메뉴 건너뛰기




Volumn 21, Issue 13, 2005, Pages 3017-3024

False discovery rate, sensitivity and sample size for microarray studies

Author keywords

[No Author keywords available]

Indexed keywords

ACCURACY; ARTICLE; BIOINFORMATICS; CALCULATION; COMPARATIVE STUDY; DATA ANALYSIS; DNA MICROARRAY; GENE EXPRESSION; METHODOLOGY; MODEL; PRIORITY JOURNAL; SAMPLE SIZE; SENSITIVITY ANALYSIS;

EID: 21444454257     PISSN: 13674803     EISSN: 13674811     Source Type: Journal    
DOI: 10.1093/bioinformatics/bti448     Document Type: Article
Times cited : (363)

References (38)
  • 1
    • 13244271361 scopus 로고    scopus 로고
    • Determination of the differentially expressed genes in microarray experiments using local FDR
    • Aubert,J. et al. (2004) Determination of the differentially expressed genes in microarray experiments using local FDR. BMC Bioinformatics, 5, 125-133.
    • (2004) BMC Bioinformatics , vol.5 , pp. 125-133
    • Aubert, J.1
  • 2
    • 0001677717 scopus 로고
    • Controlling the false discovery rate: A practical and powerful approach to multiple testing
    • Benjamini,Y. and Hochberg,Y. (1995) Controlling the false discovery rate: a practical and powerful approach to multiple testing. J. R. Stat. Soc. Ser. B, 57, 289-300.
    • (1995) J. R. Stat. Soc. Ser. B , vol.57 , pp. 289-300
    • Benjamini, Y.1    Hochberg, Y.2
  • 3
    • 0034370950 scopus 로고    scopus 로고
    • On the adaptive control of the false discovery rate in multiple testing with independent statistics
    • Benjamini,Y. and Hochberg,Y. (2000) On the adaptive control of the false discovery rate in multiple testing with independent statistics. J. Edu. Behav. Stat., 25, 60-83.
    • (2000) J. Edu. Behav. Stat. , vol.25 , pp. 60-83
    • Benjamini, Y.1    Hochberg, Y.2
  • 4
    • 0030669030 scopus 로고    scopus 로고
    • Exploring the metabolic and genetic control of gene expression on a genomic scale
    • DeRisi,J.L. et al. (1997) Exploring the metabolic and genetic control of gene expression on a genomic scale. Science, 278, 680-686.
    • (1997) Science , vol.278 , pp. 680-686
    • DeRisi, J.L.1
  • 5
    • 19544383638 scopus 로고    scopus 로고
    • Sample size determination in microarray experiments for class comparison and prognostic classification
    • Dobbin,K. and Simon,R. (2005) Sample size determination in microarray experiments for class comparison and prognostic classification. Biostatistics, 6, 27-38.
    • (2005) Biostatistics , vol.6 , pp. 27-38
    • Dobbin, K.1    Simon, R.2
  • 6
    • 0141506137 scopus 로고    scopus 로고
    • Questions and answers on design of dual-label microarrays for identifying differentially expressed genes
    • Dobbin,K. et al. (2003) Questions and answers on design of dual-label microarrays for identifying differentially expressed genes. J. Natl Cancer Inst., 95, 1362-1369.
    • (2003) J. Natl. Cancer Inst. , vol.95 , pp. 1362-1369
    • Dobbin, K.1
  • 7
    • 0036376993 scopus 로고    scopus 로고
    • Statistical methods for identifying differentially expressed genes in replicated cDNA microarray experiments
    • Dudoit,S. et al. (2002) Statistical methods for identifying differentially expressed genes in replicated cDNA microarray experiments. Stat. Sin., 12, 111-139.
    • (2002) Stat. Sin. , vol.12 , pp. 111-139
    • Dudoit, S.1
  • 8
    • 2142732441 scopus 로고    scopus 로고
