To define "families" of inbred strains of mice we estimated the phylogenetic relationship for 480 inbred strains of mice using the APE (Analyses of Phylogenetics and Evolution) extension to the R language (results not shown).
Four chimeras are shown in figure 7. From the extensive amount of agouti fur in these mice, we estimated their overall ES cell contribution to be greater than 80%.
By examining the correlation between gene expression differences and haplotype allele differences in A/J and C57B/6 mice we estimated that haplotype differences accounted for 36% of expression differences and these were assumed to be cis regulated, although as noted above this is likely to be an underestimate.
Since these mice are bred Rag -/- Hoil +/- x Rag -/- Hoil +/- to generate WT and KO littermates and our current colony produces around 30 total pups per month, with 7-8 being WT and KO mice, we estimate that it will take 3-4 months and considerable expense to generate these data.
Based on the previous elegant studies conducted by Traurig [ 22, 23] and Bresciani [ 11, 24] to elucidate the mammary alveolar epithelial cell cycle duration in pregnant mice, we estimate that at least five to eight mammary epithelial cell cycles were completed in the mammary epithelium of the pregnant mice during the 8-day chase (days 4 to 13) after the [H]-thymidine pulse [ 11].
Quite apart from the fact that what you are requesting would be a large body of work, requiring an extended time, large numbers of mice (we estimate that we used >100 mice for the experiments presented, each housed for months while tumors developed) and considerable expense both for the mice and for the proteomics, we do not believe that these are the next essential questions.
Based on synonymous diversity and divergence between the brown rat and house mouse, we estimate that the recent effective population size in brown rats is approximately 130,000 (approximate 95% confidence interval 85,000-184,000), about fivefold lower than wild house mice.
For each pairwise human and mouse alignment, we estimated the number of non-synonymous substitutions per non-synonymous site (dN), the number of synonymous substitutions per synonymous site (dS), and the dN/dS ratio.
To examine whether sustained decrease of adult neurogenesis could lead to reduced number of total mature neurons and/or volume of the GCL of the hippocampus in APPSw,Ind mice, we next estimated the number of NeuN-positive (mature) neurons and volume of the DG.
From pairwise alignment data on human-mouse (hs_mm), human-rat (hs_rn) and mouse-rat (mm_rn), we estimated protein and cDNA identity as well as Ka and Ks rates between human and a common ancestor of mouse and rat (hs_rodent) using formula (1) for protein or cDNA identity given in percent and formula (2) for Ka or Ks rates.
If the majority of hCLSP in the human CNS is transported from the skin via the blood circulation across the blood-CSF or blood-brain barrier in a fashion similar to mice, we could estimate that endogenous hCLSP in the human CNS may reach a concentration sufficient for its protective activity.
