메뉴 건너뛰기




Volumn 19, Issue 6, 2011, Pages 704-709

Pathway-based identification of SNPs predictive of survival

Author keywords

gene and pathway based analysis; genome wide scan; multiple myeloma; random forests; single nucleotide polymorphisms; survival

Indexed keywords

ARTICLE; CANCER SURVIVAL; CORRELATIONAL STUDY; FEMALE; GENE EXPRESSION; GENETIC IDENTIFICATION; GENOTYPE; HUMAN; MAJOR CLINICAL STUDY; MULTIPLE MYELOMA; OUTCOME ASSESSMENT; PRIORITY JOURNAL; SIMULATION; SINGLE NUCLEOTIDE POLYMORPHISM; SURVIVAL;

EID: 79956304186     PISSN: 10184813     EISSN: 14765438     Source Type: Journal    
DOI: 10.1038/ejhg.2011.3     Document Type: Article
Times cited : (18)

References (48)
  • 1
    • 58149253310 scopus 로고    scopus 로고
    • On the utility of gene set methods in genomewide association studies of quantitative traits
    • Chasman DI: On the utility of gene set methods in genomewide association studies of quantitative traits. Genet Epidemiol 2008; 32: 658-668.
    • (2008) Genet Epidemiol , vol.32 , pp. 658-668
    • Chasman, D.I.1
  • 2
    • 77449140764 scopus 로고    scopus 로고
    • Gene and pathway-based second-wave analysis of genome-wide association studies
    • Peng G, Luo L, Siu H et al: Gene and pathway-based second-wave analysis of genome-wide association studies. Eur J Hum Genet 2010; 18: 111-117.
    • (2010) Eur J Hum Genet , vol.18 , pp. 111-117
    • Peng, G.1    Luo, L.2    Siu, H.3
  • 3
    • 77953429324 scopus 로고    scopus 로고
    • Using prior knowledge and genome-wide association to identify pathways involved in multiple sclerosis
    • Ritchie MD: Using prior knowledge and genome-wide association to identify pathways involved in multiple sclerosis. Genome Med 2009; 1: 65.
    • (2009) Genome Med , vol.1 , pp. 65
    • Ritchie, M.D.1
  • 4
    • 65549084289 scopus 로고    scopus 로고
    • Pathway and network-based analysis of genome-wide association studies in multiple sclerosis
    • Baranzini SE, Galwey NW, Wang J et al: Pathway and network-based analysis of genome-wide association studies in multiple sclerosis. Hum Mol Genet 2009; 18: 2078-2090.
    • (2009) Hum Mol Genet , vol.18 , pp. 2078-2090
    • Baranzini, S.E.1    Galwey, N.W.2    Wang, J.3
  • 5
    • 71249084067 scopus 로고    scopus 로고
    • A pathway analysis applied to genetic analysis workshop 16 genome-wide rheumatoid arthritis data
    • Ballard DH, Aporntewan C, Lee JY, Lee JS, Wu Z, Zhao H: A pathway analysis applied to genetic analysis workshop 16 genome-wide rheumatoid arthritis data. BMC Proc 2009; 3(Suppl 7): S91.
    • (2009) BMC Proc , vol.3 , Issue.SUPPL. 7
    • Ballard, D.H.1    Aporntewan, C.2    Lee, J.Y.3    Lee, J.S.4    Wu, Z.5    Zhao, H.6
  • 6
    • 61549115034 scopus 로고    scopus 로고
    • Diverse genome-wide association studies associate the IL12/IL23 pathway with Crohn Disease
    • Wang K, Zhang H, Kugathasan S et al: Diverse genome-wide association studies associate the IL12/IL23 pathway with Crohn Disease. Am J Hum Genet 2009; 84: 399-405.
    • (2009) Am J Hum Genet , vol.84 , pp. 399-405
    • Wang, K.1    Zhang, H.2    Kugathasan, S.3
  • 7
    • 36249029788 scopus 로고    scopus 로고
    • Pathway-based approaches for analysis of genomewide association studies
    • DOI 10.1086/522374
