-
1
-
-
0037187833
-
Amixture model approach for the analysis of microarray gene expression data
-
Allison, D.B. et al. (2002)Amixture model approach for the analysis of microarray gene expression data. Comput. Stat. Data Anal., 39, 1-20.
-
(2002)
Comput. Stat. Data Anal.
, vol.39
, pp. 1-20
-
-
Allison, D.B.1
-
2
-
-
33846064113
-
NCBI GEO: mining tens of millions of expression profiles-database and tools update
-
Barrett, T. et al. (2007) NCBI GEO: mining tens of millions of expression profiles-database and tools update. Nucleic Acids Res., 35, D760-D765.
-
(2007)
Nucleic Acids Res.
, vol.35
-
-
Barrett, T.1
-
3
-
-
0001677717
-
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
-
4
-
-
0035733108
-
The control of the false discovery rate in multiple testing under dependency
-
Benjamini, Y. and Yekutieli, D. (2001) The control of the false discovery rate in multiple testing under dependency. Ann. Stat., 29, 1165-1188.
-
(2001)
Ann. Stat.
, vol.29
, pp. 1165-1188
-
-
Benjamini, Y.1
Yekutieli, D.2
-
5
-
-
25444452877
-
Acomparative review of estimates of the proportion unchanged genes and the false discovery rate
-
Broberg, P. (2005)Acomparative review of estimates of the proportion unchanged genes and the false discovery rate. BMC Bioinformatics, 6, 199.
-
(2005)
BMC Bioinformatics
, vol.6
, pp. 199
-
-
Broberg, P.1
-
6
-
-
54549108740
-
Comprehensive genomic characterization defines human glioblastoma genes and core pathways
-
Cancer Genome Atlas Research Network
-
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
-
-
-
7
-
-
27944454429
-
Where CD4+CD25+ T reg cells impinge on autoimmune diabetes
-
Chen, Z. et al. (2005) Where CD4+CD25+ T reg cells impinge on autoimmune diabetes. J. Exp. Med., 202, 1387-1397.
-
(2005)
J. Exp. Med.
, vol.202
, pp. 1387-1397
-
-
Chen, Z.1
-
8
-
-
0037276175
-
Statistical tests for differential expression in cDNA microarray experiments
-
Cui, X. and Churchill, G.A. (2003) Statistical tests for differential expression in cDNA microarray experiments. Genome Biol., 4, 210.
-
(2003)
Genome Biol.
, vol.4
, pp. 210
-
-
Cui, X.1
Churchill, G.A.2
-
9
-
-
15844417905
-
A simple procedure for estimating the false discovery rate
-
Dalmasso, C. et al. (2005) A simple procedure for estimating the false discovery rate. Bioinformatics, 21, 660-668.
-
(2005)
Bioinformatics
, vol.21
, pp. 660-668
-
-
Dalmasso, C.1
-
10
-
-
0043203327
-
Multiple hypothesis testing in microarray experiments
-
Dudoit, S. et al. (2003) Multiple hypothesis testing in microarray experiments. Stat. Sci., 18, 71-103.
-
(2003)
Stat. Sci.
, vol.18
, pp. 71-103
-
-
Dudoit, S.1
-
11
-
-
0002344794
-
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
-
12
-
-
33947216221
-
Correlation and large-scale simultaneous significance testing
-
Efron, B. (2007) Correlation and large-scale simultaneous significance testing. J. Am. Stat. Assoc., 102, 93-103.
-
(2007)
J. Am. Stat. Assoc.
, vol.102
, pp. 93-103
-
-
Efron, B.1
-
13
-
-
7244220158
-
De novo kidney transplantation without use of calcineurin inhibitors preserves renal structure and function at two years
-
Flechner, S.M. et al. (2004) De novo kidney transplantation without use of calcineurin inhibitors preserves renal structure and function at two years. Am. J. Transplant., 4, 1776-1785.
-
(2004)
Am. J. Transplant.
, vol.4
, pp. 1776-1785
-
-
Flechner, S.M.1
-
14
-
-
47749153603
-
Nonparametric estimator of false discovery rate based on Bernstein polynomials
-
Guan, Z. et al. (2008) Nonparametric estimator of false discovery rate based on Bernstein polynomials. Stat. Sin., 18, 905-923.
-
(2008)
Stat. Sin.
, vol.18
, pp. 905-923
-
-
Guan, Z.1
-
15
-
-
33845881700
-
Modification of gene expression of the small airway epithelium in response to cigarette smoking
-
Harvey, B.G. et al. (2007) Modification of gene expression of the small airway epithelium in response to cigarette smoking. J. Mol. Med., 85, 39-53.
