메뉴 건너뛰기




Volumn 6, Issue 4, 2011, Pages

Data integration workflow for search of disease driving genes and genetic variants

Author keywords

[No Author keywords available]

Indexed keywords

AMINO ACID SEQUENCE; ARTICLE; CANCER SURVIVAL; CANDIDATE GENES AND SNP; CCDC26 GENE; CDKN2A GENE; CDKN2B GENE; CONTROLLED STUDY; DNA INTEGRATION; GENE; GENE INTERACTION; GENE LINKAGE DISEQUILIBRIUM; GENETIC ANALYSIS; GENETIC ASSOCIATION; GENETIC IDENTIFICATION; GENETIC PARAMETERS; GENETIC RISK; GENETIC VARIABILITY; GLIOBLASTOMA; HUMAN; P53 GENE; PHLDB1 GENE; PROTEIN PROTEIN INTERACTION; RTEL1 GENE; SINGLE NUCLEOTIDE POLYMORPHISM; TERT GENE; TUMOR GENE; BRAIN TUMOR; GENETICS; SURVIVAL; TUMOR SUPPRESSOR GENE;

EID: 79954530516     PISSN: None     EISSN: 19326203     Source Type: Journal    
DOI: 10.1371/journal.pone.0018636     Document Type: Article
Times cited : (3)

