메뉴 건너뛰기




Volumn 9, Issue SUPPL. 6, 2008, Pages

Improving the power for detecting overlapping genes from multiple DNA microarray-derived gene lists

Author keywords

[No Author keywords available]

Indexed keywords

DNA MICRO-ARRAY; DNA MICROARRAY GENE EXPRESSIONS; MICROARRAY GENE EXPRESSION; MONTE-CARLO SIMULATIONS; MULTIPLE GENES; OVERLAPPING GENES; SIMPLE OPERATION; VENN DIAGRAMS;

EID: 47249121732     PISSN: None     EISSN: 14712105     Source Type: Journal    
DOI: 10.1186/1471-2105-9-S6-S14     Document Type: Article
Times cited : (17)

References (28)
  • 1
    • 11144242842 scopus 로고    scopus 로고
    • Transcriptomic fingerprinting of bone marrow-derived hepatic beta2m-/ Thy-1+ stem cells
    • 10.1016/j.bbrc.2004.11.159 15629456
    • Wang C Chelly MR Chai N Tan Y Hui T Li H et al.Transcriptomic fingerprinting of bone marrow-derived hepatic beta2m-/Thy-1+ stem cells Biochem Biophys Res Commun 2005, 327:252-260 10.1016/j.bbrc.2004.11.159 15629456
    • (2005) Biochem Biophys Res Commun , vol.327 , pp. 252-260
    • Wang, C.1    Chelly, M.R.2    Chai, N.3    Tan, Y.4    Hui, T.5    Li, H.6
  • 2
    • 33748495591 scopus 로고    scopus 로고
    • Rat toxicogenomic study reveals analytical consistency across microarray platforms
    • 10.1038/nbt1238 17061323
    • Guo L Lobenhofer EK Wang C Shippy R Harris SC Zhang L et al. Rat toxicogenomic study reveals analytical consistency across microarray platforms Nat Biotechnol 2006, 24:1162-1169 10.1038/nbt1238 17061323
    • (2006) Nat Biotechnol , vol.24 , pp. 1162-1169
    • Guo, L.1    Lobenhofer, E.K.2    Wang, C.3    Shippy, R.4    Harris, S.C.5    Zhang, L.6
  • 3
    • 30344486684 scopus 로고    scopus 로고
    • Integrating time-course microarray gene expression profiles with cytotoxicity for identification of biomarkers in primary rat hepatocytes exposed to cadmium
    • 10.1093/bioinformatics/bti737 16249259
    • Tan Y Shi L Hussain SM Xu J Tong W Frazier JM et al. Integrating time-course microarray gene expression profiles with cytotoxicity for identification of biomarkers in primary rat hepatocytes exposed to cadmium Bioinformatics 2006, 22:77-87 10.1093/bioinformatics/bti737 16249259
    • (2006) Bioinformatics , vol.22 , pp. 77-87
    • Tan, Y.1    Shi, L.2    Hussain, S.M.3    Xu, J.4    Tong, W.5    Frazier, J.M.6
  • 4
    • 30044448566 scopus 로고    scopus 로고
    • In vivo transcriptional profile analysis reveals RNA splicing and chromatin remodeling as prominent processes for adult neurogenesis
    • 10.1016/j.mcn.2005.10.005 16330219
    • Lim DA Suarez-Farinas M Naef F Hacker CR Menn B Takebayashi H et al. In vivo transcriptional profile analysis reveals RNA splicing and chromatin remodeling as prominent processes for adult neurogenesis Mol Cell Neurosci 2006, 31:131-148 10.1016/j.mcn.2005.10.005 16330219
    • (2006) Mol Cell Neurosci , vol.31 , pp. 131-148
    • Lim, D.A.1    Suarez-Farinas, M.2    Naef, F.3    Hacker, C.R.4    Menn, B.5    Takebayashi, H.6
  • 5
    • 23244447197 scopus 로고    scopus 로고
    • Significance testing for small microarray experiments
    • 10.1002/sim.2109 15889452
    • Kooperberg C Aragaki A Strand AD Olson JM Significance testing for small microarray experiments Stat Med 2005, 24:2281-2298 10.1002/sim.2109 15889452
    • (2005) Stat Med , vol.24 , pp. 2281-2298
    • Kooperberg, C.1    Aragaki, A.2    Strand, A.D.3    Olson, J.M.4
  • 6
    • 21244444543 scopus 로고    scopus 로고
    • Gene selection for microarray data analysis using principal component analysis
    • 10.1002/sim.2082 15806617
    • Wang A Gehan EA Gene selection for microarray data analysis using principal component analysis Stat Med 2005, 24:2069-2087 10.1002/ sim.2082 15806617
