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Volumn 37, Issue 5, 2016, Pages 447-456

mutation3D: Cancer Gene Prediction Through Atomic Clustering of Coding Variants in the Structural Proteome

Author keywords

Cancer; Clustering; Protein structures; Somatic mutations; Web tool

Indexed keywords

AROMATASE; GUANOSINE TRIPHOSPHATASE; K RAS PROTEIN; PROTEIN VARIANT; PROTEOME;

EID: 84959111658     PISSN: 10597794     EISSN: 10981004     Source Type: Journal    
DOI: 10.1002/humu.22963     Document Type: Article
Times cited : (82)

References (41)
  • 3
    • 0033954256 scopus 로고    scopus 로고
    • The Protein Data Bank
    • Berman HM. 2000. The Protein Data Bank. Nucleic Acids Res 28:235-242.
    • (2000) Nucleic Acids Res , vol.28 , pp. 235-242
    • Berman, H.M.1
  • 4
    • 84863922124 scopus 로고    scopus 로고
    • Comprehensive molecular characterization of human colon and rectal cancer
    • Cancer Genome Atlas N. 2012. Comprehensive molecular characterization of human colon and rectal cancer. Nature 487:330-337.
    • (2012) Nature , vol.487 , pp. 330-337
    • Cancer Genome Atlas, N.1
  • 10
    • 0016197604 scopus 로고
    • Amino acid difference formula to help explain protein evolution
    • Grantham R. 1974. Amino acid difference formula to help explain protein evolution. Science 185:862-864.
    • (1974) Science , vol.185 , pp. 862-864
    • Grantham, R.1
  • 12
    • 79952284127 scopus 로고    scopus 로고
    • Hallmarks of cancer: the next generation
    • Hanahan D, Weinberg R. 2011. Hallmarks of cancer: the next generation. Cell 144:646-674.
    • (2011) Cell , vol.144 , pp. 646-674
    • Hanahan, D.1    Weinberg, R.2
  • 16
    • 84922176356 scopus 로고    scopus 로고
    • Structural and physico-chemical effects of disease and non-disease nsSNPs on proteins
    • Kucukkal TG, Petukh M, Li L, Alexov E. 2015. Structural and physico-chemical effects of disease and non-disease nsSNPs on proteins. Curr Opin Struct Biol 32:18-24.
    • (2015) Curr Opin Struct Biol , vol.32 , pp. 18-24
    • Kucukkal, T.G.1    Petukh, M.2    Li, L.3    Alexov, E.4
  • 19
    • 77955405475 scopus 로고    scopus 로고
    • Deriving the consequences of genomic variants with the Ensembl API and SNP Effect Predictor
    • McLaren W, Pritchard B, Rios D, Chen Y, Flicek P, Cunningham F. 2010. Deriving the consequences of genomic variants with the Ensembl API and SNP Effect Predictor. Bioinformatics 26:2069-2070.
    • (2010) Bioinformatics , vol.26 , pp. 2069-2070
    • McLaren, W.1    Pritchard, B.2    Rios, D.3    Chen, Y.4    Flicek, P.5    Cunningham, F.6
  • 21
  • 23
    • 84928215189 scopus 로고    scopus 로고
    • On human disease-causing amino acid variants: statistical study of sequence and structural patterns
    • Petukh M, Kucukkal TG, Alexov E. 2015. On human disease-causing amino acid variants: statistical study of sequence and structural patterns. Hum Mutat 36:524-534.
    • (2015) Hum Mutat , vol.36 , pp. 524-534
    • Petukh, M.1    Kucukkal, T.G.2    Alexov, E.3
  • 27
    • 84900812868 scopus 로고    scopus 로고
    • A graph theoretic approach to utilizing protein structure to identify non-random somatic mutations
    • Ryslik GA, Cheng Y, Cheung K-HH, Modis Y, Zhao H. 2014. A graph theoretic approach to utilizing protein structure to identify non-random somatic mutations. BMC Bioinformatics 15:86.
    • (2014) BMC Bioinformatics , vol.15 , pp. 86
    • Ryslik, G.A.1    Cheng, Y.2    Cheung, K.-H.3    Modis, Y.4    Zhao, H.5
  • 30
    • 9444222978 scopus 로고
    • The application of computers to taxonomy
    • Sneath P. 1957. The application of computers to taxonomy. J Gen Microbiol 17:201-226.
    • (1957) J Gen Microbiol , vol.17 , pp. 201-226
    • Sneath, P.1
  • 31
    • 84969289150 scopus 로고
    • A method of establishing groups of equal amplitude in plant sociology based on similarity of species and its application to analyses of the vegetation on Danish commons
    • Sørensen T. 1948. A method of establishing groups of equal amplitude in plant sociology based on similarity of species and its application to analyses of the vegetation on Danish commons. Biol Skr 5:1-34.
    • (1948) Biol Skr , vol.5 , pp. 1-34
    • Sørensen, T.1
  • 32
    • 84891837451 scopus 로고    scopus 로고
    • The Human Gene Mutation Database: building a comprehensive mutation repository for clinical and molecular genetics, diagnostic testing and personalized genomic medicine
    • Stenson PD, Mort M, Ball EV, Shaw K, Phillips A, Cooper DN. 2014. The Human Gene Mutation Database: building a comprehensive mutation repository for clinical and molecular genetics, diagnostic testing and personalized genomic medicine. Hum Genet 133:1-9.
    • (2014) Hum Genet , vol.133 , pp. 1-9
    • Stenson, P.D.1    Mort, M.2    Ball, E.V.3    Shaw, K.4    Phillips, A.5    Cooper, D.N.6
  • 33
    • 84883467378 scopus 로고    scopus 로고
    • OncodriveCLUST: exploiting the positional clustering of somatic mutations to identify cancer genes
    • Tamborero D, Gonzalez-Perez A, Lopez-Bigas N. 2013. OncodriveCLUST: exploiting the positional clustering of somatic mutations to identify cancer genes. Bioinformatics 29:2238-2244.
    • (2013) Bioinformatics , vol.29 , pp. 2238-2244
    • Tamborero, D.1    Gonzalez-Perez, A.2    Lopez-Bigas, N.3
  • 34
    • 84864719167 scopus 로고    scopus 로고
    • Detecting patches of protein sites of influenza A viruses under positive selection
    • Tusche C, Steinbruck L, McHardy AC. 2012. Detecting patches of protein sites of influenza A viruses under positive selection. Mol Biol Evol 29:2063-2071.
    • (2012) Mol Biol Evol , vol.29 , pp. 2063-2071
    • Tusche, C.1    Steinbruck, L.2    McHardy, A.C.3
  • 37
    • 34548431288 scopus 로고    scopus 로고
    • Rapid detection of positive selection in genes and genomes through variation clusters
    • Wagner A. 2007. Rapid detection of positive selection in genes and genomes through variation clusters. Genetics 176:2451-2463.
    • (2007) Genetics , vol.176 , pp. 2451-2463
    • Wagner, A.1
  • 38
    • 84863010950 scopus 로고    scopus 로고
    • Three-dimensional reconstruction of protein networks provides insight into human genetic disease
    • Wang X, Wei X, Thijssen B, Das J, Lipkin SM, Yu H. 2012. Three-dimensional reconstruction of protein networks provides insight into human genetic disease. Nat Biotechnol 30:159-164.
    • (2012) Nat Biotechnol , vol.30 , pp. 159-164
    • Wang, X.1    Wei, X.2    Thijssen, B.3    Das, J.4    Lipkin, S.M.5    Yu, H.6
  • 41


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.