11 protocols
AccessionNameType
P-GSE45365-1
bioassay_data_transformation
ID_REF = VALUE = MAS 5.0 normalized value ABS_CALL =
P-GSE45365-7
feature_extraction
The data were MAS5.0 normalized in R and Bioconductor using the affy package.
P-GSE45365-6
image_aquisition
GeneChips were scanned using the Affymetrix GeneChip Scanner 3000.
P-GSE45365-11
hybridization
Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45°C on GeneChip Mouse Genome 430.2. GeneChips were washed and stained in the Affymetrix Fluidics Station 400 with the EukGE_WS2v5 protocol.
P-GSE45365-5
hybridization
Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45°C on GeneChip Mouse Genome 430.2 . GeneChips were washed and stained in the Affymetrix Fluidics Station 400 with the EukGE_WS2v5 protocol.
P-GSE45365-4
labeling
Except for sample A7 where only 8 ng was available, 50 ng of RNA from each sample was used to synthesize biotinylated probes, using 2 successive rounds of cRNA amplification with appropriate quality control to ensure full length synthesis according to standard Affymetrix protocols.
P-GSE45365-10
labeling
35 to 50 ng of RNA from each sample were used to synthesize biotinylated probes, using 2 successive rounds of cRNA amplification with appropriate quality control to ensure full length synthesis according to standard Affymetrix protocols.
P-GSE45365-8
specified_biomaterial_action
Mice were infected intraperitoneally with salivary gland-murine cytomegalovirus (5x10e4 pfu/mouse). Spleens were harvested at 36 hours post-infection and digested with collagenase (Liberase CI), erythrocytes were lysed with NH(4)Cl, and leukocytes were resuspended in PBS EDTA 5mM before sorting by flow cytometry.
P-GSE45365-9
nucleic_acid_extraction
Total RNA was extracted from between 5x10E4 and 3x10E6 cells for each leukocyte subset with the Qiagen micro RNAeasy kit, with on-column DNase digestion, according to the manufacturer protocol.
P-GSE45365-2
specified_biomaterial_action
Mice were infected intraperitoneally with salivary gland-murine cytomegalovirus (5x10e4 pfu/mouse). Spleens were harvested at 36 hours post-infection and digested with collagenase (Liberase CI), erythrocytes were lysed with NH(4)Cl, and leukocytes were resuspended in PBS EDTA 5mM before sorting by flow cytometry
P-GSE45365-3
nucleic_acid_extraction
Total RNA was extracted from between 5x10E4 and 3x10E6 cells for each leukocyte subset with the Qiagen micro RNAeasy kit, with on column DNase digestion, according to the manufacturer protocol.