    • (2005) Stat Med , vol.24 , pp. 2069-2087
    • Wang, A.1    Gehan, E.A.2
  • 7
    • 0034948896 scopus 로고    scopus 로고
    • A Bayesian framework for the analysis of microarray expression data: Regularized t-test and statistical inferences of gene changes
    • 10.1093/bioinformatics/17.6.509 11395427
    • Baldi P Long AD A Bayesian framework for the analysis of microarray expression data: Regularized t-test and statistical inferences of gene changes Bioinformatics 2001, 17:509-519 10.1093/bioinformatics/17.6.509 11395427
    • (2001) Bioinformatics , vol.17 , pp. 509-519
    • Baldi, P.1    Long, A.D.2
  • 8
    • 0035942271 scopus 로고    scopus 로고
    • Significance analysis of microarrays applied to the ionizing radiation response
    • 33173 11309499 10.1073/pnas.091062498
    • Tusher VG Tibshirani R Chu G Significance analysis of microarrays applied to the ionizing radiation response Proc Natl Acad Sci USA 2001, 98:5116-5121 33173 11309499 10.1073/pnas.091062498
    • (2001) Proc Natl Acad Sci USA , vol.98 , pp. 5116-5121
    • Tusher, V.G.1    Tibshirani, R.2    Chu, G.3
  • 9
    • 0043005476 scopus 로고    scopus 로고
    • Bioequivalence trials, intersection-union tests, and equivalence confidence sets
    • 10.1214/ss/1032280304
    • Berger RL Hsu JC Bioequivalence trials, intersection-union tests, and equivalence confidence sets Statistical Science 1996, 11:283-319 10.1214/ ss/1032280304
    • (1996) Statistical Science , vol.11 , pp. 283-319
    • Berger, R.L.1    Hsu, J.C.2
  • 10
    • 84919436881 scopus 로고
    • Multiparameter hypothesis testing and acceptance sampling
    • 10.2307/1267823
    • Berger RL Multiparameter hypothesis testing and acceptance sampling Technometrics 1982, 24:295-300 10.2307/1267823
    • (1982) Technometrics , vol.24 , pp. 295-300
    • Berger, R.L.1
  • 11
    • 29244448340 scopus 로고    scopus 로고
    • Microarray data analysis: From disarray to consolidation and consensus
    • 10.1038/nrg1749 16369572
    • Allison DB Cui X Page GP Sabripour M Microarray data analysis: From disarray to consolidation and consensus Nat Rev Genet 2006, 7:55-65 10.1038/nrg1749 16369572
    • (2006) Nat Rev Genet , vol.7 , pp. 55-65
    • Allison, D.B.1    Cui, X.2    Page, G.P.3    Sabripour, M.4
  • 14
    • 0036020892 scopus 로고    scopus 로고
    • A direct approach to false discovery rates
    • 10.1111/1467-9868.00346
    • Storey J A direct approach to false discovery rates J R Statist Soc B 2002, 64:479-498 10.1111/1467-9868.00346
    • (2002) J R Statist Soc B , vol.64 , pp. 479-498
    • Storey, J.1
  • 16
    • 0003583491 scopus 로고
    • San Diego, California, USA: Academic Press Inc, Harcourt Brace Jovanovich Publishers
    • Hedges LV Olkin I Statistical Methods for Meta-analysis San Diego, California, USA: Academic Press Inc, Harcourt Brace Jovanovich Publishers 1985
    • (1985) Statistical Methods for Meta-analysis
    • Hedges, L.V.1    Olkin, I.2
  • 17
    • 33748491517 scopus 로고    scopus 로고
    • The MicroArray Quality Control (MAQC) project shows inter- And intraplatform reproducibility of gene expression measurements
    • 10.1038/nbt1239 16964229
    • Shi L Reid LH Jones WD Shippy R Warrington JA Baker SC The MicroArray Quality Control (MAQC) project shows inter- and intraplatform reproducibility of gene expression measurements Nat Biotechnol 2006, 24:1151-1161 10.1038/nbt1239 16964229
    • (2006) Nat Biotechnol , vol.24 , pp. 1151-1161
    • Shi, L.1    Reid, L.H.2    Jones, W.D.3    Shippy, R.4    Warrington, J.A.5    Baker, S.C.6
  • 18
    • 13744261323 scopus 로고    scopus 로고
    • Multi-class cancer classification by total principal component regression (TPCR) using microarray gene expression data 5
    • 546133 15640445 10.1093/nar/gki144