-
(2007)
J. Mol. Med.
, vol.85
, pp. 39-53
-
-
Harvey, B.G.1
-
16
-
-
49649089074
-
Estimating the proportion of true null hypotheses for multiple comparisons
-
Jiang, H. and Doerge, R.W. (2008) Estimating the proportion of true null hypotheses for multiple comparisons. Cancer Inform., 6, 25-32.
-
(2008)
Cancer Inform.
, vol.6
, pp. 25-32
-
-
Jiang, H.1
Doerge, R.W.2
-
17
-
-
18744410117
-
Applications of beta-mixture models in bioinformatics
-
Ji, Y. et al. (2005) Applications of beta-mixture models in bioinformatics. Bioinformatics, 21, 2118-2122.
-
(2005)
Bioinformatics
, vol.21
, pp. 2118-2122
-
-
Ji, Y.1
-
18
-
-
25144463543
-
Sample size for FDR-control in microarray data analysis
-
Jung, S-H. (2005) Sample size for FDR-control in microarray data analysis. Bioinformatics, 21, 3097-3104.
-
(2005)
Bioinformatics
, vol.21
, pp. 3097-3104
-
-
Jung, S.-H.1
-
19
-
-
34848837945
-
A moment-based method for estimating the proportion of true null hypotheses and its application to microarray gene expression data
-
Lai, Y. (2007) A moment-based method for estimating the proportion of true null hypotheses and its application to microarray gene expression data. Biostatistics, 8, 744-755.
-
(2007)
Biostatistics
, vol.8
, pp. 744-755
-
-
Lai, Y.1
-
20
-
-
25144456446
-
Estimating the proportion of true null hypotheses, with application to DNA microarray data
-
Langaas, M. et al. (2005) Estimating the proportion of true null hypotheses, with application to DNA microarray data. J. R. Stat. Soc. Ser. B, 67, 555-572.
-
(2005)
J. R. Stat. Soc. Ser. B
, vol.67
, pp. 555-572
-
-
Langaas, M.1
-
21
-
-
8844258766
-
A mixture model for estimating the local false discovery rate in DNA microarray analysis
-
Liao, J.G. et al. (2004) A mixture model for estimating the local false discovery rate in DNA microarray analysis. Bioinformatics, 20, 2694-2701.
-
(2004)
Bioinformatics
, vol.20
, pp. 2694-2701
-
-
Liao, J.G.1
-
22
-
-
10544256600
-
Expression monitoring by hybridization to high-density oligonucleotide arrays
-
Lockhart, D. et al. (1996) Expression monitoring by hybridization to high-density oligonucleotide arrays. Nat. Biotechnol., 14, 1675-1680.
-
(1996)
Nat. Biotechnol.
, vol.14
, pp. 1675-1680
-
-
Lockhart, D.1
-
23
-
-
34250173397
-
Re-sampling strategy to improve the estimation of number of null hypotheses in FDR control under strong correlation structures
-
Lu, X. and Perkins, D.L. (2007) Re-sampling strategy to improve the estimation of number of null hypotheses in FDR control under strong correlation structures. BMC Bioinformatics, 18, 157.
-
(2007)
BMC Bioinformatics
, vol.18
, pp. 157
-
-
Lu, X.1
Perkins, D.L.2
-
24
-
-
33745606461
-
A simple implementation of a normal mixture approach to differential gene expression in multiclass microarrays
-
McLachlan, G.J. et al. (2006) A simple implementation of a normal mixture approach to differential gene expression in multiclass microarrays. Bioinformatics, 22, 1608-1615.
-
(2006)
Bioinformatics
, vol.22
, pp. 1608-1615
-
-
McLachlan, G.J.1
-
25
-
-
0004203240
-
-
2nd edn. John Wiley & Sons, Inc., Hoboken, New Jersey
-
McLachlan, G.J. and Krishnan, T. (2008) The EM algorithm and extensions, 2nd edn. John Wiley & Sons, Inc., Hoboken, New Jersey, pp. 18-26.
-
(2008)
The EM algorithm and extensions
, pp. 18-26
-
-
McLachlan, G.J.1
Krishnan, T.2
-
26
-
-
0038054341
-
PGC-1α-response genes involved in oxidative phosphorylation are coordinately downregulated in human diabetes
-
Mootha, V.K. et al. (2003) PGC-1(-response genes involved in oxidative phosphorylation are coordinately downregulated in human diabetes. Nat. Genet., 34, 267-273.
-
(2003)
Nat. Genet.
, vol.34
, pp. 267-273
-
-
Mootha, V.K.1
-
27
-
-
0035047910
-
A whole genome scan for quantitative trait loci affecting milk protein percentage in Israeli-Holstein cattle, by means of selective milk DNA pooling in a daughter design, using an adjusted false discovery rate criterion
-
Mosig, M.O. et al. (2001) A whole genome scan for quantitative trait loci affecting milk protein percentage in Israeli-Holstein cattle, by means of selective milk DNA pooling in a daughter design, using an adjusted false discovery rate criterion. Genetics, 157, 1683-1698.
