Supplementary Figure 7: The number of MS indels for different changes in the number of alleles.
From: Analysis of somatic microsatellite indels identifies driver events in human tumors

The number of MS indels for STAD samples (broken to MSI-H, MSI-L and MSS) plotted for different numbers of germline and tumor alleles. MSMuTect not only detects the presence of a somatic MS indel, but also infers the actual alleles in both the germline and tumor samples. The upper row shows the number of MS indels for loci that had one allele in the germline and the lower row for two alleles in the germline. The columns represent the number of somatic MS indels alleles in the tumor (range from one to four). For example, the plot in the third column of the second row shows cases in which the germline has two alleles (ie. heterozygous sites) but the tumor sample has 3 alleles. MS indels are more common in MSI-H tumors in all settings except when the germline has two alleles but the tumor has only a single allele (bottom left corner), which reflects loss-of-heterozygosity (LOH). MSI designations (MSI-H, MSI-L, or MSS) are based on Bethesda gel classification (taken from TCGA). The y-axis scale varies across panels. The significance of the difference was calculated using one tailed t-test (ns- p>0.05, * p<0.05, ** p<10-3, *** p<10-8, **** p<10-16).