    • Wang K, Li M, Bucan M: Pathway-based approaches for analysis of genomewide association studies. Am J Hum Genet 2007; 81: 1278-1283. (Pubitemid 350211456)
    • (2007) American Journal of Human Genetics , vol.81 , Issue.6 , pp. 1278-1283
    • Wang, K.1    Li, M.2    Bucan, M.3
  • 8
    • 33947661925 scopus 로고    scopus 로고
    • Evidence for association between multiple complement pathway genes and AMD
    • DOI 10.1002/gepi.20204
    • Dinu V, Miller PL, Zhao H: Evidence for association between multiple complement pathway genes and AMD. Genet Epidemiol 2007; 31: 224-237. (Pubitemid 46493566)
    • (2007) Genetic Epidemiology , vol.31 , Issue.3 , pp. 224-237
    • Dinu, V.1    Miller, P.L.2    Zhao, H.3
  • 9
    • 12744259874 scopus 로고    scopus 로고
    • Identifying SNPs predictive of phenotype using random forests
    • Bureau A, Dupuis J, Falls K et al: Identifying SNPs predictive of phenotype using random forests. Genet Epidemiol 2005; 28: 171-182.
    • (2005) Genet Epidemiol , vol.28 , pp. 171-182
    • Bureau, A.1    Dupuis, J.2    Falls, K.3
  • 10
    • 53349100175 scopus 로고    scopus 로고
    • Pathway analysis of single-nucleotide polymorphisms potentially associated with glioblastoma multiforme susceptibility using random forests
    • Chang JS, Yeh RF, Wiencke JK et al: Pathway analysis of single-nucleotide polymorphisms potentially associated with glioblastoma multiforme susceptibility using random forests. Cancer Epidemiol Biomarkers Prev 2008; 17: 1368-1373.
    • (2008) Cancer Epidemiol Biomarkers Prev , vol.17 , pp. 1368-1373
    • Chang, J.S.1    Yeh, R.F.2    Wiencke, J.K.3
  • 11
    • 36048987418 scopus 로고    scopus 로고
    • Integrating domain knowledge with statistical and data mining methods for high-density genomic SNP disease association analysis
    • DOI 10.1016/j.jbi.2007.06.002, PII S1532046407000548, Intelligent Data Analysis in Biomedicine
    • Dinu V, Zhao H, Miller P et al: Integrating domain knowledge with statistical and data mining methods for high-density genomic SNP disease association analysis. J Biomed Inform 2007; 40: 750-760. (Pubitemid 350088621)
    • (2007) Journal of Biomedical Informatics , vol.40 , Issue.6 , pp. 750-760
    • Dinu, V.1    Zhao, H.2    Miller, P.L.3
  • 12
    • 34547863496 scopus 로고    scopus 로고
    • Assessment of survival prediction models based on microarray data
    • DOI 10.1093/bioinformatics/btm232
    • Schumacher M, Binder H, Gerds T: Assessment of survival prediction models based on microarray data. Bioinformatics 2007; 23: 1768-1774. (Pubitemid 47250309)
    • (2007) Bioinformatics , vol.23 , Issue.14 , pp. 1768-1774
    • Schumacher, M.1    Binder, H.2    Gerds, T.3
  • 14
    • 77950510575 scopus 로고    scopus 로고
    • Pathway analysis using random forests with bivariate node-split for survival outcomes
    • Pang H, Datta D, Zhao H: Pathway analysis using random forests with bivariate node-split for survival outcomes. Bioinformatics 2010; 26: 250-258.
    • (2010) Bioinformatics , vol.26 , pp. 250-258
    • Pang, H.1    Datta, D.2    Zhao, H.3
  • 16
    • 0038457682 scopus 로고    scopus 로고
    • On the exact distribution of maximally selected rank statistics
    • PII S0167947302002256
    • Hothorn T, Lausen B: On the exact distribution of maximally selected rank statistics. Comput Stat Data Anal 2003; 43: 121-137. (Pubitemid 36715216)
