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Volumn 28, Issue 12, 2012, Pages 1612-1618

Stability of gene rankings from RNAi screens

Author keywords

[No Author keywords available]

Indexed keywords

ANIMAL; ARTICLE; BIOLOGY; COMPARATIVE STUDY; COMPUTER SIMULATION; DROSOPHILA; GENE SILENCING; GENETICS; METHODOLOGY; REPRODUCIBILITY; RNA INTERFERENCE; STATISTICAL MODEL;

EID: 84863521990     PISSN: 13674803     EISSN: 14602059     Source Type: Journal    
DOI: 10.1093/bioinformatics/bts192     Document Type: Article
Times cited : (6)

References (37)
  • 1
    • 23844442475 scopus 로고    scopus 로고
    • Genome-wide RNAi screen for host factors required for intracellular bacterial infection
    • Agaisse, H. et al. (2005) Genome-wide RNAi screen for host factors required for intracellular bacterial infection. Science, 309, 1248-1251.
    • (2005) Science , vol.309 , pp. 1248-1251
    • Agaisse, H.1
  • 2
    • 12144289681 scopus 로고    scopus 로고
    • A large-scale RNAi screen in human cells identifies new components of the p53 pathway
    • Berns, K. et al. (2004) A large-scale RNAi screen in human cells identifies new components of the p53 pathway. Nature, 428, 431-437.
    • (2004) Nature , vol.428 , pp. 431-437
    • Berns, K.1
  • 3
    • 77955985403 scopus 로고    scopus 로고
    • The beautiful cell: high-content screening in drug discovery
    • Bickle, M. (2010) The beautiful cell: high-content screening in drug discovery. Anal. Bioanal. Chem., 398, 219-226.
    • (2010) Anal. Bioanal. Chem. , vol.398 , pp. 219-226
    • Bickle, M.1
  • 4
    • 69249085408 scopus 로고    scopus 로고
    • Stability and aggregation of ranked gene lists
    • Boulesteix, A.-L. and Slawski, M. (2009) Stability and aggregation of ranked gene lists. Brief. Bioinformatics, 10, 556-568.
    • (2009) Brief. Bioinformatics , vol.10 , pp. 556-568
    • Boulesteix, A.-L.1    Slawski, M.2
  • 5
    • 0842309871 scopus 로고    scopus 로고
    • Genome-wide RNAi analysis of growth and viability in Drosophila cells
    • Boutros, M. et al. (2004) Genome-wide RNAi analysis of growth and viability in Drosophila cells. Science, 303, 832-835.
    • (2004) Science , vol.303 , pp. 832-835
    • Boutros, M.1
  • 6
    • 68049139405 scopus 로고    scopus 로고
    • What have RNAi screens taught us about viral-host interactions?
    • Cherry, S. (2009) What have RNAi screens taught us about viral-host interactions? Curr. Opin. Microbiol., 12, 446-452.
    • (2009) Curr. Opin. Microbiol. , vol.12 , pp. 446-452
    • Cherry, S.1
  • 7
    • 33749023011 scopus 로고    scopus 로고
    • Minimizing the risk of reporting false positives in large-scale RNAi screens
    • Echeverri, C.J. et al. (2006) Minimizing the risk of reporting false positives in large-scale RNAi screens. Nat. Meth., 3, 777-779.
    • (2006) Nat. Meth. , vol.3 , pp. 777-779
    • Echeverri, C.J.1
  • 8
    • 0002344794 scopus 로고
    • Bootstrap methods: another look at the Jackknife
    • Efron, B. (1979) Bootstrap methods: another look at the Jackknife. Ann. Stat., 7, 1-26.
    • (1979) Ann. Stat. , vol.7 , pp. 1-26
    • Efron, B.1
  • 9
    • 49249093918 scopus 로고    scopus 로고
    • Reproducibility-optimized test statistic for ranking genes in microarray studies
    • Elo, L.L. et al. (2008) Reproducibility-optimized test statistic for ranking genes in microarray studies. IEEE/ACM Trans. Comput. Biol. Bioinform., 5, 423-431.
    • (2008) IEEE/ACM Trans. Comput. Biol. Bioinform. , vol.5 , pp. 423-431
    • Elo, L.L.1
  • 11
    • 0032545933 scopus 로고    scopus 로고
    • Potent and specific genetic interference by double-stranded RNA in Caenorhabditis elegans
    • Fire, A. et al. (1998) Potent and specific genetic interference by double-stranded RNA in Caenorhabditis elegans. Nature, 391, 806-811.
    • (1998) Nature , vol.391 , pp. 806-811
    • Fire, A.1
  • 12
    • 0036161259 scopus 로고    scopus 로고
    • Gene selection for cancer classification using support vector machines
    • Guyon, I. et al. (2002) Gene selection for cancer classification using support vector machines. Mach. Learn., 46, 389-422.
    • (2002) Mach. Learn. , vol.46 , pp. 389-422
