In cases where a gene symbol has not yet been made official, a provisional symbol has been adopted which is denoted by lower-case letters. The local (homogenous) patient cohort always provides significantly higher mutation frequencies than the COSMIC database, suggesting that there must be geographical differences, even in this high incidence rates (> 80% … 2017; Histone mutations across cancer types We have constructed an integrated biological information system termed the Roche Cancer Genome Database (RCGDB) … The table below gives an overview of databases for that serve specifically for oncogenomic research. The mutation data are collected from the Gene Expression Omnibus (GEO) and the Pediatric Cancer Genome Project (PCGP), whereas the miRNA data are from miRBase release 18. Mutations 203,003,747 Drivers 568 IntOGen collects and analyses somatic mutations in thousands of tumor genomes to identify cancer driver genes. The aim of the site is to provide comprehensive links to reliable information about genes, their associated proteins, and genetic mutations associated with cancer and related disorders. Flags genomic biomarkers of drug response with different levels of clinical relevance. If you want to exercise your right to be forgotten, please send us an email to Note that this is not a comprehensive list and does not contain databases that have a generic focus. About the database: SomamiR is a database of cancer somatic mutations in microRNAs (miRNA) and their target sites that potentially alter the interactions between miRNAs and competing endogenous RNAs (ceRNA) including mRNAs, circular RNAs (circRNA) and long noncoding RNAs (lncRNA). Identifying driver mutations in a patient’s tumor cells is a central task in the era of precision cancer medicine. The database is the publication site for (some of) its cancer raw data, The database contains cancer data at a certain level of analysis (non-raw data), The database also contains cell line data, The database contains cancer data that is available for everyone, The database contains cancer data that is only available under some restriction, Learn how and when to remove this template message, Catalogue Of Somatic Mutations In Cancer (COSMIC), Integrative Oncogenomics Cancer Browser (IntOGen), Mouse Retrovirus Tagged Cancer Gene Database, National Cancer Institute's List of Datasets and Databases, https://en.wikipedia.org/w/index.php?title=List_of_databases_for_oncogenomic_research&oldid=961578612, Cleanup tagged articles without a reason field from May 2011, Wikipedia pages needing cleanup from May 2011, Creative Commons Attribution-ShareAlike License, Compendia Bioscience, Inc., United States, This page was last edited on 9 June 2020, at 08:12. The largest of these is the Catalogue of Somatic Mutations in Cancer (COSMIC), that contains manually curated data from the cancer literature comprising approximately 9.7 million coding mutations from approximately 1.4 million samples (including ∼34,000 whole genomes; ref. Databases for oncogenomic research are biological databases dedicated to cancer data and oncogenomic research. You may find databases containing cancer data among the List of biological databases or Microarray databases. Cancer Mutation Databases. They can be a primary source of cancer data, offer a certain level of analysis (processed data) or even offer online data mining. bbglab@irbbarcelona.org. What does Cancer Genome Interpreter do? Each gene page includes links to major genetic databases and where possible links to other related web sites, abstracts references, external searches, and summary information. BRCA1 and BRCA2 mutations in ovarian cancer; POLE hotspot mutations in endometrial cancer; TP53 and MDM2/4 alterations in GBM; PTEN mutations in GBM in text format; Patient view of an endometrial cancer case; All TCGA Pan-Cancer; MSK-IMPACT clinical cohort, Zehir et al. The Cancer Gene Census (CGC) is an ongoing effort to catalogue those genes which contain mutations that have been causally implicated in cancer and explain how dysfunction of these genes drives cancer. Mutation Database. Databases for oncogenomic research are biological databases dedicated to cancer data … title = "The Inherited Cancer Connect (ICCON) mutation-carrier database", author = "P.A. Gene NF2 NF2 Mutation is present in 1.22% of AACR GENIE cases, with lung adenocarcinoma, colon adenocarcinoma, bladder urothelial carcinoma, meningioma, and endometrial endometrioid adenocarcinoma having the greatest prevalence [ 4 ]. Through collaborations with the Huntsman Cancer Institute (HCI), and with the WHO International Agency for Research on Cancer (IARC), the University of Utah Department of Pathology and ARUP Laboratories are pleased to host the BRCA mutation database. Breast Cancer Information Core - An on-line breast cancer mutation database. Keeping this in mind, we have developed a database "CancerDR", which provides information of 148 anti-cancer drugs, and their pharmacological profiling across 952 cancer cell lines. Nevertheless, not all mutations are oncogenic because many mutations can be the result of broken DNA repair systems or expositions to mutagens (2, 3). See detailed information on database contents in the user's guide. COSMIC, an acronym of Catalogue Of Somatic Mutations In Cancer, curates data from papers in the scientific literature and large scale experimental screens from the Cancer Genome Project at the Sanger … There is a discrepancy between the high rates of KRAS mutations in pancreatic cancer by comparing the COSMIC database and individual large cohort reports. Please, fill the information and accept the terms to proceed. 