5 protocols
AccessionType
bioassay_data_transformation
Matrix table containing normalized log ratio (sample/reference) data:

Data analysis performed using R package limma. Normalization using background correction, within array (loess) and between arrays (aquantile) normalization. Log expression ratio for each sample as average over technical replicates.
bioassay_data_transformation
Data normalized performed with R package limma using background correction, within array (loess) and between arrays (aquantile) normalization.
nucleic_acid_extraction
Quiagen RNAeasy kit
(Parameters: Extracted product = genomic_DNA, Amplification = none)
specified_biomaterial_action
Inhalation of mice with AdCre viruses was performed as previously reported(Jackson, E. L. Analysis of lung tumor initiation and progression using conditional expression of oncogenic K-ras. Genes & Development 15, 3243-3248 (2001).. In brief, experimental animals were anesthetized with 10% Ketasol/Xylasol and placed on a heated pad. An AdCre-CaCl2 precipitate was produced by mixing 60 ?l MEM, 2.5 ?l AdCre (1010 pfu/ml; University of Iowa, Gene Transfer Vector Core Iowa, USA) and 0.6 ?l CaCl2 (1 M) for each mouse and incubated for 20 min at room tempera­ture (21-22 C). AdCre was administered through intranasal instillation.( Schramek, D. et al. The stress kinase MKK7 couples oncogenic stress to p53 stability and tumor suppression. Nature Genetics 43, 212-219 (2011).
pool
equal mixture of experimental samples