Table 1.
Cancer variation database: a list of available cancer variation databases including web links
| Database | URL | Gene(s) | Mutation type | Remark |
|---|---|---|---|---|
| BLMbase | http://bioinf.uta.fi/BLMbase | BLM | Germline | |
| CASP10base | http://bioinf.uta.fi/CASP10base | CASP10 | Germline | |
| CASP8base | http://bioinf.uta.fi/CASP8base | CASP8 | Germline | |
| Catalog of Somatic Mutations in Cancer (COSMIC) | http://www.sanger.ac.uk/genetics/CGP/cosmic/ | >13 500 | Somatic | |
| Fanconi Anemia Mutation Database | http://www.rockefeller.edu/fanconi/mutate/ | FANCA, FANCB, FANCC, FANCD1, FANCD2, FANCE, FANCF, FANCG, FANCI, FANCJ, FANCL, FANCM, FANCN | ||
| Genetic Alterations in Cancer DB (GAC) | http://www.niehs.nih.gov/research/resources/databases/gac/ | 32 cancer genes | Somatic, germline | |
| HNPCC database | http://www.insight-group.org/ | APC, EPCAM, MUTYH, MSH2, MSH6, MLH1, MLH3, PMS1, PMS2 | ||
| Human Genome Variation and Genotype/Phenotype Database (HGVbaseG2 P) | http://www.hgvbaseg2p.org/index | Germline | ||
| IARC TP53 database | http://www-p53.iarc.fr/ | TP53 | Somatic, germline | |
| International HapMap Project | http://www.hapmap.org/ | SNP | ||
| KinMutBase | http://bioinf.uta.fi/KinMutBase/ | Protein kinases | Germline | |
| LOVD-ATM | http://www.LOVD.nl/ATM | ATM | Germline | Uses Leiden Open Variation Database |
| LOVD-B3GALTL | http://www.LOVD.nl/B3GALTL | B3GALTL | Germline | Uses Leiden Open Variation Database |
| LOVD-BRCA2 | http://www.LOVD.nl/BRCA2 | BRCA2 | Germline | Uses Leiden Open Variation Database |
| LOVD-FANCA | http://www.LOVD.nl/FANCA | FANCA | Germline | Uses Leiden Open Variation Database |
| LOVD-FANCB | http://www.LOVD.nl/FANCB | FANCB | Germline | Uses Leiden Open Variation Database |
| LOVD-FANCC | http://www.LOVD.nl/FANCC | FANCC | Germline | Uses Leiden Open Variation Database |
| LOVD-FANCD2 | http://www.LOVD.nl/FANCD2 | FANCD2 | Germline | Uses Leiden Open Variation Database |
| LOVD-FANCE | http://www.LOVD.nl/FANCE | FANCE | Germline | Uses Leiden Open Variation Database |
| LOVD-FANCF | http://www.LOVD.nl/FANCF | FANCF | Germline | Uses Leiden Open Variation Database |
| LOVD-FANCG | http://www.LOVD.nl/FANCG | FANCG | Germline | Uses Leiden Open Variation Database |
| LOVD-FANCL | http://www.LOVD.nl/FANCL | FANCL | Germline | Uses Leiden Open Variation Database |
| LOVD-MUTYH | http://www.LOVD.nl/MUTYH | MUTYH | Germline | Uses Leiden Open Variation Database |
| LOVD-NOTCH3 | http://www.LOVD.nl/NOTCH3 | NOTCH3 | Germline | Uses Leiden Open Variation Database |
| LOVD-NROB1 | http://www.LOVD.nl/NROB1 | NROB1 | Germline | Uses Leiden Open Variation Database |
| LOVD-OTC | http://www.LOVD.nl/OTC | OTC | Germline | Uses Leiden Open Variation Database |
| LOVD-TSC1 | http://www.LOVD.nl/TSC1 | TSC1 | Germline | Uses Leiden Open Variation Database |
| LOVD-TSC2 | http://www.LOVD.nl/TSC2 | TSC2 | Germline | Uses Leiden Open Variation Database |
| MDL EGFR Mutation Database | http://www.egfr.org/ | EGFR | Somatic, germline | |
| Mismatch Repair Genes Variant Database | http://www.med.mun.ca/mmrvariants/ | MSH2,MSH6,MLH1,PMS2 | Germline | |
| NCBI dbSNP | http://www.ncbi.nlm.nih.gov/projects/SNP/ | SNP | ||
| Online Mendelian Inheritance in Man (OMIM) | http://www.ncbi.nlm.nih.gov/sites/entrez?db=omim | All genes | Germline | |
| PTCH Mutation Database | http://www.cybergene.se/PTCH/ | PTCH | Somatic, germline | |
| Roche Cancer Genome Database (RCGDB) | http://rcgdb.bioinf.uni-sb.de/MutomeWeb | >10 000 | Somatic, SNP | |
| The Cancer Genome Atlas (TCGA) | http://cancergenome.nih.gov/ | >400 | Somatic, germline | Login for TCGA Data Portal necessary, more disease to come |
| The Human Gene Mutation Database (HGMD) | http://www.hgmd.cf.ac.uk/ac/index.php | 2572 | Somatic, germline | Commercial license: 3611 genes |
| The TP53 database | http://p53.free.fr/ | TP53 | Somatic, germline | |
| TSH Receptor mutation database | http://www.uni-leipzig.de/innere/tsh/ | TSHR | Somatic, germline | |
| UMD-APC | http://www.umd.be/APC/ | APC | Germline | |
| UMD-BRCA1 | http://www.umd.be/BRCA1/ | BRCA1 | Germline | Restricted access |
| UMD-BRCA2 | http://www.umd.be/BRCA2/ | BRCA2 | Germline | Restricted access |
| UMD-MEN1 | http://www.umd.be/MEN1/ | MEN1 | Germline | |
| UMD-VHL | http://www.umd.be/VHL/ | VHL | Germline | |
| UML-TGFBR2 | http://194.167.35.228/TGFBR2/ | TGFBR2 | Germline | |
| University of Groningen L1CAM Mutation DB | http://www.l1cammutationdatabase.info/ | L1CAM | Somatic | |
| WASbase | http://bioinf.uta.fi/WASbase | WASP | Germline | |
| Werner Syndrome Mutational Database | http://www.pathology.washington.edu/research/werner/database/ | WRN | Germline |
For each database the type of mutations as well as the genes have been covered.