Mutational Signatures (v3.3 - June 2022)
SBS47 · GRCh37 · COSMIC v96
Mutational profile
Genome: GRCh37
Genome: GRCh38
Genome: mm9
Genome: mm10
Genome: rn6
Mutational profile using the conventional 96 mutation type classification. This classification is based on the six substitution subtypes: C>A, C>G, C>T, T>A, T>C, and T>G, as well as the nucleotides immediately 5’ and 3’ to the mutation.
Each of the substitutions is referred to by the pyrimidine of the mutated Watson—Crick base pair. Incorporating information on the bases immediately 5’ and 3’ to each mutated base generates 96 possible mutation types (6 types of substitution x 4 types of 5’ base x 4 types of 3’ base). Mutational signatures are displayed and reported based on the observed trinucleotide frequency of the genome, i.e., representing the relative proportions of mutations generated by each signature based on the actual trinucleotide frequencies of the corresponding reference genome.
Proposed aetiology
Possible sequencing artefact.
Comments
SBS47 was found in cancer samples that were subsequently blacklisted for poor quality of sequencing data.
Acceptance criteria
| Background | Identification study | First included in COSMIC | |
|---|---|---|---|
| Alexandrov et al. 2020 Nature | v3 | ||
| Identification | NGS technique | Different variant callers | Multiple sequencing centres |
| WES & WGS | Yes | Yes | |
| Technical validation | Validated in orthogonal techniques | Replicated in additional studies | Extended context enrichment |
| Yes | Yes | - | |
| Proposed aetiology | Mutational process | Support | |
| Sequencing artifact (blacklisted cancer samples for poor quality) | Statistical association | ||
| Experimental validation | Experimental study | Species | |
| - | - | ||
Summary of the technical and experimental evidence available in the scientific literature regarding the validation of the mutational signature.
Tissue distribution
Numbers of mutations per megabase attributed to the mutational signature across the cancer types in which the signature was found. Each dot represents an individual sample and only samples where the signature is found are shown. The number of mutations per megabase was calculated by assuming that an average whole-exome has 30 Mb with sufficient coverage, whereas an average whole-genome has 2,800 Mb with sufficient coverage.
The numbers below the dots for each cancer type indicate the number of high confidence tumours in which at least 10 mutations were attributed to the signature (above the blue horizontal line) and the total number of high confidence tumours analysed (below the blue horizontal line). Only high confidence data are displayed: samples with reconstruction accuracy >0.90. The number of mutations per megabase was calculated by assuming that an average exome has 30 Mb with sufficient coverage, whereas an average whole genome has 2,800 Mb with sufficient coverage.
Replication timing
Topography analysis could not be performed for replication timing as the number of mutations satisfying our constraints was insufficient or this signature was not yet analysed.
Nucleosome occupancy
Topography analysis could not be performed for nucleosome occupancy as the number of mutations satisfying our constraints was insufficient or this signature was not yet analysed.
CTCF occupancy
Topography analysis could not be performed for CTCF occupancy as the number of mutations satisfying our constraints was insufficient or this signature was not yet analysed.
Histone modifications
Topography analysis could not be performed for histone modifications as the number of mutations satisfying our constraints was insufficient or this signature was not yet analysed.
Transcriptional strand asymmetry
Topography analysis could not be performed for transcriptional strand asymmetry as the number of mutations satisfying our constraints was insufficient or this signature was not yet analysed.
Genic and intergenic regions
Topography analysis could not be performed for genic and intergenic region asymmetry as the number of mutations satisfying our constraints was insufficient or this signature was not yet analysed.
Replicational strand asymmetry
Topography analysis could not be performed for replicational strand asymmetry as the number of mutations satisfying our constraints was insufficient or this signature was not yet analysed.
Strand-coordinated mutagenesis
Topography analysis could not be performed for strand-coordinated mutagenesis as the number of satisfying our constraints was insufficient or this signature was not yet analysed.