메뉴 건너뛰기




Volumn 18, Issue 3, 2011, Pages 507-522

Algorithms for detecting significantly mutated pathways in cancer

Author keywords

Algorithms; cancer genomes; pathways; statistical significance

Indexed keywords

ALGORITHM; BIOLOGICAL MODEL; CONFERENCE PAPER; GENETICS; HUMAN; MUTATION; NEOPLASM;

EID: 79952389826     PISSN: 10665277     EISSN: None     Source Type: Journal    
DOI: 10.1089/cmb.2010.0265     Document Type: Conference Paper
Times cited : (320)

References (42)
  • 1
    • 3342986584 scopus 로고    scopus 로고
    • Notch signaling and cancer: Emerging complexity
    • DOI 10.1016/j.semcancer.2004.04.010, PII S1044579X04000276
    • Axelson, H. 2004. Notch signaling and cancer: Emerging complexity. Semin. Cancer Biol. 14, 317-319. (Pubitemid 38993632)
    • (2004) Seminars in Cancer Biology , vol.14 , Issue.5 , pp. 317-319
    • Axelson, H.1
  • 4
    • 0035733108 scopus 로고    scopus 로고
    • The control of the false discovery rate in multiple testing under dependency
    • DOI 10.1214/aos/1013699998
    • Benjamini, Y., and Yekutieli, D. 2001. The control of the false discovery rate in multiple testing under dependency. Ann. Stat. 29, 1165-1188. (Pubitemid 33575263)
    • (2001) Annals of Statistics , vol.29 , Issue.4 , pp. 1165-1188
    • Benjamini, Y.1    Yekutieli, D.2
  • 5
    • 35348891430 scopus 로고    scopus 로고
    • Network-based classification of breast cancer metastasis
    • Chuang, H.Y., Lee, E., Liu, Y.T., et al. 2007. Network-based classification of breast cancer metastasis. Mol. Syst. Biol. 3, 140.
    • (2007) Mol. Syst. Biol. , vol.3 , pp. 140
    • Chuang, H.Y.1    Lee, E.2    Liu, Y.T.3
  • 6
    • 38049186509 scopus 로고    scopus 로고
    • The heat kernel as the pagerank of a graph
    • Chung, F. 2007. The heat kernel as the pagerank of a graph. Proc. Nat. Acad. Sci. USA 104, 19735.
    • (2007) Proc. Nat. Acad. Sci. USA , vol.104 , pp. 19735
    • Chung, F.1
  • 7
    • 3342979755 scopus 로고    scopus 로고
    • Notch in lung development and lung cancer
    • DOI 10.1016/j.semcancer.2004.04.015, PII S1044579X0400032X
    • Collins, B.J., Kleeberger, W., and Ball, D.W. 2004. Notch in lung development and lung cancer. Semin. Cancer Biol. 14, 357-364. (Pubitemid 38993637)
    • (2004) Seminars in Cancer Biology , vol.14 , Issue.5 , pp. 357-364
    • Collins, B.J.1    Kleeberger, W.2    Ball, D.W.3
  • 8
    • 37349068664 scopus 로고    scopus 로고
    • A map of human cancer signaling
    • Cui, Q., Ma, Y., Jaramillo, M., et al. 2007. A map of human cancer signaling. Mol. Syst. Biol. 3, 152.
    • (2007) Mol. Syst. Biol. , vol.3 , pp. 152
    • Cui, Q.1    Ma, Y.2    Jaramillo, M.3
  • 9
    • 54549094903 scopus 로고    scopus 로고
    • Somatic mutations affect key pathways in lung adenocarcinoma
    • Ding, L., Getz, G., Wheeler, D.A., et al. 2008. Somatic mutations affect key pathways in lung adenocarcinoma. Nature 455, 1069-1075.
    • (2008) Nature , vol.455 , pp. 1069-1075
    • Ding, L.1    Getz, G.2    Wheeler, D.A.3
  • 11
  • 13
    • 0036561908 scopus 로고    scopus 로고
    • Modelling the molecular circuitry of cancer
    • Hahn, W.C., and Weinberg, R.A. 2002. Modelling the molecular circuitry of cancer. Nat. Rev. Cancer 2, 331-341. (Pubitemid 37328946)
    • (2002) Nature Reviews Cancer , vol.2 , Issue.5 , pp. 331-341
    • Hahn, W.C.1    Weinberg, R.A.2
  • 14
    • 78650263469 scopus 로고    scopus 로고
    • Evaluating between-pathway models with expression data
    • Hescott, B.J., Leiserson, M.D.M., Cowen, L., et al. 2009. Evaluating between-pathway models with expression data. Proc. RECOMB 2009 372-385.
    • (2009) Proc. RECOMB , vol.2009 , pp. 372-385
    • Hescott, B.J.1    Leiserson, M.D.M.2    Cowen, L.3
  • 17
    • 0000801240 scopus 로고    scopus 로고
    • Discovering regulatory and signalling circuits in molecular interaction networks