References (40)
  • 1
    • 68249142895 scopus 로고    scopus 로고
    • A comprehensive catalogue of functional genetic variations in the EGFR pathway: Protein-protein interaction analysis reveals novel genes and polymorphisms important for cancer research
    • Savas S, Geraci J, Jurisica I, Liu G, (2009) A comprehensive catalogue of functional genetic variations in the EGFR pathway: Protein-protein interaction analysis reveals novel genes and polymorphisms important for cancer research. International Journal of Cancer 125: 1257-65.
    • (2009) International Journal of Cancer , vol.125 , pp. 1257-1265
    • Savas, S.1    Geraci, J.2    Jurisica, I.3    Liu, G.4
  • 2
    • 16844369571 scopus 로고    scopus 로고
    • The need for a systematic approach to complex pathways in molecular epidemiology
    • Thomas DC, (2005) The need for a systematic approach to complex pathways in molecular epidemiology. Cancer Epidemiol Biomarkers Prev 14: 557-559.
    • (2005) Cancer Epidemiol Biomarkers Prev , vol.14 , pp. 557-559
    • Thomas, D.C.1
  • 3
    • 54549108740 scopus 로고    scopus 로고
    • Comprehensive genomic characterization defines human glioblastoma genes and core pathways
    • Cancer Genome Atlas Research Network
    • Cancer Genome Atlas Research Network (2008) Comprehensive genomic characterization defines human glioblastoma genes and core pathways. Nature 455: 1061-1068.
    • (2008) Nature , vol.455 , pp. 1061-1068
  • 4
    • 34250006413 scopus 로고    scopus 로고
    • Genome-wide association study identifies novel breast cancer susceptibility loci
    • Easton DF, Pooley KA, Dunning AM, Pharoah PD, Thompson D, et al. (2007) Genome-wide association study identifies novel breast cancer susceptibility loci. Nature 447: 1087-1093.
    • (2007) Nature , vol.447 , pp. 1087-1093
    • Easton, D.F.1    Pooley, K.A.2    Dunning, A.M.3    Pharoah, P.D.4    Thompson, D.5
  • 5
    • 68149180890 scopus 로고    scopus 로고
    • Genome-wide association study identifies five susceptibility loci for glioma
    • Shete S, Hosking FJ, Robertson LB, Dobbins SE, Sanson M, et al. (2009) Genome-wide association study identifies five susceptibility loci for glioma. Nature Genetics 41: 899-904.
    • (2009) Nature Genetics , vol.41 , pp. 899-904
    • Shete, S.1    Hosking, F.J.2    Robertson, L.B.3    Dobbins, S.E.4    Sanson, M.5
  • 8
    • 58149271021 scopus 로고    scopus 로고
    • Integrated network analysis platform for protein-protein interactions
    • Wu J, Vallenius T, Ovaska K, Westermarck J, Mäkelä TP, et al. (2009) Integrated network analysis platform for protein-protein interactions. Nat Methods 6: 75-77.
    • (2009) Nat Methods , vol.6 , pp. 75-77
    • Wu, J.1    Vallenius, T.2    Ovaska, K.3    Westermarck, J.4    Mäkelä, T.P.5
  • 10
    • 79959503826 scopus 로고    scopus 로고
    • The International HapMap Project
    • International HapMap Consortium
    • International HapMap Consortium (2003) The International HapMap Project. Nature 426: 789-796.
    • (2003) Nature , vol.426 , pp. 789-796
  • 13
    • 32044453591 scopus 로고    scopus 로고
    • Identification and analysis of deleterious human SNPs
    • Yue P, Moult J, (2006) Identification and analysis of deleterious human SNPs. J Mol Biol 356: 1263-1274.
    • (2006) J Mol Biol , vol.356 , pp. 1263-1274
    • Yue, P.1    Moult, J.2
  • 14
    • 0043122919 scopus 로고    scopus 로고
    • SIFT: Predicting amino acid changes that affect protein function
    • Ng PC, Henikoff S, (2003) SIFT: Predicting amino acid changes that affect protein function. Nucleic Acids Res 31: 3812-3814.
    • (2003) Nucleic Acids Res , vol.31 , pp. 3812-3814
    • Ng, P.C.1    Henikoff, S.2
  • 15
    • 60749104999 scopus 로고    scopus 로고
    • Next generation tools for the annotation of human SNPs
    • Karchin R, (2009) Next generation tools for the annotation of human SNPs. Brief Bioinform 10: 35-52.
    • (2009) Brief Bioinform , vol.10 , pp. 35-52
    • Karchin, R.1
  • 16
    • 58149194608 scopus 로고    scopus 로고
    • SNPLogic: an interactive single nucleotide polymorphism selection, annotation, and prioritization system
    • Pico AR, Smirnov IV, Chang JS, Yeh RF, Wiemels JL, et al. (2009) SNPLogic: an interactive single nucleotide polymorphism selection, annotation, and prioritization system. Nucleic Acids Res 37: 803-809.
    • (2009) Nucleic Acids Res , vol.37 , pp. 803-809
