메뉴 건너뛰기




Volumn 11, Issue , 2010, Pages

Testing for mean and correlation changes in microarray experiments: An application for pathway analysis

Author keywords

[No Author keywords available]

Indexed keywords

BIOLOGICAL FUNCTIONS; DIFFERENTIALLY EXPRESSED GENE; GENE SET ENRICHMENT ANALYSIS; MICROARRAY EXPERIMENTS; NON-PARAMETRIC; PATHWAY ANALYSIS; SIMULATION STUDIES; TRANSCRIPT LEVEL;

EID: 77949537758     PISSN: None     EISSN: 14712105     Source Type: Journal    
DOI: 10.1186/1471-2105-11-60     Document Type: Article
Times cited : (16)

References (28)
  • 1
    • 0035704901 scopus 로고    scopus 로고
    • Profiling gene expression using onto-express
    • 10.1006/geno.2002.6698, 11829497
    • Khatri P, Draghici S, Ostermeier G, Krawetz S. Profiling gene expression using onto-express. Genomics 2002, 79(2):266-270. 10.1006/geno.2002.6698, 11829497.
    • (2002) Genomics , vol.79 , Issue.2 , pp. 266-270
    • Khatri, P.1    Draghici, S.2    Ostermeier, G.3    Krawetz, S.4
  • 2
    • 0037293075 scopus 로고    scopus 로고
    • Global functional profiling of gene expression
    • 10.1016/S0888-7543(02)00021-6, 12620386
    • Draghici S, Khatri P, Martins R, Ostermeier G, Krawetz S. Global functional profiling of gene expression. Genomics 2003, 81(2):98-104. 10.1016/S0888-7543(02)00021-6, 12620386.
    • (2003) Genomics , vol.81 , Issue.2 , pp. 98-104
    • Draghici, S.1    Khatri, P.2    Martins, R.3    Ostermeier, G.4    Krawetz, S.5
  • 6
    • 18744389489 scopus 로고    scopus 로고
    • Significance analysis of functional categories in gene expression studies: a structured permutation approach
    • 10.1093/bioinformatics/bti260, 15647293
    • Barry W, Nobel A, Wright F. Significance analysis of functional categories in gene expression studies: a structured permutation approach. Bioinformatics 2005, 21(9):1943-1949. 10.1093/bioinformatics/bti260, 15647293.
    • (2005) Bioinformatics , vol.21 , Issue.9 , pp. 1943-1949
    • Barry, W.1    Nobel, A.2    Wright, F.3
  • 8
    • 0345832338 scopus 로고    scopus 로고
    • A global test for groups of genes: testing association with a clinical outcome
    • 10.1093/bioinformatics/btg382, 14693814
    • Goeman J, Geer S, de Kort F, van Houwelingen H. A global test for groups of genes: testing association with a clinical outcome. Bioinformatics 2004, 20:93-99. 10.1093/bioinformatics/btg382, 14693814.
    • (2004) Bioinformatics , vol.20 , pp. 93-99
    • Goeman, J.1    Geer, S.2    de Kort, F.3    van Houwelingen, H.4
  • 9
    • 33750007469 scopus 로고    scopus 로고
    • A multivariate approach for integrating genome-wide expression data and biological knowledge
    • 10.1093/bioinformatics/btl401, 2813864, 16877751
    • Kong S, Pu W, Park P. A multivariate approach for integrating genome-wide expression data and biological knowledge. Bioinformatics 2006, 22(19):2373. 10.1093/bioinformatics/btl401, 2813864, 16877751.
    • (2006) Bioinformatics , vol.22 , Issue.19 , pp. 2373
    • Kong, S.1    Pu, W.2    Park, P.3
  • 10
    • 38949165049 scopus 로고    scopus 로고
    • Comparative evaluation of gene-set analysis methods
    • 10.1186/1471-2105-8-431, 2238724, 17988400
    • Liu Q, Dinu I, Adewale A, Potter J, Yasui Y. Comparative evaluation of gene-set analysis methods. BMC Bioinformatics 2007, 8:431. 10.1186/1471-2105-8-431, 2238724, 17988400.
    • (2007) BMC Bioinformatics , vol.8 , pp. 431