    • Ideker, T., Ozier, O., Schwikowski, B., et al. 2002 Discovering regulatory and signalling circuits in molecular interaction networks. Bioinformatics 18, Suppl 1, S233-S240. (Pubitemid 41185658)
    • (2002) Bioinformatics , vol.18 , Issue.SUPPL. 1
    • Ideker, T.1    Ozier, O.2    Schwikowski, B.3    Siegel, A.F.4
  • 18
    • 58149193234 scopus 로고    scopus 로고
    • STRING 8 - A global view on proteins and their functional interactions in 630 organisms
    • Jensen, L.J., Kuhn, M., Stark, M., et al. 2009. STRING 8-a global view on proteins and their functional interactions in 630 organisms. Nucleic Acids Res. 37, D412-D416.
    • (2009) Nucleic Acids Res. , vol.37
    • Jensen, L.J.1    Kuhn, M.2    Stark, M.3
  • 19
    • 52149123619 scopus 로고    scopus 로고
    • Core signaling pathways in human pancreatic cancers revealed by global genomic analyses
    • Jones, S., Zhang, X., Parsons, D.W., et al. 2008. Core signaling pathways in human pancreatic cancers revealed by global genomic analyses. Science 321, 1801-1806.
    • (2008) Science , vol.321 , pp. 1801-1806
    • Jones, S.1    Zhang, X.2    Parsons, D.W.3
  • 20
    • 33748706765 scopus 로고    scopus 로고
    • Global topological features of cancer proteins in the human interactome
    • DOI 10.1093/bioinformatics/btl390
    • Jonsson, P.F., and Bates, P.A. 2006. Global topological features of cancer proteins in the human interactome. Bioinformatics 22, 2291-2297. (Pubitemid 44390886)
    • (2006) Bioinformatics , vol.22 , Issue.18 , pp. 2291-2297
    • Jonsson, P.F.1    Bates, P.A.2
  • 21
    • 0033982936 scopus 로고    scopus 로고
    • KEGG: Kyoto Encyclopedia of Genes and Genomes
    • Kanehisa, M., and Goto, S. 2000. KEGG: Kyoto Encyclopedia of Genes and Genomes. Nucleic Acids Res. 28, 27-30. (Pubitemid 30047706)
    • (2000) Nucleic Acids Research , vol.28 , Issue.1 , pp. 27-30
    • Kanehisa, M.1    Goto, S.2
  • 22
    • 59649125020 scopus 로고    scopus 로고
    • A network-based method for predicting disease-causing genes
    • Karni, S., Soreq, H., and Sharan, R. 2009. A network-based method for predicting disease-causing genes. J. Comput. Biol. 16, 181-189.
    • (2009) J. Comput. Biol. , vol.16 , pp. 181-189
    • Karni, S.1    Soreq, H.2    Sharan, R.3
  • 24
    • 70350662979 scopus 로고    scopus 로고
    • An efficient rigorous approach for identifying statistically significant frequent itemsets
    • Kirsch, A., Mitzenmacher, M., Pietracaprina, A., et al. 2009. An efficient rigorous approach for identifying statistically significant frequent itemsets. PODS 117-126.
    • (2009) PODS , pp. 117-126
    • Kirsch, A.1    Mitzenmacher, M.2    Pietracaprina, A.3
  • 25
    • 0041775676 scopus 로고    scopus 로고
    • Diffusion kernels on graphs and other discrete structures
    • Kondor, R.I., and Lafferty, J. 2002. Diffusion kernels on graphs and other discrete structures. Proc. ICML 315-322.
    • (2002) Proc. ICML , pp. 315-322
    • Kondor, R.I.1    Lafferty, J.2
  • 27
    • 34347326247 scopus 로고    scopus 로고
    • Network-based analysis of affected biological processes in type 2 diabetes models
    • Liu, M., Liberzon, A., Kong., S.W., et al. 2007. Network-based analysis of affected biological processes in type 2 diabetes models. PLoS Genet. 3, e96.
    • (2007) PLoS Genet. , vol.3
    • Liu, M.1    Liberzon, A.2    Kong., S.W.3
  • 28
    • 43449138964 scopus 로고
    • Combinatorics. Paul Erdös Is Eighty (Volume 2)
    • Lovász, L. 1993. Random walks on graphs: A survey, 1-46. Combinatorics. Paul Erdös Is Eighty (Volume 2).
    • (1993) Random Walks on Graphs: A Survey , pp. 1-46
    • Lovász, L.1
  • 29
    • 33846700890 scopus 로고    scopus 로고
    • CGI: A new approach for prioritizing genes by combining gene expression and protein-protein interaction data
    • DOI 10.1093/bioinformatics/btl569
    • Ma, X., Lee, H., Wang, L., et al. 2007. CGI: A new approach for prioritizing genes by combining gene expression and protein-protein interaction data. Bioinformatics 23, 215-221. (Pubitemid 46189612)
