Tissue Subtissue Histology Subhistology TS Total mutations Total SN % SN A)Large Intestine colon carcinoma adenocarcinoma             p53 455 28 6% APC 618 127 21% ATM 174 18 10% PTEN 227 19 8% B)Large Intestine Brain glioma All p53   17 5%   CDKN2A 39 3 8% PTEN 347 34 10% C) Lung   carcinoma All p53 733 65 9%         CDKN2A 103 11 11%         Rb1 128 42 33% D) Lung   carcinoma adenocarcinoma p53 314 36 11%     Stk11 116 25 22%   CDKN2A 47 4 9% E) Skin   malignant melanoma All CDKN2A 119 17 14%   p53 75 9 12% PTEN 95 11 12% F) Skin   carcinoma basal cell carcinoma p53 121 9 7%   PTCH1 215 50 23% G) Skin   carcinoma squamous cell carcinoma p53 121 17 14%   CDKN2A 26 7 27% NOTCH1 18 5 28% NOTCH2 20 4 20% H) Liver   Hepato-cellular carcinoma   p53 343 33 10%     CDKN2A 31 5 16% I) Mammary   carcinoma All p53 835 49 6% J) Salivary gland   carcinoma All p53 31 2 6% K) Aerodigestive tract mouth squamous cell carcinoma   p53 322 31 10% CDKN2A 45 10 22% Notch 1 24 5 21% (L) Pancreas   carcinoma All p53 262 24 9%       CDKN2A 101 12 12% M) Haematopoietic Haematopoietic and lymphoid malignancies   AML Tet2 384 99 26% CML CDKN2A 12 1 8%   Tet2 7 1 14% Myelodysplastic syndrome Tet2 206 56 27% Footnote: In (A), under COSMIC tissue selection large Intestine is selected, thence colon subtissue and carcinoma histology and adenocarcinoma subhistology. In (B), under COSMIC tissue selection central nervous system is selected, thence brain subtissue and glioma histology and select ‘all’ for subhistology. In (C), under COSMIC tissue selection select lung, thence ‘all’ subtissue, thence under histology carcinoma is selected thence, ‘all’ for subhistology. In (D), under COSMIC tissue selection select lung, thence ‘all’ subtissue thence carcinoma for histology thence under subhistology select adenocarcinoma. In (E), under COSMIC tissue selection select skin, thence ‘all’ subtissue sites thence malignant melanoma histology thence ‘all’ subhistologies. In (F), under COSMIC tissue selection also select skin, thence ‘all’ subtissue sites and thence under histology select carcinoma, thence under subhistology select basal cell carcinoma. In (G), under COSMIC tissue selection also select skin, thence ‘all’ subtissue sites and thence under histology select carcinoma, thence under subhistology select squamous cell carcinoma. In (H), under COSMIC tissue selection select liver and under subtissue sites select ‘all’, thence under histology select carcinoma and thence under subhistology select hepatocellular carcinoma. In (I), under COSMIC tissue selection select breast thence subtissue select ‘all’, thence under histology select carcinoma thence under subhistology select ‘all’. In (J), under COSMIC tissue select salivary gland and ‘all’ as subtissue and thence carcinoma as histology thence ‘all’ as subhistology. In (K), under COSMIC tissue select upper aerodigestive tract thence mouth as subtissue, thence carcinoma as histology thence under subhistology select squamous cell carcinoma. In (L), under COSMIC tissue select pancreas thence subtissue select ‘all’, thence under histology select carcinoma, thence ‘all’ subhistologies. In (M), under COSMIC tissue select haematopoietic and lymphoid tissue thence ‘all’ under subtissue selection thence haematopoietic neoplasm under histology selection thence under subhistology select acute myeloid leukaemia (AML), chronic myeloid leukaemia (CML) or myelodysplastic syndrome.

Table 1: COSMIC (Catalogue of Somatic Mutations in Cancer) analysis showing the frequency of substitution nonsense (SN) mutations from a range of cancers. The selected TS (Tumour Suppressors) are those presenting with mutations that are within the category of the most frequently altered genes for each indicated cancer. Designations (for example, subtissue and subhistology) are as annotated on COSMIC. Total mutations represent deletions/frameshift/insertions/missense/substitution nonsense in toto for the indicated TS gene for the particular cancer/histology type as per COSMIC. The percentage of the total alterations for the indicated TS and histologytype that are SN is presented in the last column. COSMIC data extracted July, 2013.

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