Cells were infected in MHV68 WUMS strain at multiplicity of infection of 10 plaque forming units per ml.
|
Growth protocol |
NIH 3T3 fibroblasts were cultured in DMEM supplemented in 10% serum.
|
Extracted molecule |
total RNA |
Extraction protocol |
Total RNA was prepared using "Qiagen RNeasy midi Kit" following manufacturer's instructions.
|
Label |
Cy3
|
Label protocol |
1.0 µg of total RNA were labeled using Aglient “Quick Amp Labeling Kit Two-color” following manufacturer's instructions. Spike-in controls were labeled using Agilent “Two-color Spike-in Kit" following manufacturer's instructions.
|
|
|
Channel 2 |
Source name |
Infected NIH 3T3 fibroblasts
|
Organism |
Mus musculus |
Characteristics |
infection: murid herpesvirus 4 (MHV68 WUMS strain)
|
Treatment protocol |
Cells were infected in MHV68 WUMS strain at multiplicity of infection of 10 plaque forming units per ml.
|
Growth protocol |
NIH 3T3 fibroblasts were cultured in DMEM supplemented in 10% serum.
|
Extracted molecule |
total RNA |
Extraction protocol |
Total RNA was prepared using "Qiagen RNeasy midi Kit" following manufacturer's instructions.
|
Label |
Cy5
|
Label protocol |
1.0 µg of total RNA were labeled using Aglient “Quick Amp Labeling Kit Two-color” following manufacturer's instructions. Spike-in controls were labeled using Agilent “Two-color Spike-in Kit" following manufacturer's instructions.
|
|
|
|
Hybridization protocol |
300 ng linearly amplified cRNA and hybridization buffer were added, and samples were applied to microarrays at 65 degrees C for 17 hrs.
|
Scan protocol |
Images were quantified using Agilent Feature Extraction Software (version 9.5.3.1).
|
Description |
Custom tiled microarray
|
Data processing |
Agilent Feature Extraction Software (v 9.5.3.1) was used for background subtraction and Agilent default normalization. Spike-in controls were used to calculate scale factor.
|
|
|
Submission date |
Feb 16, 2012 |
Last update date |
Feb 16, 2012 |
Contact name |
Laurie Krug |
Organization name |
Stony Brook University
|
Department |
Molecular Genetics and Microbiology
|
Street address |
130 Life Sciences Bldg
|
City |
Stony Brook |
State/province |
NY |
ZIP/Postal code |
11794 |
Country |
USA |
|
|
Platform ID |
GPL15244 |
Series (2) |
GSE35863 |
Tiled Array Experiment of Murine Gammaherpesvirus 68 Transcripts In Newly Infected Fibroblasts |
GSE35866 |
Tiled Microarray Identification of Novel Viral Transcript Structures and Distinct Transcriptional Profiles During Two Modes of Productive Murine Gammaherpesvirus 68 Infection. |
|