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Protocols

COSMIC specifications

Information


Unique identifier OMICS_00082
Name COSMIC
Alternative name Catalogue Of Somatic Mutations In Cancer
Restrictions to use Academic or non-commercial use
Community driven No
Data access File download, Browse
User data submission Allowed
Version 86
Content license CC Attribution-NonCommercial
Maintained Yes

Taxon


  • Primates
    • Homo sapiens

Documentation


Maintainers


  • person_outline COSMIC Team
  • person_outline John Tate

Additional information


http://cancer.sanger.ac.uk/cosmic/about A beta version is available at http://cancer-beta.sanger.ac.uk/cosmic.

Publications for Catalogue Of Somatic Mutations In Cancer

library_books

COSMIC 2005

2006 Br J Cancer
PMCID: 2361125
PMID: 16421597
DOI: 10.1038/sj.bjc.6602928

COSMIC citations

 (94)
library_books

Clinical application of targeted next generation sequencing for colorectal cancer patients: a multicentric Belgian experience

2018
Oncotarget
PMCID: 5945518
PMID: 29755687
DOI: 10.18632/oncotarget.25099

[…] , ]. Moreover, each mutation was verified in the Integrative genome viewer (IGV) from the Broad Institute (http://www.broadinstitute.org/igv/). Only mutations reported in the COSMIC (Sanger Institute Catalogue of Somatic Mutations in Cancer) database (http://www.sanger.ac.uk/cosmic) were taken into account, and silent or intronic mutations were not reported. A case was considered to be without mut […]

library_books

Helicase like transcription factor expression is associated with a poor prognosis in Non Small Cell Lung Cancer (NSCLC)

2018
BMC Cancer
PMCID: 5902896
PMID: 29661164
DOI: 10.1186/s12885-018-4215-y

[…] ata from The Cancer Genome Atlas (TCGA) project and other cancer genome profiling initiatives (http://www.cbioportal.org/public-portal). Additional cancer genome profiling data were obtained from the Catalogue of Somatic Mutations in Cancer (http://cancer.sanger.ac.uk/cosmic; []).To obtain gene expression estimates for individual mRNA forms, paired-end RNAseq raw read data from the TCGA project we […]

library_books

Sensitivity to sequencing depth in single cell cancer genomics

2018
Genome Med
PMCID: 5901877
PMID: 29661213
DOI: 10.1186/s13073-018-0537-2

[…] eplicates that were also identified in the original single-cell datasets (“somatic precision”). In addition, we repeated the recall analysis focusing only on the somatic SNVs already described in the Catalogue Of Somatic Mutations In Cancer (COSMIC) database [] and on the non-synonymous SNVs previously detected (Additional file : Table S2).Single-cell copy-number variants (CNVs) were identified wi […]

library_books

Metaplastic breast cancer in a patient with neurofibromatosis type 1 and somatic loss of heterozygosity

2018
PMCID: 5880258
PMID: 29449315
DOI: 10.1101/mcs.a002352

[…] aSVM, MutationAssessor, Condel, and CADD.Somatic SNVs were annotated using ANNOVAR (). Their prior identification was checked using databases including ENSEMBL (http://www.ensembl.org), dbSNP snp150, Catalogue of Somatic Mutations in Cancer hg19 v. 68 (COSMIC; http://cancer.sanger.ac.uk/cosmic), and Cancer Driver Log (CanDL; http://candl.osu.edu/contact) ().To calculate the VAF for each SNV identi […]

library_books

Expanding horizons: new roles for non canonical RNA binding proteins in cancer

2018
PMCID: 5894799
PMID: 29216518
DOI: 10.1016/j.gde.2017.11.006

[…] potential roles in cancer, we compared the census of human RBPs collected in system-wide studies by RNA interactome capture (RNA-IC) [] and RBDmap [] with cancer-associated proteins annotated in the Catalogue of Somatic Mutations in Cancer (COSMIC) cancer gene census list [], Online Mendelian Inheritance in Man (OMIM) [], or related processes in Gene Ontology (GO) []. RNA-IC employs ultraviolet c […]

library_books

HER2 is not a cancer subtype but rather a pan cancer event and is highly enriched in AR driven breast tumors

2018
PMCID: 5791377
PMID: 29382369
DOI: 10.1186/s13058-018-0933-y

[…] sis Toolkit (GATK) for variant calling. Tumor-specific variants were obtained by comparing tumor and matched normal, excluding polymorphic variants from dbSNP version 132 that are not reported in the Catalogue of Somatic Mutations in Cancer (COSMIC) database.Infinium HumanMethylation450 Beadchip methylation data are from NCI's Genomic Data Commons (https://gdc.cancer.gov). Data were processed with […]

Citations

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COSMIC institution(s)
Wellcome Sanger Institute, Wellcome Genome Campus, Hinxton, Cambridge, UK; Astex Pharmaceuticals, Cambridge, UK; Open Targets, Wellcome Genome Campus, Hinxton, Cambridge, UK
COSMIC funding source(s)
Supported by the Wellcome Trust grant [206194]; AstraZeneca, Astex Pharmaceuticals, Bayer Pharmaceuticals and Open Targets.

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