CMPD: cancer mutant proteome database.
Whole-exome sequencing, which centres on the protein coding regions of disease/cancer associated genes, represents the most cost-effective method to-date for deciphering the association between genetic alterations and diseases. Large-scale whole exome/genome sequencing projects have been launched by various institutions, such as NCI, Broad Institute and TCGA, to provide a comprehensive catalogue of coding variants in diverse tissue samples and cell lines. Further functional and clinical interrogation of these sequence variations must rely on extensive cross-platforms integration of sequencing information and a proteome database that explicitly and comprehensively archives the corresponding mutated peptide sequences. While such data resource is a critical for the mass spectrometry-based proteomic analysis of exomic variants, no database is currently available for the collection of mutant protein sequences that correspond to recent large-scale genomic data. To address this issue and serve as bridge to integrate genomic and proteomics datasets, CMPD (http://cgbc.cgu.edu.tw/cmpd) collected over 2 millions genetic alterations, which not only facilitates the confirmation and examination of potential cancer biomarkers but also provides an invaluable resource for translational medicine research and opportunities to identify mutated proteins encoded by mutated genes.
Bioinformatics Core Laboratory, Chang Gung University, Taoyuan 333, Taiwan Molecular Medicine Research Center, Chang Gung University, Taoyuan 333, Taiwan.
Po-Jung
PJ
Huang
Bioinformatics Core Laboratory, Chang Gung University, Taoyuan 333, Taiwan.
Chi-Ching
CC
Lee
Department of Biomedical Sciences, Chang Gung University, Taoyuan 333, Taiwan.
Bertrand Chin-Ming
BC
Tan
Bioinformatics Division, Tri-I Biotech, Inc., Taipei 221, Taiwan.
Yuan-Ming
YM
Yeh
Molecular Medicine Research Center, Chang Gung University, Taoyuan 333, Taiwan.
Lichieh
L
Julie Chu
Bioinformatics Core Laboratory, Chang Gung University, Taoyuan 333, Taiwan.
Ting-Wen
TW
Chen
Department of Otolaryngology, Head and Neck Surgery, Chang Gung Memorial Hospital, Lin-Kou, Taoyuan 333, Taiwan.
Kai-Ping
KP
Chang
Bioinformatics Core Laboratory, Chang Gung University, Taoyuan 333, Taiwan.
Cheng-Yang
CY
Lee
Bioinformatics Core Laboratory, Chang Gung University, Taoyuan 333, Taiwan.
Ruei-Chi
RC
Gan
Department of Molecular and Cellular Biology, Chang Gung University, Taoyuan 333, Taiwan liu-hsuan@mail.cgu.edu.tw.
Hsuan
H
Liu
Bioinformatics Core Laboratory, Chang Gung University, Taoyuan 333, Taiwan petang@mail.cgu.edu.tw.
Petrus
P
Tang
D045744:Cell Line, Tumor; D030562:Databases, Protein; D006801:Humans; D020407:Internet; D050505:Mutant Proteins / Q000235:genetics*; D009154:Mutation; D009363:Neoplasm Proteins / Q000235:genetics*; D009369:Neoplasms / Q000235:genetics*; D020543:Proteome / Q000235:genetics*
D050505:Mutant Proteins; D009363:Neoplasm Proteins; D020543:Proteome