    • Large-scale simultaneous hypothesis testing: The choice of a null hypothesis
    • Efron,B. (2004) Large-scale simultaneous hypothesis testing: the choice of a null hypothesis. J. Am. Stat. Assoc., 99, 96-104.
    • (2004) J. Am. Stat. Assoc. , vol.99 , pp. 96-104
    • Efron, B.1
  • 9
    • 0035992248 scopus 로고    scopus 로고
    • Empirical Bayes methods and false discovery rates for microarrays
    • Efron,B. and Tibshirani,R. (2002) Empirical Bayes methods and false discovery rates for microarrays. Genet Epidemiol., 23, 70-86.
    • (2002) Genet. Epidemiol. , vol.23 , pp. 70-86
    • Efron, B.1    Tibshirani, R.2
  • 10
    • 1542784653 scopus 로고    scopus 로고
    • Empirical Bayes analysis of a microarray experiment
    • Efron,B. et al. (2001) Empirical Bayes analysis of a microarray experiment. J. Am. Stat. Assoc., 96, 1151-1160.
    • (2001) J. Am. Stat. Assoc. , vol.96 , pp. 1151-1160
    • Efron, B.1
  • 11
    • 4344593785 scopus 로고    scopus 로고
    • Power and sample size estimation in high dimensional biology
    • Gadbury,G.L. et al. (2004) Power and sample size estimation in high dimensional biology. Stat Methods Med. Res., 13, 325-338.
    • (2004) Stat. Methods Med. Res. , vol.13 , pp. 325-338
    • Gadbury, G.L.1
  • 12
    • 0036020944 scopus 로고    scopus 로고
    • Operating characteristics and extensions of the false discovery procedure
    • Genovese,C. and Wasserman,L. (2002) Operating characteristics and extensions of the false discovery procedure. J. R. Stat. Soc. Ser. B, 64, 499-517.
    • (2002) J. R. Stat. Soc. Ser. B , vol.64 , pp. 499-517
    • Genovese, C.1    Wasserman, L.2
  • 14
    • 0002294347 scopus 로고
    • A simple sequentially rejective multiple test procedure
    • Holm,S. (1979) A simple sequentially rejective multiple test procedure. Scand. J. Stat., 6, 65-70.
    • (1979) Scand. J. Stat. , vol.6 , pp. 65-70
    • Holm, S.1
  • 15
    • 0036580893 scopus 로고    scopus 로고
    • Controlling therate of type I error over a large set of statistical tests
    • Keselman,H.J. et al. (2002) Controlling therate of type I error over a large set of statistical tests. Br. J. Math. Stat. Psychol., 55, 27-39.
    • (2002) Br. J. Math. Stat. Psychol. , vol.55 , pp. 27-39
    • Keselman, H.J.1
  • 16
    • 0037114470 scopus 로고    scopus 로고
    • Power and sample size for DNA microway studies
    • Lee,M.L. and Whitmore,G.A. (2002) Power and sample size for DNA microway studies. Stat. Med., 21, 3543-3570.
    • (2002) Stat. Med. , vol.21 , pp. 3543-3570
    • Lee, M.L.1    Whitmore, G.A.2
  • 17
    • 0000847978 scopus 로고    scopus 로고
    • Gene-expression profile of the ageing brain in mice
    • Lee,C.-K. et al. (2000) Gene-expression profile of the ageing brain in mice. Nat. Genet., 25, 294-297.
    • (2000) Nat. Genet. , vol.25 , pp. 294-297
    • Lee, C.-K.1
  • 18
    • 0036105484 scopus 로고    scopus 로고
    • Gene-microarray analysis of multiple sclerosis lesions yields new targets validated in autoimmume encephalomyelitis
    • Lock,C. et al. (2002) Gene-microarray analysis of multiple sclerosis lesions yields new targets validated in autoimmume encephalomyelitis. Nat. Med., 8, 500-508.
    • (2002) Nat. Med. , vol.8 , pp. 500-508
    • Lock, C.1
  • 19
    • 10844254626 scopus 로고    scopus 로고
    • Optimal sample size for multiple testing: The case of gene expression microarray
