Fig. 3: Performance on pRCC and ESCA samples.
From: Using sigLASSO to optimize cancer mutation signatures jointly with sampling likelihood
a Signature assignment for 35 WGS pRCC samples. Bar plots show the fractions of mutation signature assignment for each sample using sigLASSO, sigLASSO without prior knowledge and deconstructSigs, and simple non-negative regression. b A dot chart showing the mean fraction of mutation signatures in each sample. Signatures that contributed <0.05 are grouped into others. c Subsampling (10 times each size, with no replacement) of 30 WGS pRCC samples that have more than 3000 mutations. The left panel shows the fraction of signature-fitted mutations. Results using all mutations are shown in box. The right panel shows the agreement (mean fraction of the consensus after binarizing whether a signature exists or not) among the methods. All p ≤ 2 × 10−6 (paired two-sided Wilcox test between sigLASSO (and sigLASSO, no prior) and deconstructSigs). Box edges are the 25th and 75th percentiles and whiskers indicate the 1.5Ă— IQR or max/min, which ones are smaller. d A dot chart showing the mean fraction of mutation signatures in each sample, grouped by two tools and histological subtypes (adenocarcinoma/squamous). Signatures that contributed individually <0.05 in all four cases are grouped into "others''.
