- NCG 5.0: updates of a manually curated repository of cancer genes and associated properties from cancer mutational screenings. [PMID: 26516186]
Omer An, Giovanni M Dall'Olio, Thanos P Mourikis, Francesca D Ciccarelli
Nucleic acids research 2016:44(D1)
1 Citations (Google Scholar as of 2016-02-02)
Abstract: The Network of Cancer Genes (NCG, http://ncg.kcl.ac.uk/) is a manually curated repository of cancer genes derived from the scientific literature. Due to the increasing amount of cancer genomic data, we have introduced a more robust procedure to extract cancer genes from published cancer mutational screenings and two curators independently reviewed each publication. NCG release 5.0 (August 2015) collects 1571 cancer genes from 175 published studies that describe 188 mutational screenings of 13 315 cancer samples from 49 cancer types and 24 primary sites. In addition to collecting cancer genes, NCG also provides information on the experimental validation that supports the role of these genes in cancer and annotates their properties (duplicability, evolutionary origin, expression profile, function and interactions with proteins and miRNAs). © The Author(s) 2015. Published by Oxford University Press on behalf of Nucleic Acids Research.
- NCG 4.0: the network of cancer genes in the era of massive mutational screenings of cancer genomes. [PMID: 24608173]
Omer An, Vera Pendino, Matteo D'Antonio, Emanuele Ratti, Marco Gentilini, Francesca D Ciccarelli
Database : the journal of biological databases and curation 2014:2014
19 Citations (Google Scholar as of 2016-01-23)
Abstract: NCG 4.0 is the latest update of the Network of Cancer Genes, a web-based repository of systems-level properties of cancer genes. In its current version, the database collects information on 537 known (i.e. experimentally supported) and 1463 candidate (i.e. inferred using statistical methods) cancer genes. Candidate cancer genes derive from the manual revision of 67 original publications describing the mutational screening of 3460 human exomes and genomes in 23 different cancer types. For all 2000 cancer genes, duplicability, evolutionary origin, expression, functional annotation, interaction network with other human proteins and with microRNAs are reported. In addition to providing a substantial update of cancer-related information, NCG 4.0 also introduces two new features. The first is the annotation of possible false-positive cancer drivers, defined as candidate cancer genes inferred from large-scale screenings whose association with cancer is likely to be spurious. The second is the description of the systems-level properties of 64 human microRNAs that are causally involved in cancer progression (oncomiRs). Owing to the manual revision of all information, NCG 4.0 constitutes a complete and reliable resource on human coding and non-coding genes whose deregulation drives cancer onset and/or progression. NCG 4.0 can also be downloaded as a free application for Android smart phones. Database URL: http://bio.ieo.eu/ncg/.
- Network of Cancer Genes (NCG 3.0): integration and analysis of genetic and network properties of cancer genes. [PMID: 22080562]
Matteo D'Antonio, Vera Pendino, Shruti Sinha, Francesca D Ciccarelli
Nucleic acids research 2012:40(Database issue)
31 Citations (Google Scholar as of 2016-01-23)
Abstract: The identification of a constantly increasing number of genes whose mutations are causally implicated in tumor initiation and progression (cancer genes) requires the development of tools to store and analyze them. The Network of Cancer Genes (NCG 3.0) collects information on 1494 cancer genes that have been found mutated in 16 different cancer types. These genes were collected from the Cancer Gene Census as well as from 18 whole exome and 11 whole-genome screenings of cancer samples. For each cancer gene, NCG 3.0 provides a summary of the gene features and the cross-reference to other databases. In addition, it describes duplicability, evolutionary origin, orthology, network properties, interaction partners, microRNA regulation and functional roles of cancer genes and of all genes that are related to them. This integrated network of information can be used to better characterize cancer genes in the context of the system in which they act. The data can also be used to identify novel candidates that share the same properties of known cancer genes and may therefore play a similar role in cancer. NCG 3.0 is freely available at http://bio.ifom-ieo-campus.it/ncg.