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TSGene 2.0: an updated literature-based knowledgebase for tumor suppressor genes

Tumor suppressor genes (TSGs) are a major type of gatekeeper genes in the cell growth. A knowledgebase with the systematic collection and curation of TSGs in multiple cancer types is critically important for further studying their biological functions as well as for developing therapeutic strategies...

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Detalles Bibliográficos
Autores principales: Zhao, Min, Kim, Pora, Mitra, Ramkrishna, Zhao, Junfei, Zhao, Zhongming
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Oxford University Press 2016
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4702895/
https://www.ncbi.nlm.nih.gov/pubmed/26590405
http://dx.doi.org/10.1093/nar/gkv1268
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author Zhao, Min
Kim, Pora
Mitra, Ramkrishna
Zhao, Junfei
Zhao, Zhongming
author_facet Zhao, Min
Kim, Pora
Mitra, Ramkrishna
Zhao, Junfei
Zhao, Zhongming
author_sort Zhao, Min
collection PubMed
description Tumor suppressor genes (TSGs) are a major type of gatekeeper genes in the cell growth. A knowledgebase with the systematic collection and curation of TSGs in multiple cancer types is critically important for further studying their biological functions as well as for developing therapeutic strategies. Since its development in 2012, the Tumor Suppressor Gene database (TSGene), has become a popular resource in the cancer research community. Here, we reported the TSGene version 2.0, which has substantial updates of contents (e.g. up-to-date literature and pan-cancer genomic data collection and curation), data types (noncoding RNAs and protein-coding genes) and content accessibility. Specifically, the current TSGene 2.0 contains 1217 human TSGs (1018 protein-coding and 199 non-coding genes) curated from over 9000 articles. Additionally, TSGene 2.0 provides thousands of expression and mutation patterns derived from pan-cancer data of The Cancer Genome Atlas. A new web interface is available at http://bioinfo.mc.vanderbilt.edu/TSGene/. Systematic analyses of 199 non-coding TSGs provide numerous cancer-specific non-coding mutational events for further screening and clinical use. Intriguingly, we identified 49 protein-coding TSGs that were consistently down-regulated in 11 cancer types. In summary, TSGene 2.0, which is the only available database for TSGs, provides the most updated TSGs and their features in pan-cancer.
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spelling pubmed-47028952016-01-07 TSGene 2.0: an updated literature-based knowledgebase for tumor suppressor genes Zhao, Min Kim, Pora Mitra, Ramkrishna Zhao, Junfei Zhao, Zhongming Nucleic Acids Res Database Issue Tumor suppressor genes (TSGs) are a major type of gatekeeper genes in the cell growth. A knowledgebase with the systematic collection and curation of TSGs in multiple cancer types is critically important for further studying their biological functions as well as for developing therapeutic strategies. Since its development in 2012, the Tumor Suppressor Gene database (TSGene), has become a popular resource in the cancer research community. Here, we reported the TSGene version 2.0, which has substantial updates of contents (e.g. up-to-date literature and pan-cancer genomic data collection and curation), data types (noncoding RNAs and protein-coding genes) and content accessibility. Specifically, the current TSGene 2.0 contains 1217 human TSGs (1018 protein-coding and 199 non-coding genes) curated from over 9000 articles. Additionally, TSGene 2.0 provides thousands of expression and mutation patterns derived from pan-cancer data of The Cancer Genome Atlas. A new web interface is available at http://bioinfo.mc.vanderbilt.edu/TSGene/. Systematic analyses of 199 non-coding TSGs provide numerous cancer-specific non-coding mutational events for further screening and clinical use. Intriguingly, we identified 49 protein-coding TSGs that were consistently down-regulated in 11 cancer types. In summary, TSGene 2.0, which is the only available database for TSGs, provides the most updated TSGs and their features in pan-cancer. Oxford University Press 2016-01-04 2015-11-20 /pmc/articles/PMC4702895/ /pubmed/26590405 http://dx.doi.org/10.1093/nar/gkv1268 Text en © The Author(s) 2015. Published by Oxford University Press on behalf of Nucleic Acids Research. http://creativecommons.org/licenses/by/4.0/ This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly cited.
spellingShingle Database Issue
Zhao, Min
Kim, Pora
Mitra, Ramkrishna
Zhao, Junfei
Zhao, Zhongming
TSGene 2.0: an updated literature-based knowledgebase for tumor suppressor genes
title TSGene 2.0: an updated literature-based knowledgebase for tumor suppressor genes
title_full TSGene 2.0: an updated literature-based knowledgebase for tumor suppressor genes
title_fullStr TSGene 2.0: an updated literature-based knowledgebase for tumor suppressor genes
title_full_unstemmed TSGene 2.0: an updated literature-based knowledgebase for tumor suppressor genes
title_short TSGene 2.0: an updated literature-based knowledgebase for tumor suppressor genes
title_sort tsgene 2.0: an updated literature-based knowledgebase for tumor suppressor genes
topic Database Issue
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4702895/
https://www.ncbi.nlm.nih.gov/pubmed/26590405
http://dx.doi.org/10.1093/nar/gkv1268
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