    • (2003) Computational Statistics and Data Analysis , vol.43 , Issue.2 , pp. 121-137
    • Hothorn, T.1    Lausen, B.2
  • 17
    • 0023942063 scopus 로고
    • Regression trees for censored data
    • Segal M: Regression trees for censored data. Biometrics 1988; 44: 35-47. (Pubitemid 18098810)
    • (1988) Biometrics , vol.44 , Issue.1 , pp. 35-47
    • Segal, M.R.1
  • 18
    • 33644874819 scopus 로고    scopus 로고
    • From genomics to chemical genomics: New developments in KEGG
    • Kanehisa M, Goto S, Hattori M et al: From genomics to chemical genomics: new developments in KEGG. Nucleic Acids Res 2006; 34: D354-D357.
    • (2006) Nucleic Acids Res , vol.34
    • Kanehisa, M.1    Goto, S.2    Hattori, M.3
  • 19
    • 19944372078 scopus 로고    scopus 로고
    • Generating survival times to simulate Cox proportional hazards models
    • DOI 10.1002/sim.2059
    • Bender R, Augustin T, Blettner M: Generating survival times to simulate Cox proportional hazards models. Stat Med 2005; 24: 1713-1723. (Pubitemid 40754090)
    • (2005) Statistics in Medicine , vol.24 , Issue.11 , pp. 1713-1723
    • Bender, R.1    Augustin, T.2    Blettner, M.3
  • 20
    • 35348983887 scopus 로고    scopus 로고
    • A second generation human haplotype map of over 3.1 million SNPs
    • International HapMap Consortium
    • International HapMap Consortium: A second generation human haplotype map of over 3.1 million SNPs. Nature 2007; 449: 851-861.
    • (2007) Nature , vol.449 , pp. 851-861
  • 21
    • 62649155943 scopus 로고    scopus 로고
    • A unified approach to genotype imputation and haplotype phase inference for large data sets of trios and unrelated individuals
    • Browning BL, Browning SR: A unified approach to genotype imputation and haplotype phase inference for large data sets of trios and unrelated individuals. Am J Hum Genet 2009; 84: 210-223.
    • (2009) Am J Hum Genet , vol.84 , pp. 210-223
    • Browning, B.L.1    Browning, S.R.2
  • 23
    • 74549190701 scopus 로고    scopus 로고
    • Prognostic significance of copy-number alterations in multiple myeloma
    • Avet-Loiseau H, Li C, Magrangeas F et al: Prognostic significance of copy-number alterations in multiple myeloma. J Clin Oncol 2009; 27: 4585-4590.
    • (2009) J Clin Oncol , vol.27 , pp. 4585-4590
    • Avet-Loiseau, H.1    Li, C.2    Magrangeas, F.3
  • 24
    • 0042424602 scopus 로고    scopus 로고
    • Statistical significance for genome-wide studies
    • Storey JD, Tibshirani R: Statistical significance for genome-wide studies. PNAS 2003; 100: 9440-9445.
    • (2003) PNAS , vol.100 , pp. 9440-9445
    • Storey, J.D.1    Tibshirani, R.2
  • 26
    • 45149108420 scopus 로고    scopus 로고
    • Mapping the genetic architecture of gene expression in human liver
    • Schadt EE, Molony C, Chudin E et al: Mapping the genetic architecture of gene expression in human liver. Plos Biol 2008; 6: e107.
    • (2008) Plos Biol , vol.6
    • Schadt, E.E.1    Molony, C.2    Chudin, E.3
  • 27
    • 0038370952 scopus 로고    scopus 로고
    • A review of the cytokine network in multiple myeloma: Diagnostic, prognostic, and therapeutic implications
    • DOI 10.1002/cncr.11072
    • Lauta VM: A review of the cytokine network in multiple myeloma: diagnostic, prognostic, and therapeutic implications. Cancer 2003; 97: 2440-2452. (Pubitemid 36542483)
    • (2003) Cancer , vol.97 , Issue.10 , pp. 2440-2452