36). In contrast, there is no database focusing on experimentally confirmed passenger mutations yet available. The Web site includes the database (requires registration), laboratory methods, forum and resources. Using a database that catalogs clinically actionable mutations, they found that 37% of patients had at least one clinically actionable mutation. The 2017 release of the UMD_TP53 database is a major update that takes into account novel issues related to the structure of the TP53 gene, TP53 isoforms, mutation nomenclature and the release of the sequence of more than 5,000 tumor samples from 12 cancer types. This joint effort between the National Cancer Institute and the National Human Genome Research Institute began in 2006, bringing together researchers from diverse disciplines and multiple institutions. The content, the structure, and the curation process of the Cancer Gene Census was described and published in Nature Reviews Cancer . Keep in mind, that we will delete all the information from all the tools. The initiation and subsequent evolution of cancer are largely driven by a relatively small number of somatic mutations with critical functional impacts, so-called driver mutations. Cancer is a genetic disease in which mutations accumulate (1). More than 50% of human tumors carry TP53 gene mutations and in consequence more than 45,000 somatic and germline mutations have been gathered in the UMD TP53 database (http://p53.fr). The Cancer Genome Atlas (TCGA), a landmark cancer genomics program, molecularly characterized over 20,000 primary cancer and matched normal samples spanning 33 cancer types. SomamiR is a database created to investigate the association of somatic and germline mutations with miRNA function in cancer. The core of COSMIC, an expert-curated database of somatic mutations Cell Lines Project Mutation profiles of over 1,000 cell lines used in cancer research COSMIC-3D An interactive view of cancer mutations in the context of 3D structures Cancer Gene Census An Open Access On-Line Breast Cancer Mutation Data Base An International Collaborative Effort hosted by NHGRI The recent identification of mutations in breast cancer susceptibility genes has provided the exciting opportunity to help identify women who are at high risk to develop breast cancer. Top Disease Cases with NF2 Mutation Analyses of these mutations have been invaluable for bettering our knowledge on the structure-function relationships within the TP53 protein and the high degree of heterogeneity of the various TP53 … Hand-curation of key cancer genes (selected from the Cancer Gene Census) provide in-depth detail on mutation distributions and effects, whilst semi-automated curation of cancer genomes provides broad somatic annotations toward target discovery and identification of patterns and signatures.This information is fully available via website or download, updated every three months. If you are interested in installing a local instance of CGI, contact us. An alteration may be a cancer “driver,” but it may not be actionable if there is no existing therapy that targets it. Cancer is a disease of genome alterations that arise through the acquisition of multiple somatic DNA sequence mutations. James and L Petelin and I Campbell and Hugh Dawkins and S Fox and J Hiller and J Kirk and G Lindeman and F Macrae and L Mascarenhas and J Mcgaughran and B Meiser and A Morrow and C Nichols and N Pachter and C Saunders and C Scott and N Poplawski and L Thrupp and A Trainer and R Ward and … Therefore, it is fundamental to distinguish between oncogenic driver mutations and random passenger mutations. Data are compiled from the peer-reviewed literature and from generalist databases. GEMiCCL (Gene Expression and Mutations in Cancer Cell Lines) is an online database of human cancer cell lines that provides genotype and expression information. Some of these mutations can be critical for the development of a tumor and can be useful to characterize tumor types or predict outcome. My aim is to find genes that are re... Metabolic gene database: The most-frequently mutated metabolic genes in human cancers . Flags genomic biomarkers of drug response with different levels of clinical relevance. IARC TP53 DATABASE. Mutation totals (as of 2021-01-22) 189186: 275716: Gene symbol: The gene description, gene symbol (as recommended by the HUGO Nomenclature Committee) and chromosomal location is recorded for each gene. We incorporate four leading cancer mutation databases into our analyses. I am looking for a drug targets for cancer mutation database. COSMIC is an online database of somatically acquired mutations found in human cancer. Flags validated oncogenic alterations, and predicts cancer drivers among mutations of unknown significance. The IARC TP53 Database compiles various types of data and information on human TP53 gene variations related to cancer. HGVS CHR Start Stop Reference Variant Reference Version Gene Amino Acid Mutation Type Diseases Citations This is an international collaboration hosted by the NIH National Human Genome Research Institute. Extensive gold standard data sets for driver mutations (positive data) are currently available, such as CanDL, database of curated mutations in cancer (DoCM), OncoKB and My Cancer Genome database. The Cancer Genome Project is using the human genome sequence and high throughput mutation detection techniques to identify somatically acquired sequence variants/mutations and hence identify genes critical in the development of human cancers (see here for a description of our strategy). Flags validated oncogenic alterations, and predicts cancer drivers among mutations of unknown significance. Somatic mutations are those that occur in non-germline cells that are not inherited by children. Databases dedicated to cancer in contrast, there is no database focusing on experimentally confirmed passenger yet. My aim is to find genes that are not inherited by children all the tools ), methods... ( requires registration ), laboratory methods, forum and resources for cancer databases... 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