    • Müller,P. et al. (2004) Optimal sample size for multiple testing: the case of gene expression microarray. J. Am. Stat. Assoc., 99, 990-1001.
    • (2004) J. Am. Stat. Assoc. , vol.99 , pp. 990-1001
    • Müller, P.1
  • 20
    • 0242361278 scopus 로고    scopus 로고
    • Predictive ability of DNA microarrays for cancer outcomes and correlates: An empirical assessment
    • Ntzani,E.E. and Ioannidis,J.P. (2003) Predictive ability of DNA microarrays for cancer outcomes and correlates: an empirical assessment. Lancet, 361, 1439-1444.
    • (2003) Lancet , vol.361 , pp. 1439-1444
    • Ntzani, E.E.1    Ioannidis, J.P.2
  • 21
    • 0036051492 scopus 로고    scopus 로고
    • How many replicates of arrays are required to detect gene expression changes in microarray experiments? A mixture model approach
    • research0022.1-research0022.10
    • Pan,W. et al. (2002) How many replicates of arrays are required to detect gene expression changes in microarray experiments? A mixture model approach. Genome Biol., 3, research0022.1-research0022.10.
    • (2002) Genome Biol. , vol.3
    • Pan, W.1
  • 22
    • 0141626917 scopus 로고    scopus 로고
    • The effect of replication on gene expression micorarray experiments
    • Pavlidis,P. et al. (2003) The effect of replication on gene expression micorarray experiments. Bioinformatics, 19, 1620-1627.
    • (2003) Bioinformatics , vol.19 , pp. 1620-1627
    • Pavlidis, P.1
  • 23
    • 25444494145 scopus 로고    scopus 로고
    • Using correlations to evaluate low-level analysis procedures for high-density oligonucleotide microarray data
    • Ploner,A. et al. (2005) Using correlations to evaluate low-level analysis procedures for high-density oligonucleotide microarray data. BMC Bioinformatics, 6, 80.
    • (2005) BMC Bioinformatics , vol.6 , pp. 80
    • Ploner, A.1
  • 24
    • 0037433040 scopus 로고    scopus 로고
    • Identifying differentially expressed genes using false discovery rate controlling procedures
    • Reiner,A. et al. (2003) Identifying differentially expressed genes using false discovery rate controlling procedures. Bioinformatics, 19, 368-375.
    • (2003) Bioinformatics , vol.19 , pp. 368-375
    • Reiner, A.1
  • 25
    • 0037142053 scopus 로고    scopus 로고
    • The use of molecular profiling to predict survival after chemotherapy for diffuse large-B-cell lymphoma
    • Rosenwald,A. et al. (2002) The use of molecular profiling to predict survival after chemotherapy for diffuse large-B-cell lymphoma. N. Engl. J. Med., 346, 1937-1947.
    • (2002) N. Engl. J. Med. , vol.346 , pp. 1937-1947
    • Rosenwald, A.1
  • 26
    • 11944262819 scopus 로고
    • Multiple hypotheses testing
    • Shaffer,J.P. (1995) Multiple hypotheses testing. Annu. Rev. Psychol., 46, 561-584.
    • (1995) Annu. Rev. Psychol. , vol.46 , pp. 561-584
    • Shaffer, J.P.1
  • 27
    • 0034126944 scopus 로고    scopus 로고
    • Gene expression profiles of human endometrial cancer samples using a cDNA-expression array technique: Assesment of an analysis method
    • Smid-Koopman,E. et al. (2000) Gene expression profiles of human endometrial cancer samples using a cDNA-expression array technique: assesment of an analysis method. Br. J. Cancer, 83, 246-251.
    • (2000) Br. J. Cancer , vol.83 , pp. 246-251
    • Smid-Koopman, E.1
  • 28
    • 0036020892 scopus 로고    scopus 로고
    • A direct approach to false discovery rates