    • Guyon, I.1
  • 13
    • 73949095371 scopus 로고    scopus 로고
    • Using the bootstrap to quantify the authority of an empirical ranking
    • Hall, P. and Miller, H. (2009). Using the bootstrap to quantify the authority of an empirical ranking. The Annals of Statistics, 37, 3929-3959.
    • (2009) The Annals of Statistics , vol.37 , pp. 3929-3959
    • Hall, P.1    Miller, H.2
  • 14
    • 77957683077 scopus 로고    scopus 로고
    • Modeling the variability of rankings
    • Hall, P. and Miller, H. (2010). Modeling the variability of rankings. The Annals of Statistics, 38, 2652-2677.
    • (2010) The Annals of Statistics , vol.38 , pp. 2652-2677
    • Hall, P.1    Miller, H.2
  • 15
    • 0037062951 scopus 로고    scopus 로고
    • RNA interference
    • Hannon, G.J. (2002) RNA interference. Nature, 418, 244-251.
    • (2002) Nature , vol.418 , pp. 244-251
    • Hannon, G.J.1
  • 16
    • 49649127852 scopus 로고    scopus 로고
    • Drosophila RNAi screen identifies host genes important for influenza virus replication
    • Hao, L. et al. (2008) Drosophila RNAi screen identifies host genes important for influenza virus replication. Nature, 454, 890-893.
    • (2008) Nature , vol.454 , pp. 890-893
    • Hao, L.1
  • 17
    • 76749090540 scopus 로고    scopus 로고
    • Genome-wide RNAi screen identifies human host factors crucial for influenza virus replication
    • Karlas, A. et al. (2010) Genome-wide RNAi screen identifies human host factors crucial for influenza virus replication. Nature, 463, 818-822.
    • (2010) Nature , vol.463 , pp. 818-822
    • Karlas, A.1
  • 18
    • 36749016685 scopus 로고    scopus 로고
    • Genome-scale RNAi profiling of cell division in human tissue culture cells
    • Kittler, R. et al. (2007) Genome-scale RNAi profiling of cell division in human tissue culture cells. Nat. Cell Biol., 9, 1401-1412.
    • (2007) Nat. Cell Biol. , vol.9 , pp. 1401-1412
    • Kittler, R.1
  • 19
    • 35848929692 scopus 로고    scopus 로고
    • Aprobability-based approach for the analysis of large-scale RNAi screens
    • König, R. et al. (2007)Aprobability-based approach for the analysis of large-scale RNAi screens. Nat. Meth., 4, 847-849.
    • (2007) Nat. Meth. , vol.4 , pp. 847-849
    • König, R.1
  • 20
    • 33748961513 scopus 로고    scopus 로고
    • A comparison of univariate and multivariate gene selection techniques for classification of cancer datasets
    • Lai, C. et al. (2006) A comparison of univariate and multivariate gene selection techniques for classification of cancer datasets. BMC Bioinformatics, 7, 235.
    • (2006) BMC Bioinformatics , vol.7 , pp. 235
    • Lai, C.1
  • 22
    • 4644336023 scopus 로고    scopus 로고
    • Revealing the world of RNAinterference
    • Mello, C.C. and Conte, D. (2004) Revealing the world of RNAinterference. Nature, 431, 338-342.
    • (2004) Nature , vol.431 , pp. 338-342
    • Mello, C.C.1    Conte, D.2
  • 23
    • 79952732716 scopus 로고    scopus 로고
    • RNAi screen of Salmonella invasion shows role of COPI in membrane targeting of cholesterol and Cdc42
    • Misselwitz, B. et al. (2011) RNAi screen of Salmonella invasion shows role of COPI in membrane targeting of cholesterol and Cdc42. Mol. Syst. Biol., 7:474.
    • (2011) Mol. Syst. Biol. , vol.7 , pp. 474
    • Misselwitz, B.1
  • 24
    • 22944483397 scopus 로고    scopus 로고
    • Gene ranking using bootstrapped p-values
    • Mukherjee, S.N. et al. (2003) Gene ranking using bootstrapped p-values. ACMSIGKDD Explor. Newslett., 5, 6.
    • (2003) ACMSIGKDD Explor. Newslett. , vol.5 , pp. 6
    • Mukherjee, S.N.1
  • 25
    • 27544493681 scopus 로고    scopus 로고
    • Data-adaptive test statistics for microarray data
    • Mukherjee, S.N. et al. (2005) Data-adaptive test statistics for microarray data. Bioinformatics, 21, 108-114.
    • (2005) Bioinformatics , vol.21 , pp. 108-114
    • Mukherjee, S.N.1
  • 26
    • 33645306041 scopus 로고    scopus 로고
    • Aloss-of-function RNAinterference screen for molecular targets in cancer
    • Ngo, V.N. et al. (2006)Aloss-of-function RNAinterference screen for molecular targets in cancer. Nature, 441, 106-110.