    • Liu, Q.1    Dinu, I.2    Adewale, A.3    Potter, J.4    Yasui, Y.5
  • 11
    • 3042745465 scopus 로고    scopus 로고
    • Statistical concerns about the GSEA procedure
    • 10.1038/ng0704-663a, 15226741
    • Damian D, Gorfine M. Statistical concerns about the GSEA procedure. Nature Genetics 2004, 36(7):663. 10.1038/ng0704-663a, 15226741.
    • (2004) Nature Genetics , vol.36 , Issue.7 , pp. 663
    • Damian, D.1    Gorfine, M.2
  • 12
    • 0029127521 scopus 로고
    • Testing the Fit of a Regression Model Via Score Tests in Random Effects Models
    • 10.2307/2532948, 7662848
    • le Cessie S, van Houwelingen H. Testing the Fit of a Regression Model Via Score Tests in Random Effects Models. Biometrics 1995, 51(2):600-614. 10.2307/2532948, 7662848.
    • (1995) Biometrics , vol.51 , Issue.2 , pp. 600-614
    • le Cessie, S.1    van Houwelingen, H.2
  • 14
    • 34547113767 scopus 로고    scopus 로고
    • Hepatic gene expression changes in hypothyroid juvenile mice: Characterization of a novel negative thyroid responsive element
    • en.2007-0452
    • Dong H, Yauk CL, Williams A, Lee A, Douglas GR, Wade MG. Hepatic gene expression changes in hypothyroid juvenile mice: Characterization of a novel negative thyroid responsive element. Endocrinology 2007, en.2007-0452.
    • (2007) Endocrinology
    • Dong, H.1    Yauk, C.L.2    Williams, A.3    Lee, A.4    Douglas, G.R.5    Wade, M.G.6
  • 15
    • 69949179263 scopus 로고    scopus 로고
    • Induction of the interleukin 6/signal transducer and activator of transcription pathway in the lungs of mice sub-chronically exposed to mainstream tobacco smoke
    • 10.1186/1755-8794-2-56, 2737544, 19698101
    • Halappanavar S, Russell M, Stampfli MR, Williams A, Yauk CL. Induction of the interleukin 6/signal transducer and activator of transcription pathway in the lungs of mice sub-chronically exposed to mainstream tobacco smoke. BMC Medical Genomics 2009, 2:56. 10.1186/1755-8794-2-56, 2737544, 19698101.
    • (2009) BMC Medical Genomics , vol.2 , pp. 56
    • Halappanavar, S.1    Russell, M.2    Stampfli, M.R.3    Williams, A.4    Yauk, C.L.5
  • 16
    • 0030921594 scopus 로고    scopus 로고
    • A database for post-genome analysis
    • 10.1016/S0168-9525(97)01223-7, 9287494
    • Kanehisa M. A database for post-genome analysis. Trends in Genetics 1997, 13(9):375-376. 10.1016/S0168-9525(97)01223-7, 9287494.
    • (1997) Trends in Genetics , vol.13 , Issue.9 , pp. 375-376
    • Kanehisa, M.1
  • 17
    • 0033982936 scopus 로고    scopus 로고
    • KEGG: Kyoto encyclopedia of genes and genomes
    • 10.1093/nar/28.1.27, 102409, 10592173
    • Kanehisa M, Goto S. KEGG: Kyoto encyclopedia of genes and genomes. Nucleic acids research 2000, 28:27. 10.1093/nar/28.1.27, 102409, 10592173.
    • (2000) Nucleic acids research , vol.28 , pp. 27
    • Kanehisa, M.1    Goto, S.2
  • 19
    • 0042121055 scopus 로고    scopus 로고
    • Onto-tools, the toolkit of the modern biologist: onto-express, onto-compare, onto-design and onto-translate
    • 10.1093/nar/gkg624, 169030, 12824416
    • Draghici S, Khatri P, Bhavsar P, Shah A, Krawetz S, Tainsky M. Onto-tools, the toolkit of the modern biologist: onto-express, onto-compare, onto-design and onto-translate. Nucleic acids research 2003, 31(13):3775. 10.1093/nar/gkg624, 169030, 12824416.
    • (2003) Nucleic acids research , vol.31 , Issue.13 , pp. 3775