    • Pico, A.R.1    Smirnov, I.V.2    Chang, J.S.3    Yeh, R.F.4    Wiemels, J.L.5
  • 17
    • 33747871385 scopus 로고    scopus 로고
    • SNP Function Portal: a web database for exploring the function implication of SNP alleles
    • Wang P, Dai M, Xuan W, McEachin RC, Jackson AU, et al. (2006) SNP Function Portal: a web database for exploring the function implication of SNP alleles. Bioinformatics 22: 523-529.
    • (2006) Bioinformatics , vol.22 , pp. 523-529
    • Wang, P.1    Dai, M.2    Xuan, W.3    McEachin, R.C.4    Jackson, A.U.5
  • 18
    • 67849101182 scopus 로고    scopus 로고
    • SNPinfo: integrating GWAS and candidate gene information into functional SNP selection for genetic association studies
    • Xu Z, Taylor JA, (2009) SNPinfo: integrating GWAS and candidate gene information into functional SNP selection for genetic association studies. Nucleic Acids Res 37: 600-605.
    • (2009) Nucleic Acids Res , vol.37 , pp. 600-605
    • Xu, Z.1    Taylor, J.A.2
  • 19
    • 33846093811 scopus 로고    scopus 로고
    • Snap: an integrated SNP annotation platform
    • Li S, Ma L, Li H, Vang S, Hu Y, et al. (2007) Snap: an integrated SNP annotation platform. Nucleic Acids Res 35: 707-710.
    • (2007) Nucleic Acids Res , vol.35 , pp. 707-710
    • Li, S.1    Ma, L.2    Li, H.3    Vang, S.4    Hu, Y.5
  • 20
    • 38549158538 scopus 로고    scopus 로고
    • F-SNP: computationally predicted functional SNPs for disease association studies
    • Lee PH, Shatkay H, (2008) F-SNP: computationally predicted functional SNPs for disease association studies. Nucleic Acids Res 36: 820-824.
    • (2008) Nucleic Acids Res , vol.36 , pp. 820-824
    • Lee, P.H.1    Shatkay, H.2
  • 22
    • 78751681684 scopus 로고    scopus 로고
    • Large-scale data integration framework provides a comprehensive view on glioblastoma multiforme
    • Ovaska K, Laakso M, Haapa-Paananen S, Louhimo R, Chen P, et al. (2010) Large-scale data integration framework provides a comprehensive view on glioblastoma multiforme. Genome Medicine 2: 65.
    • (2010) Genome Medicine , vol.2 , pp. 65
    • Ovaska, K.1    Laakso, M.2    Haapa-Paananen, S.3    Louhimo, R.4    Chen, P.5
  • 23
    • 33745279056 scopus 로고    scopus 로고
    • Evaluating coverage of genome-wide association studies
    • Barrett J, Cardon L, (2006) Evaluating coverage of genome-wide association studies. Nature Genetics 38: 659-662.
    • (2006) Nature Genetics , vol.38 , pp. 659-662
    • Barrett, J.1    Cardon, L.2
  • 24
    • 0034660559 scopus 로고    scopus 로고
    • Searching for genetic determinants in the new millennium
    • Risch N, (2000) Searching for genetic determinants in the new millennium. Nature 405: 847-856.
    • (2000) Nature , vol.405 , pp. 847-856
    • Risch, N.1
  • 25
    • 0346121357 scopus 로고    scopus 로고
    • p53 polymorphic variants at codon 72 exert different effects on cell cycle progression
    • Pim D, Banks L, (2004) p53 polymorphic variants at codon 72 exert different effects on cell cycle progression. Int J Cancer 108: 196-199.
    • (2004) Int J Cancer , vol.108 , pp. 196-199
    • Pim, D.1    Banks, L.2
  • 26
    • 0032907105 scopus 로고    scopus 로고
    • Two polymorphic variants of wild-type p53 differ biochemically and biologically
    • Thomas M, Kalita A, Labrecque S, Pim D, Banks L, et al. (1999) Two polymorphic variants of wild-type p53 differ biochemically and biologically. Mol Cell Biol 19: 1092-1100.
    • (1999) Mol Cell Biol , vol.19 , pp. 1092-1100
    • Thomas, M.1    Kalita, A.2    Labrecque, S.3    Pim, D.4    Banks, L.5
  • 27
    • 33749118677 scopus 로고    scopus 로고
    • iASPP preferentially binds p53 proline-rich region and modulates apoptotic function of codon 72-polymorphic p53
    • Bergamaschi D, Samuels Y, Sullivan A, Zvelebil M, Breyssens H, et al. (2006) iASPP preferentially binds p53 proline-rich region and modulates apoptotic function of codon 72-polymorphic p53. Nat Genet 38: 1133-1141.
    • (2006) Nat Genet , vol.38 , pp. 1133-1141
    • Bergamaschi, D.1    Samuels, Y.2    Sullivan, A.3    Zvelebil, M.4    Breyssens, H.5
  • 29
    • 77954578718 scopus 로고    scopus 로고
    • Combined effects of single nucleotide polymorphisms TP53 R72P and MDM2 SNP309, and p53 expression on survival of breast cancer patients
    • Schmidt MK, Tommiska J, Broeks A, van Leeuwen FE, Van't Veer LJ, et al. (2009) Combined effects of single nucleotide polymorphisms TP53 R72P and MDM2 SNP309, and p53 expression on survival of breast cancer patients. Breast Cancer Res 11.
