Given that in the clinical setting the majority of MLH1 loss results from epigenetic modifications rather that the presence of mutations, we then stratified the IC50 data for cytarabine by MSI status, as MSI is present in the majority of dMMR tumours (Supplementary Table 2).
We stratified candidate mutations based on their functional class by giving a priority to frameshifts, stop codons, and disruptions of canonical splice sites variants [ 28].
As it was reported that the 9q31 HSCR susceptibility locus segregated exclusively in RET-linked families depleted of RET CDS mutations (Bolk et al. 2000b), we stratified the cases according to their RET CDS mutation status.
To dissect this observation further, we stratified for viral escape mutations by separating epitopes with high (>40%) sequence variability (IY9-Int, FY10-Int, FY10-Tat, RM9-p17, LI9-Int, IM9-Int, FL9-Vpr and HI10-Vif) and low (<40%) sequence variability (VF9-p24, TL9-p24 and TL10-Nef) (Table S1).
To evaluate the possibility that the mutation-testing strategy influences the performance of the models, we stratified the data according to type of gene sequencing results.
We stratified the 31 luminal-H tumors by their TP53 mutation status and used comparative-KC-SMART to compare both tumor groups.
Having now available mtDNA copy number and cigarette smoke habits on the same subjects, we stratified the mtDNA quantitative data by smokers/non-smokers in affected and unaffected mutation carriers, considering separately the SOA-BR family and the Italian cohort.
We stratified respondents using the standard cut-points.
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When we stratified patients with T242N according to CD4 strata we found a significant (p = 0.013) increase in numbers of compensatory mutations at lower CD4 counts, consistent with the rise in VRC.