    • Tan Y Shi L Tong W Wang C Multi-class cancer classification by total principal component regression (TPCR) using microarray gene expression data 5 Nucleic Acids Res 2005, 33:56-65 546133 15640445 10.1093/nar/ gki144
    • (2005) Nucleic Acids Res , vol.33 , pp. 56-65
    • Tan, Y.1    Shi, L.2    Tong, W.3    Wang, C.4
  • 20
    • 0033982936 scopus 로고    scopus 로고
    • KEGG: Kyoto encyclopedia of genes and genomes
    • 102409 10592173 10.1093/nar/28.1.27
    • Kanehisa M Goto S KEGG: Kyoto encyclopedia of genes and genomes Nucleic Acids Res 2000, 28:27-30 102409 10592173 10.1093/nar/28.1.27
    • (2000) Nucleic Acids Res , vol.28 , pp. 27-30
    • Kanehisa, M.1    Goto, S.2
  • 21
    • 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 Genet 1997, 13:375-376 10.1016/S0168-9525(97)01223-7 9287494
    • (1997) Trends Genet , vol.13 , pp. 375-376
    • Kanehisa, M.1
  • 23
    • 33947357707 scopus 로고    scopus 로고
    • Effect of mercury, cadmium, nickel, chromium and zinc on kinetic properties of NADPH-cytochrome P450 reductase purified from leaping mullet (Liza saliens)
    • 10.1016/j.tiv.2006.10.002 17113746
    • Bozcaarmutlu A Arinc E Effect of mercury, cadmium, nickel, chromium and zinc on kinetic properties of NADPH-cytochrome P450 reductase purified from leaping mullet (Liza saliens) Toxicol In Vitro 2007, 21:408-416 10.1016/j.tiv.2006.10.002 17113746
    • (2007) Toxicol In Vitro , vol.21 , pp. 408-416
    • Bozcaarmutlu, A.1    Arinc, E.2
  • 24
    • 2442457476 scopus 로고    scopus 로고
    • Effects of chronic exposure to cadmium on renal cytochrome P450-dependent monooxygenase system in rats
    • 10.1007/s00204-003-0529-9 14595535
    • Plewka A Plewka D Nowaczyk G Brzoska MM Kaminski M Moniuszko-Jakoniuk J Effects of chronic exposure to cadmium on renal cytochrome P450-dependent monooxygenase system in rats Arch Toxicol 2004, 78:194-200 10.1007/s00204-003-0529-9 14595535
    • (2004) Arch Toxicol , vol.78 , pp. 194-200
    • Plewka, A.1    Plewka, D.2    Nowaczyk, G.3    Brzoska, M.M.4    Kaminski, M.5    Moniuszko-Jakoniuk, J.6
  • 25
    • 0035154716 scopus 로고    scopus 로고
    • Lead toxicity in cyanobacterial porphyrin metabolism
    • 10.1002/1522-7278(2001)16:1<61::AID-TOX70>3.0.CO;2-L 11345546
    • Zaccaro MC Salazar C Zulpa dC Storni dC Stella AM Lead toxicity in cyanobacterial porphyrin metabolism Environ Toxicol 2001, 16:61-67 10.1002/1522-7278(2001)16:1<61::AID-TOX70>3.0.CO;2-L 11345546
    • (2001) Environ Toxicol , vol.16 , pp. 61-67
    • Zaccaro, M.C.1    Salazar, C.2    Zulpa, D.C.3    Storni, D.C.4    Stella, A.M.5
  • 26
    • 34447545755 scopus 로고    scopus 로고
    • Involvement of mitogen-activated protein kinase signaling pathways in microcystin-LR-induced apoptosis after its selective uptake mediated by OATP1B1 and OATP1B3
    • 10.1093/toxsci/kfm054 17369605
    • Komatsu M Furukawa T Ikeda R Takumi S Nong Q Aoyama K et al. Involvement of mitogen-activated protein kinase signaling pathways in microcystin-LR-induced apoptosis after its selective uptake mediated by OATP1B1 and OATP1B3 Toxicol Sci 2007 97 407 416 10.1093/toxsci/kfm054 17369605
    • (2007) Toxicol Sci , vol.97 , pp. 407-416
    • Komatsu, M.1    Furukawa, T.2    Ikeda, R.3    Takumi, S.4    Nong, Q.5    Aoyama, K.6
  • 28
    • 0003812858 scopus 로고    scopus 로고
    • Statistical methods for identifying differentially expressed genes in replicated cDNA microarray experiments
    • Dudoit S Yang Y Matthew J Speed TP Statistical methods for identifying differentially expressed genes in replicated cDNA microarray experiments 2000
    • (2000)
    • Dudoit, S.1    Yang, Y.2    Matthew, J.3    Speed, T.P.4


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.