    • (2009) Breast Cancer Res , vol.11
    • Schmidt, M.K.1    Tommiska, J.2    Broeks, A.3    van Leeuwen, F.E.4    Van't Veer, L.J.5
  • 30
    • 22344450943 scopus 로고    scopus 로고
    • Breast cancer patients with p53 Pro72 homozygous genotype have a poorer survival
    • Tommiska J, Eerola H, Heinonen M, Salonen L, Kaare M, et al. (2005) Breast cancer patients with p53 Pro72 homozygous genotype have a poorer survival. Clin Cancer Res 11: 5098-5103.
    • (2005) Clin Cancer Res , vol.11 , pp. 5098-5103
    • Tommiska, J.1    Eerola, H.2    Heinonen, M.3    Salonen, L.4    Kaare, M.5
  • 31
    • 77149128957 scopus 로고    scopus 로고
    • Methionine synthase A2756G polymorphism and cancer risk: a meta-analysis
    • Eur J Hum Genet
    • Yu K, Zhang J, Zhang J, Dou C, Gu S, et al. (2009) Methionine synthase A2756G polymorphism and cancer risk: a meta-analysis. Eur J Hum Genet.
    • (2009)
    • Yu, K.1    Zhang, J.2    Zhang, J.3    Dou, C.4    Gu, S.5
  • 32
    • 0035863372 scopus 로고    scopus 로고
    • Chromosomal imbalances associated with response to chemotherapy and cytotoxic cytokines in human malignant glioma cell lines
    • Weber RG, Rieger J, Naumann U, Lichter P, Weller M, (2001) Chromosomal imbalances associated with response to chemotherapy and cytotoxic cytokines in human malignant glioma cell lines. Int J Cancer 91: 213-218.
    • (2001) Int J Cancer , vol.91 , pp. 213-218
    • Weber, R.G.1    Rieger, J.2    Naumann, U.3    Lichter, P.4    Weller, M.5
  • 33
    • 33744906046 scopus 로고    scopus 로고
    • Genomic models of metastatic cancer: functional analysis of death-from-cancer signature genes reveals aneuploid, anoikis-resistant, metastasis-enabling phenotype with altered cell cycle control and activated Polycomb Group (PcG) protein chromatin silencing pathway
    • Glinsky GV, (2006) Genomic models of metastatic cancer: functional analysis of death-from-cancer signature genes reveals aneuploid, anoikis-resistant, metastasis-enabling phenotype with altered cell cycle control and activated Polycomb Group (PcG) protein chromatin silencing pathway. Cell Cycle 5: 1208-1216.
    • (2006) Cell Cycle , vol.5 , pp. 1208-1216
    • Glinsky, G.V.1
  • 34
    • 63949088181 scopus 로고    scopus 로고
    • High cyclin B1 expression is associated with poor survival in breast cancer
    • Aaltonen K, Amini RM, Heikkilä P, Aittomäki K, Tamminen A, et al. (2009) High cyclin B1 expression is associated with poor survival in breast cancer. Br J Cancer 100: 1055-1060.
    • (2009) Br J Cancer , vol.100 , pp. 1055-1060
    • Aaltonen, K.1    Amini, R.M.2    Heikkilä, P.3    Aittomäki, K.4    Tamminen, A.5
  • 36
    • 33744544172 scopus 로고    scopus 로고
    • 14-3-3 proteins in cell cycle regulation
    • Hermeking H, Benzinger A, (2006) 14-3-3 proteins in cell cycle regulation. Semin Cancer Biol 16: 183-192.
    • (2006) Semin Cancer Biol , vol.16 , pp. 183-192
    • Hermeking, H.1    Benzinger, A.2
  • 38
    • 67849095416 scopus 로고    scopus 로고
    • BioMart Central Portal-unified access to biological data
    • Nucleic acids research
    • Haider S, Ballester B, Smedley D, Zhang J, Rice P, et al. (2009) BioMart Central Portal-unified access to biological data. Nucleic acids research.
    • (2009)
    • Haider, S.1    Ballester, B.2    Smedley, D.3    Zhang, J.4    Rice, P.5
  • 39
    • 34548292504 scopus 로고    scopus 로고
    • PLINK: a tool set for whole-genome association and population-based linkage analyses
    • Purcell S, Neale B, Todd-Brown K, Thomas L, Ferreira MAR, et al. (2007) PLINK: a tool set for whole-genome association and population-based linkage analyses. Am J Hum Genet 81: 559-75.
    • (2007) Am J Hum Genet , vol.81 , pp. 559-575
    • Purcell, S.1    Neale, B.2    Todd-Brown, K.3    Thomas, L.4    Ferreira, M.A.R.5
  • 40
    • 34147136617 scopus 로고    scopus 로고
    • Exploration, normalization, and genotype calls of high-density oligonucleotide SNP array data
    • Carvalho B, Bengtsson H, Speed TP, Irizarry RA, (2007) Exploration, normalization, and genotype calls of high-density oligonucleotide SNP array data. Biostatistics 8: 485-499.
    • (2007) Biostatistics , vol.8 , pp. 485-499
    • Carvalho, B.1    Bengtsson, H.2    Speed, T.P.3    Irizarry, R.A.4


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.