Clonal expansion, class-switched significant somatic mutation, and variation of local B lymphocyte and plasma cell maturation could occur within the skeletal muscle [ 35].
We used RNAsnp [ 33] program to assess the effect of single-point mutation on local mRNA secondary structure.
Two independent programs, remuRNA (Salari et al. 2013) and RNAsnp (Sabarinathan et al. 2013), were used to predict the effect of single-point mutation on local mRNA secondary structure.
Thus, while choosing candidate loci with similar divergence with D. simulans accounts for mutation rate heterogeneity to some degree, there remains some residual effect of local mutation rate on locus-specific patterns of polymorphism.
On the other hand, investigation of local mutation context reveals that Varscan2 missed them due mainly to ad hoc filtering of mutations near other variants such as co-segregating SNPs, multi-nucleotide variants or indels (Additional file 8).
We find significant but weak conservation of local mutation rates between human and mouse orthologs.
First, in theory, it could reflect a lack of local variation in mutation rate across the chicken genome.
It has long been known that recombinational repair of double-strand breaks in yeast is associated with an increased frequency of local mutations with implication of error-prone polymerases (Strathern et al., 1995).
These data demonstrate impaired T3 action in cartilage and bone in Thra mutant mice despite a normal systemic T3 concentration and thus indicate the skeletal phenotype in individuals with THRA mutations is a consequence of local resistance to thyroid hormone.
In summary, our retrospective study failed to confirm a significant correlation between KRAS, BRAF or PIK3CA mutations as predictive factors of local or distant recurrence, following preoperative RT/CT.