    • Lauta, V.M.1
  • 29
    • 55249115329 scopus 로고    scopus 로고
    • Caspase polymorphisms and genetic susceptibility to multiple myeloma
    • Hosgood III HD, Baris D, Zhang Y et al: Caspase polymorphisms and genetic susceptibility to multiple myeloma. Hematol Oncol 2008; 26: 148-151.
    • (2008) Hematol Oncol , vol.26 , pp. 148-151
    • Hosgood Iii, H.D.1    Baris, D.2    Zhang, Y.3
  • 31
    • 1542263998 scopus 로고    scopus 로고
    • Caspase activation is required for gemcitabine activity in multiple myeloma cell lines
    • Nabhan C, Gajria D, Krett NL, Gandhi V, Ghias K, Rosen ST: Caspase activation is required for gemcitabine activity in multiple myeloma cell lines. Mol Cancer Ther 2002; 1: 1221-1227.
    • (2002) Mol Cancer Ther , vol.1 , pp. 1221-1227
    • Nabhan, C.1    Gajria, D.2    Krett, N.L.3    Gandhi, V.4    Ghias, K.5    Rosen, S.T.6
  • 33
    • 33644861751 scopus 로고    scopus 로고
    • New treatment strategies for multiple myeloma by targeting BCL-2 and the mevalonate pathway
    • Van de Donk NW, Bloem AC, Van der Spek E, Lokhorst HM: New treatment strategies for multiple myeloma by targeting BCL-2 and the mevalonate pathway. Curr Pharm Des 2006; 12: 327-340.
    • (2006) Curr Pharm des , vol.12 , pp. 327-340
    • Van De Donk, N.W.1    Bloem, A.C.2    Van Der Spek, E.3    Lokhorst, H.M.4
  • 35
    • 33645769276 scopus 로고    scopus 로고
    • High-resolution genomic profiles define distinct clinico-pathogenetic subgroups of multiple myeloma patients
    • Carrasco DR, Tonon G, Huang Y et al: High-resolution genomic profiles define distinct clinico-pathogenetic subgroups of multiple myeloma patients. Cancer Cell 2006; 9: 313-325.
    • (2006) Cancer Cell , vol.9 , pp. 313-325
    • Carrasco, D.R.1    Tonon, G.2    Huang, Y.3
  • 36
    • 0033121314 scopus 로고    scopus 로고
    • Role of NF-κB in the rescue of multiple myeloma cells from glucocorticoid-induced apoptosis by bcl-2
    • Feinman R, Koury J, Thames M, Barlogie B, Epstein J, Siegel DS: Role of NF-kappaB in the rescue of multiple myeloma cells from glucocorticoid-induced apoptosis by bcl-2. Blood 1999; 93: 3044-3052. (Pubitemid 29200797)
    • (1999) Blood , vol.93 , Issue.9 , pp. 3044-3052
    • Feinman, R.1    Koury, J.2    Thames, M.3    Barlogie, B.4    Epstein, J.5    Siegel, D.S.6
  • 37
    • 55949134663 scopus 로고    scopus 로고
    • Infusion of haplo-identical killer immunoglobulinlike receptor ligand mismatched NK cells for relapsed myeloma in the setting of autologous stem cell transplantation
    • Shi J, Tricot G, Szmania S et al: Infusion of haplo-identical killer immunoglobulinlike receptor ligand mismatched NK cells for relapsed myeloma in the setting of autologous stem cell transplantation. Br J Haematol 2008; 143: 641-653.
    • (2008) Br J Haematol , vol.143 , pp. 641-653
    • Shi, J.1    Tricot, G.2    Szmania, S.3
  • 38
    • 0034651023 scopus 로고    scopus 로고
    • Expression of functional interleukin-15 receptor and autocrine production of interleukin-15 as mechanisms of tumor propagation in multiple myeloma
    • Tinhofer I, Marschitz I, Henn T, Egle A, Greil R: Expression of functional interleukin-15 receptor and autocrine production of interleukin-15 as mechanisms of tumor propagation in multiple myeloma. Blood 2000; 95: 610-618. (Pubitemid 30041677)