    • Draghici, S.1    Khatri, P.2    Bhavsar, P.3    Shah, A.4    Krawetz, S.5    Tainsky, M.6
  • 20
    • 57649133991 scopus 로고    scopus 로고
    • VENNY. An interactive tool for comparing lists with Venn Diagrams
    • 2223552, 18039769
    • Oliveros J. VENNY. An interactive tool for comparing lists with Venn Diagrams. 2007, 2223552, 18039769.
    • (2007)
    • Oliveros, J.1
  • 21
    • 4644315645 scopus 로고    scopus 로고
    • Studies on the functional relationship between thyroid, adrenal and gonadal hormones
    • Review., 10.1262/jrd.50.9, 15007197
    • Tohei A. Studies on the functional relationship between thyroid, adrenal and gonadal hormones. J Reprod Dev 2004, 50(1):9-20. Review., 10.1262/jrd.50.9, 15007197.
    • (2004) J Reprod Dev , vol.50 , Issue.1 , pp. 9-20
    • Tohei, A.1
  • 22
    • 0024222984 scopus 로고
    • Lipids and thyroid hormones
    • 10.1016/0163-7827(88)90013-6, 3075762
    • Hoch FL. Lipids and thyroid hormones. Prog Lipid Res 1988, 27:199-270. 10.1016/0163-7827(88)90013-6, 3075762.
    • (1988) Prog Lipid Res , vol.27 , pp. 199-270
    • Hoch, F.L.1
  • 23
    • 0026009326 scopus 로고
    • Hypothyroidism and thyroxin substitution affect the n-3 fatty acid composition of rat liver mitochondria
    • 10.1007/BF02536158, 1795599
    • Raederstorff D, Meier CA, Moser U, Walter P. Hypothyroidism and thyroxin substitution affect the n-3 fatty acid composition of rat liver mitochondria. Lipids 1991, 26(10):781-7. 10.1007/BF02536158, 1795599.
    • (1991) Lipids , vol.26 , Issue.10 , pp. 781-787
    • Raederstorff, D.1    Meier, C.A.2    Moser, U.3    Walter, P.4
  • 24
    • 1342294092 scopus 로고    scopus 로고
    • Normalization for cDNA microarray data: a robust composite method addressing single and multiple slide systematic variation
    • 10.1093/nar/30.4.e15, 100354, 11842121
    • Yang YH, Dudoit S, Luu P, Lin DM, Peng V, Ngai J, Speed TP. Normalization for cDNA microarray data: a robust composite method addressing single and multiple slide systematic variation. Nucleic Acids Res 2002, 30:e15. 10.1093/nar/30.4.e15, 100354, 11842121.
    • (2002) Nucleic Acids Res , vol.30
    • Yang, Y.H.1    Dudoit, S.2    Luu, P.3    Lin, D.M.4    Peng, V.5    Ngai, J.6    Speed, T.P.7
  • 25
    • 5344244656 scopus 로고    scopus 로고
    • R: A language and environment for statistical computing
    • Vienna, Austria: R Foundation for Statistical Computing, Team R
    • Team R R: A language and environment for statistical computing. 2008, Vienna, Austria: R Foundation for Statistical Computing, Team R.
    • (2008)
  • 27
    • 0001741834 scopus 로고
    • Intergroup Diversity and Concordance for Ranking Data: An Approach via Metrics for Permutations
    • Feigin P, Alvo M. Intergroup Diversity and Concordance for Ranking Data: An Approach via Metrics for Permutations. The Annals of Statistics 1986, 14(2):691-707.
    • (1986) The Annals of Statistics , vol.14 , Issue.2 , pp. 691-707
    • Feigin, P.1    Alvo, M.2
  • 28
    • 35348890683 scopus 로고    scopus 로고
    • On testing the significance of sets of genes
    • Efron B, Tibshirani R. On testing the significance of sets of genes. Ann Appl Stat 2007, 1(1):107-129.
    • (2007) Ann Appl Stat , vol.1 , Issue.1 , pp. 107-129
    • Efron, B.1    Tibshirani, R.2


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.