    • (2006) Nature , vol.441 , pp. 106-110
    • Ngo, V.N.1
  • 27
    • 0141626917 scopus 로고    scopus 로고
    • The effect of replication on gene expression microarray experiments
    • Pavlidis, P. (2003) The effect of replication on gene expression microarray experiments. Bioinformatics, 19, 1620-1627.
    • (2003) Bioinformatics , vol.19 , pp. 1620-1627
    • Pavlidis, P.1
  • 28
    • 23844531867 scopus 로고    scopus 로고
    • Drosophila RNAi screen reveals CD36 family member required for mycobacterial infection
    • Philips, J.A. et al. (2005) Drosophila RNAi screen reveals CD36 family member required for mycobacterial infection. Science, 309, 1251-1253.
    • (2005) Science , vol.309 , pp. 1251-1253
    • Philips, J.A.1
  • 29
    • 65249115735 scopus 로고    scopus 로고
    • RankAggreg, an R package for weighted rank aggregation
    • Pihur, V. et al. (2009) RankAggreg, an R package for weighted rank aggregation. BMC Bioinformatics, 10, 62.
    • (2009) BMC Bioinformatics , vol.10 , pp. 62
    • Pihur, V.1
  • 30
    • 17844387370 scopus 로고    scopus 로고
    • A computational study of off-target effects of RNA interference
    • Qiu, S. et al. (2005) A computational study of off-target effects of RNA interference. Nucleic Acids Res., 33, 1834-1847.
    • (2005) Nucleic Acids Res , vol.33 , pp. 1834-1847
    • Qiu, S.1
  • 31
    • 33645024314 scopus 로고    scopus 로고
    • Assessing stability of gene selection in microarray data analysis
    • Qiu, X. et al. (2006) Assessing stability of gene selection in microarray data analysis. BMC Bioinformatics, 7, 12.
    • (2006) BMC Bioinformatics , vol.7 , pp. 12
    • Qiu, X.1
  • 32
    • 0037061482 scopus 로고    scopus 로고
    • Functional genomic analysis of phagocytosis and identification of a Drosophila receptor for E. coli
    • Rämet, M. et al. (2002) Functional genomic analysis of phagocytosis and identification of a Drosophila receptor for E. coli. Nature, 416, 644-648.
    • (2002) Nature , vol.416 , pp. 644-648
    • Rämet, M.1
  • 33
    • 79954424659 scopus 로고    scopus 로고
    • Shigella flexneri type III secreted effector OspF reveals new crosstalks of proinflammatory signaling pathways during bacterial infection
    • Reiterer, V. et al. (2011) Shigella flexneri type III secreted effector OspF reveals new crosstalks of proinflammatory signaling pathways during bacterial infection. Cell. Signal., 23, 1188-1196.
    • (2011) Cell. Signal. , vol.23 , pp. 1188-1196
    • Reiterer, V.1
  • 34
    • 77952944114 scopus 로고    scopus 로고
    • A combined ex vivo and in vivo RNAi screen for Notch regulators in Drosophila reveals an extensive Notch interaction network
    • Saj, A. et al. (2010) A combined ex vivo and in vivo RNAi screen for Notch regulators in Drosophila reveals an extensive Notch interaction network. Dev. Cell, 18, 862-876.
    • (2010) Dev. Cell , vol.18 , pp. 862-876
    • Saj, A.1
  • 35
    • 77955372959 scopus 로고    scopus 로고
    • Stability of ranked gene lists in large microarray analysis studies
    • Stiglic, G. and Kokol, P. (2010) Stability of ranked gene lists in large microarray analysis studies. J. Biomed. Biotechnol., 2010, 616358.
    • (2010) J. Biomed. Biotechnol. , vol.2010 , pp. 616358
    • Stiglic, G.1    Kokol, P.2
  • 36
    • 81355161216 scopus 로고    scopus 로고
    • Bartonella henselae engages inside-out and outside-in signaling by integrin β1 and talin1 during invasome-mediated bacterial uptake
    • Truttmann, M.C. et al. (2011) Bartonella henselae engages inside-out and outside-in signaling by integrin β1 and talin1 during invasome-mediated bacterial uptake. J. Cell Sci., 124(Pt 21), 3591-602.
    • (2011) J. Cell Sci. , vol.124 , Issue.PART 21 , pp. 3591-3602
    • Truttmann, M.C.1
  • 37
    • 55249088255 scopus 로고    scopus 로고
    • Genome-scale RNAi screen for host factors required for HIV replication
    • Zhou, H. et al. (2008) Genome-scale RNAi screen for host factors required for HIV replication. Cell Host Microbe, 4, 495-504.
    • (2008) Cell Host Microbe , vol.4 , pp. 495-504
    • Zhou, H.1


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