    • (2007) Bioinformatics , vol.23 , Issue.2 , pp. 215-221
    • Ma, X.1    Lee, H.2    Wang, L.3    Sun, F.4
  • 30
    • 0033435103 scopus 로고    scopus 로고
    • Signalling networks that cause cancer
    • McCormick, F. 1999. Signalling networks that cause cancer. Trends Cell Biol. 9, M53-M56.
    • (1999) Trends Cell Biol. , vol.9
    • McCormick, F.1
  • 31
    • 29144442904 scopus 로고    scopus 로고
    • Whole-proteome prediction of protein function via graph-theoretic analysis of interaction maps
    • DOI 10.1093/bioinformatics/bti1054
    • Nabieva, E., Jim, K., Agarwal, A., et al. 2005. Whole-proteome prediction of protein function via graph-theoretic analysis of interaction maps. Bioinformatics 21, Suppl 1, i302-i310. (Pubitemid 41794502)
    • (2005) Bioinformatics , vol.21 , Issue.SUPPL. 1
    • Nabieva, E.1    Jim, K.2    Agarwal, A.3    Chazelle, B.4    Singh, M.5
  • 32
    • 34248593385 scopus 로고    scopus 로고
    • Gene expression network analysis and applications to immunology
    • DOI 10.1093/bioinformatics/btm019
    • Nacu, S., Critchley-Thorne, R., Lee, P., et al. 2007. Gene expression network analysis and applications to immunology. Bioinformatics 23, 850-858. (Pubitemid 47049919)
    • (2007) Bioinformatics , vol.23 , Issue.7 , pp. 850-858
    • Nacu, S.1    Critchley-Thorne, R.2    Lee, P.3    Holmes, S.4
  • 33
    • 52949127312 scopus 로고    scopus 로고
    • An integrated genomic analysis of human glioblastoma multiforme
    • Parsons, D.W., Jones, S., Zhang, X., et al. 2008. An integrated genomic analysis of human glioblastoma multiforme. Science 321, 1807-1812.
    • (2008) Science , vol.321 , pp. 1807-1812
    • Parsons, D.W.1    Jones, S.2    Zhang, X.3
  • 34
    • 57149103917 scopus 로고    scopus 로고
    • Finding friends and enemies in an enemies-only network: A graph diffusion kernel for predicting novel genetic interactions and co-complex membership from yeast genetic interactions
    • Qi, Y., Suhail, Y., Lin, Y.Y., et al. 2008. Finding friends and enemies in an enemies-only network: A graph diffusion kernel for predicting novel genetic interactions and co-complex membership from yeast genetic interactions. Genome Res. 18, 1991-2004.
    • (2008) Genome Res. , vol.18 , pp. 1991-2004
    • Qi, Y.1    Suhail, Y.2    Lin, Y.Y.3
  • 38
    • 54549108740 scopus 로고    scopus 로고
    • Comprehensive genomic characterization defines human glioblastoma genes and core pathways
    • TCGA (The Cancer Genome Atlas Research Network)
    • TCGA (The 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
  • 39
    • 19544368196 scopus 로고    scopus 로고
    • Learning kernels from biological networks by maximizing entropy
    • DOI 10.1093/bioinformatics/bth906
    • Tsuda, K., and Noble, W. S. 2004. Learning kernels from biological networks by maximizing entropy. Bioinformatics 20, Suppl 1, i326-i333. (Pubitemid 41296706)
    • (2004) Bioinformatics , vol.20 , Issue.SUPPL. 1
    • Tsuda, K.1    Noble, W.S.2
  • 40
    • 65449146537 scopus 로고    scopus 로고
    • Detecting disease-specific dysregulated pathways via analysis of clinical expression profiles
    • Ulitsky, I., Karp, R. M., and Shamir, R. 2008. Detecting disease-specific dysregulated pathways via analysis of clinical expression profiles. Proc. RECOMB 2008 347-359.
    • (2008) Proc. RECOMB , vol.2008 , pp. 347-359
    • Ulitsky, I.1    Karp, R.M.2    Shamir, R.3
  • 41
    • 4043181214 scopus 로고    scopus 로고
    • Cancer genes and the pathways they control
    • DOI 10.1038/nm1087
    • Vogelstein, B., and Kinzler, K. W. 2004. Cancer genes and the pathways they control. Nat. Med. 10, 789-799. (Pubitemid 39070849)
    • (2004) Nature Medicine , vol.10 , Issue.8 , pp. 789-799
    • Vogelstein, B.1    Kinzler, K.W.2


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.