    • Storey,J.D. (2002) A direct approach to false discovery rates. J. R. Stat. Soc. Ser. B, 64, 479-498.
    • (2002) J. R. Stat. Soc. Ser. B , vol.64 , pp. 479-498
    • Storey, J.D.1
  • 29
    • 0042424602 scopus 로고    scopus 로고
    • Statistical significance for genomewide studies
    • Storey,J.D. and Tibshirani,R. (2003) Statistical significance for genomewide studies. Proc. Natl Acad. Sci. USA, 100, 9440-9445.
    • (2003) Proc. Natl. Acad. Sci. USA , vol.100 , pp. 9440-9445
    • Storey, J.D.1    Tibshirani, R.2
  • 30
    • 21444446380 scopus 로고    scopus 로고
    • The 'miss rate' for the analysis of gene expression data
    • Taylor,J. et al. (2005) The 'miss rate' for the analysis of gene expression data. Biostatistics, 6, 111-117.
    • (2005) Biostatistics , vol.6 , pp. 111-117
    • Taylor, J.1
  • 31
    • 0037076272 scopus 로고    scopus 로고
    • Diagnosis of multiple cancer types by shrunken centroids of gene expression
    • Tibshirani,R. et al. (2002) Diagnosis of multiple cancer types by shrunken centroids of gene expression. Proc. Natl Acad. Sci. USA, 99, 6567-6572.
    • (2002) Proc. Natl. Acad. Sci. USA , vol.99 , pp. 6567-6572
    • Tibshirani, R.1
  • 32
    • 0035942271 scopus 로고    scopus 로고
    • Significance analysis of microarrays applied to the ionizing radiation response
    • Tusher,V. et al. (2001) Significance analysis of microarrays applied to the ionizing radiation response. Proc. Natl Acad. Sci. USA, 98, 5116-5121.
    • (2001) Proc. Natl. Acad. Sci. USA , vol.98 , pp. 5116-5121
    • Tusher, V.1
  • 33
    • 4544298732 scopus 로고    scopus 로고
    • Sample size for identifying differentially expressed genes in microarray experiments
    • Wang,S.-J. and Chen,J.-J. (2004) Sample size for identifying differentially expressed genes in microarray experiments. J. Comput. Biol., 11, 714-726.
    • (2004) J. Comput. Biol. , vol.11 , pp. 714-726
    • Wang, S.-J.1    Chen, J.-J.2
  • 35
    • 0032787555 scopus 로고    scopus 로고
    • Microarray analysis of Drosophila development during metamorphosis
    • White,K.P. et al. (1999) Microarray analysis of Drosophila development during metamorphosis. Science, 286, 2179-2184.
    • (1999) Science , vol.286 , pp. 2179-2184
    • White, K.P.1
  • 36
    • 3042661571 scopus 로고    scopus 로고
    • Design and analysis of comparative microarray experiments
    • Speed,T. (ed.), Chapman and Hall/CRC, Boca Raton, FL
    • Yang,Y.H. and Speed,T. (2003) Design and analysis of comparative microarray experiments. In Speed,T. (ed.), Statistical Analysis of Gene Expression Microarray Data. Chapman and Hall/CRC, Boca Raton, FL, pp. 35-92.
    • (2003) Statistical Analysis of Gene Expression Microarray Data , pp. 35-92
    • Yang, Y.H.1    Speed, T.2
  • 37
    • 1842535253 scopus 로고    scopus 로고
    • Microarray experimental design: Power and sample size considerations
    • Yang,M.C.K. et al. (2003) Microarray experimental design: power and sample size considerations. Physiol. Genomics, 16, 24-28.
    • (2003) Physiol. Genomics , vol.16 , pp. 24-28
    • Yang, M.C.K.1
  • 38
    • 0242606431 scopus 로고    scopus 로고
    • Microarrays: How many do you need?
    • Zien,A. et al. (2003) Microarrays: how many do you need? J. Comput. Biol., 10, 653-667.
    • (2003) J. Comput. Biol. , vol.10 , pp. 653-667
    • Zien, A.1


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.