    • (2000) Blood , vol.95 , Issue.2 , pp. 610-618
    • Tinhofer, I.1    Marschitz, I.2    Henn, T.3    Egle, A.4    Greil, R.5
  • 39
    • 34247869006 scopus 로고    scopus 로고
    • Serum levels of Interleukin-15 and Interleukin-10 and their correlation with proliferating cell nuclear antigen in multiple myeloma
    • DOI 10.1016/j.cyto.2007.02.022, PII S1043466607000361
    • Pappa C, Miyakis S, Tsirakis G et al: Serum levels of interleukin-15 and interleukin-10 and their correlation with proliferating cell nuclear antigen in multiple myeloma. Cytokine 2007; 37: 171-175. (Pubitemid 46694336)
    • (2007) Cytokine , vol.37 , Issue.2 , pp. 171-175
    • Pappa, C.1    Miyakis, S.2    Tsirakis, G.3    Sfiridaki, A.4    Alegakis, A.5    Kafousi, M.6    Stathopoulos, E.N.7    Alexandrakis, M.G.8
  • 41
    • 0036835015 scopus 로고    scopus 로고
    • Interleukin-18 inhibits lodging and subsequent growth of human multiple myeloma cells in the bone marrow
    • Yamashita K, Iwasaki T, Tsujimura T et al: Interleukin-18 inhibits lodging and subsequent growth of human multiple myeloma cells in the bone marrow. Oncol Rep 2002; 9: 1237-1244.
    • (2002) Oncol Rep , vol.9 , pp. 1237-1244
    • Yamashita, K.1    Iwasaki, T.2    Tsujimura, T.3
  • 42
    • 12444311696 scopus 로고    scopus 로고
    • Biphasic anti-osteoclastic action of intravenous alendronate therapy in multiple myeloma bone disease
    • Kitano M, Ogata A, Sekiguchi M, Hamano T, Sano H: Biphasic anti-osteoclastic action of intravenous alendronate therapy in multiple myeloma bone disease. J Bone Miner Metab 2005; 23: 48-52.
    • (2005) J Bone Miner Metab , vol.23 , pp. 48-52
    • Kitano, M.1    Ogata, A.2    Sekiguchi, M.3    Hamano, T.4    Sano, H.5
  • 44
    • 77953351710 scopus 로고    scopus 로고
    • An application of Random Forests to a genome-wide association dataset: Methodological considerations & new findings
    • Goldstein B, Hubbard A, Cutler A, Barcellos L: An application of Random Forests to a genome-wide association dataset: methodological considerations & new findings. BMC Genet 2010; 11: 49.
    • (2010) BMC Genet , vol.11 , pp. 49
    • Goldstein, B.1    Hubbard, A.2    Cutler, A.3    Barcellos, L.4
  • 46
    • 0029150074 scopus 로고
    • A comparison of linkage disequilibrium measures for fine-mapping
    • Devlin B, Risch N: A comparison of linkage disequilibrium measures for fine-mapping. Genomics 1995; 29: 311-322.
    • (1995) Genomics , vol.29 , pp. 311-322
    • Devlin, B.1    Risch, N.2
  • 47
    • 64549095229 scopus 로고    scopus 로고
    • Performance of random forest when SNPs are in linkage disequilibrium
    • Meng Y, Yu Y, Cupples L, Farrer L, Lunetta K: Performance of random forest when SNPs are in linkage disequilibrium. BMC Bioinformatics 2009; 10: 78.
    • (2009) BMC Bioinformatics , vol.10 , pp. 78
    • Meng, Y.1    Yu, Y.2    Cupples, L.3    Farrer, L.4    Lunetta, K.5
  • 48
    • 70149101114 scopus 로고    scopus 로고
    • Using genome-wide pathway analysis to unravel the etiology of complex diseases
    • Elbers C, Van Eijk K, Franke L et al: Using genome-wide pathway analysis to unravel the etiology of complex diseases. Genet Epidemiol 2009; 33: 419-431.
    • (2009) Genet Epidemiol , vol.33 , pp. 419-431
    • Elbers, C.1    Van Eijk, K.2    Franke, L.3


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.