Where possible, we specifically searched for the presence of the same signature in the expression of orthologous mouse genes, when the associated LTR is absent in mice.
Primers were designed from common sequences in the rat and mouse genes and, when possible (multiexonic genes), spanning two consecutives exons to avoid interference from possible genomic DNA contamination.
Inactivation of the OGG1 gene may lead to a higher risk of cancer because cells with accumulated 8-OH-G adducts still retain the ability to proliferate and a substantial increase of spontaneous mutation frequencies has been clearly identified in the DNA of mutant mice, bearing transgenic gene when exposed to exogenous carcinogens or endogenous oxidative species [ 6].
However, there is a decrease in the number of genes that have a TA contig hit when using the Mouse gene set and a further drop when using Platypus.
When our mouse gene expression dataset was compared to an additional profiled cohort of human alcoholics [ 15], we consistently found a highly significant match among differentially expressed genes between the mouse and human models (84 common differentially expressed genes, P < 1 × 10-7, (Additional file 1: Figure S1B).
qPCR conditions were 45 cycles as follows: 95°C for 4 s, 62°C for 10 s, and 72°C for 30 s. Normalization was done according to beta-2 microglobulin housekeeping gene (selected for its constant expression in the tissues tested), or according to a standard dilution curve on a c-fos mouse gene-containing plasmid when comparing targets amplified with different primers.
They turned on the gene when the mice were 11 months old, the equivalent of 40 years in a person.
Primers were derived from different exons in the same gene, when the corresponding mouse genomic sequence was available at that time.
When the AKT mouse gene set was imported into GOMiner, 222 GO terms were found to be significantly associated (p ≤ 0.05) with the genes differentially expressed (see Additional File 8).
They showed that a gene connected to transport within the Chlamydomonas flagellum was a close relative of a mouse gene that causes a severe kidney disease when it is defective.
