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Database Commons - ccmGDB

ccmGDB

Citations: 2

z-index 0.16

Short name ccmGDB
Full name Cancer Cell Metabolism Gene DataBase
Description Cancer Cell Metabolism Gene Database (ccmGDB) is a comprehensive annotation resource for cell metabolism genes in cancer. The objective of this database is to serve both the cancer cell metabolism and broader research communities by providing a useful resource about functional annotation of cell metabolism genes in various cancer types.
URL http://bioinfo.mc.vanderbilt.edu/ccmGDB
Year founded 2015
Last update & version 2015    
Availability Free to all users
University/Institution hosted Vanderbilt University
Address Nashville, TN 37203, USA
City Nashville
Province/State TN
Country/Region United States
Contact name Zhongming Zhao
Contact email zhongming.zhao@vanderbilt.edu
Data type(s)
Major organism(s)
Keyword(s)
  • cancer
Publication(s)
  • ccmGDB: a database for cancer cell metabolism genes. [PMID: 26519468]

    Pora Kim, Feixiong Cheng, Junfei Zhao, Zhongming Zhao
    Nucleic acids research 2016:44(D1)
    2 Citations (Google Scholar as of 2016-01-27)

    Abstract: Accumulating evidence has demonstrated that rewiring of metabolism in cells is an important hallmark of cancer. The percentage of patients killed by metabolic disorder has been estimated to be 30% of the advanced-stage cancer patients. Thus, a systematic annotation of cancer cell metabolism genes is imperative. Here, we present ccmGDB (Cancer Cell Metabolism Gene DataBase), a comprehensive annotation database for cell metabolism genes in cancer, available at http://bioinfo.mc.vanderbilt.edu/ccmGDB. We assembled, curated, and integrated genetic, genomic, transcriptomic, proteomic, biological network and functional information for over 2000 cell metabolism genes in more than 30 cancer types. In total, we integrated over 260 000 somatic alterations including non-synonymous mutations, copy number variants and structural variants. We also integrated RNA-Seq data in various primary tumors, gene expression microarray data in over 1000 cancer cell lines and protein expression data. Furthermore, we constructed cancer or tissue type-specific, gene co-expression based protein interaction networks and drug-target interaction networks. Using these systematic annotations, the ccmGDB portal site provides 6 categories: gene summary, phenotypic information, somatic mutations, gene and protein expression, gene co-expression network and drug pharmacological information with a user-friendly interface for browsing and searching. ccmGDB is developed and maintained as a useful resource for the cancer research community. © The Author(s) 2015. Published by Oxford University Press on behalf of Nucleic Acids Research.

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Tags

Drug and Chemical Compound Expression Interaction and Network Metabolic and Signaling Pathway Modification Phenotype
Homo sapiens
cancer

Record metadata

  • Created on: 2016-01-15
  • Curated by:
    • Mengwei Li [2016-03-31]
    • Mengwei Li [2016-03-29]
    • Mengwei Li [2016-02-21]
    • Lin Liu [2016-02-02]
    • Lin Liu [2016-01-27]
    • Lin Liu [2016-01-15]
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