-
(2001)
Genetics
, vol.157
, pp. 1683-1698
-
-
Mosig, M.O.1
-
28
-
-
45549088326
-
The transcriptional landscape of the yeast genome defined by RNA sequencing
-
Nagalakshmi, U. et al. (2008) The transcriptional landscape of the yeast genome defined by RNA sequencing. Science, 320, 1344-1349.
-
(2008)
Science
, vol.320
, pp. 1344-1349
-
-
Nagalakshmi, U.1
-
29
-
-
33748651016
-
Estimating the number of true null hypotheses from a histogram of p values
-
Nettleton, D. et al. (2006) Estimating the number of true null hypotheses from a histogram of p values. J. Agric. Biol. Environ. Stat., 11, 337-356.
-
(2006)
J. Agric. Biol. Environ. Stat.
, vol.11
, pp. 337-356
-
-
Nettleton, D.1
-
30
-
-
0038156106
-
Estimating the occurrence of false positives and false negatives in microarray studies by approximating and partitioning the empirical distribution of p-values
-
Pounds, S. and Morris, S.W. (2003) Estimating the occurrence of false positives and false negatives in microarray studies by approximating and partitioning the empirical distribution of p-values. Bioinformatics, 19, 1236-1242.
-
(2003)
Bioinformatics
, vol.19
, pp. 1236-1242
-
-
Pounds, S.1
Morris, S.W.2
-
31
-
-
4444294164
-
Improving false discovery rate estimation
-
Pounds, S. and Cheng, C. (2004) Improving false discovery rate estimation. Bioinformatics, 20, 1737-1745.
-
(2004)
Bioinformatics
, vol.20
, pp. 1737-1745
-
-
Pounds, S.1
Cheng, C.2
-
32
-
-
28444492997
-
Sample size determination for the false discovery rate
-
Pounds, S. and Cheng, C. (2005) Sample size determination for the false discovery rate. Bioinformatics, 21, 4263-4271.
-
(2005)
Bioinformatics
, vol.21
, pp. 4263-4271
-
-
Pounds, S.1
Cheng, C.2
-
33
-
-
33747828250
-
Robust estimation of the false discovery rate
-
Pounds, S. and Cheng, C. (2006) Robust estimation of the false discovery rate. Bioinformatics, 22, 1979-1987.
-
(2006)
Bioinformatics
, vol.22
, pp. 1979-1987
-
-
Pounds, S.1
Cheng, C.2
-
34
-
-
48249103955
-
Detrimental effects of Bartonella henselae are counteracted by L-arginine and nitric oxide in human endothelial progenitor cells
-
Salvatore, P. et al. (2008) Detrimental effects of Bartonella henselae are counteracted by L-arginine and nitric oxide in human endothelial progenitor cells. Proc. Natl Acad. Sci. USA, 105, 9427-9432.
-
(2008)
Proc. Natl Acad. Sci. USA
, vol.105
, pp. 9427-9432
-
-
Salvatore, P.1
-
35
-
-
14744272250
-
A stochastic downhill search algorithm for estimating the local false discovery rate
-
Scheid, S. and Spang, R. (2004) A stochastic downhill search algorithm for estimating the local false discovery rate. IEEE Trans. Comput. Biol. Bioinform., 1, 98-108.
-
(2004)
IEEE Trans. Comput. Biol. Bioinform.
, vol.1
, pp. 98-108
-
-
Scheid, S.1
Spang, R.2
-
36
-
-
0028806048
-
Quantitative monitoring of gene expression patterns with a complementary DNA microarray
-
Schena, M. et al. (1995) Quantitative monitoring of gene expression patterns with a complementary DNA microarray. Science, 270, 467-470.
-
(1995)
Science
, vol.270
, pp. 467-470
-
-
Schena, M.1
-
37
-
-
19044391072
-
Gene expression correlates of clinical prostate cancer behavior
-
Singh, D. et al. (2002) Gene expression correlates of clinical prostate cancer behavior. Cancer Cell, 1, 203-209.
-
(2002)
Cancer Cell
, vol.1
, pp. 203-209
-
-
Singh, D.1
-
38
-
-
0036020892
-
A direct approach to false discovery rates
-
Storey, J.D. (2002) A direct approach to false discovery rates. J. R. Stat. Soc. B, 64, 479-498.
-
(2002)
J. R. Stat. Soc. B
, vol.64
, pp. 479-498
-
-
Storey, J.D.1
-
39
-
-
0042424602
-
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
-
40
-
-
0346102887
-
Estimation of false discovery rates in multiple testing: application to gene microarray data
-
Tsai, C-A. et al. (2003) Estimation of false discovery rates in multiple testing: application to gene microarray data. Biometrics, 59, 1071-1081.
-
(2003)
Biometrics
, vol.59
, pp. 1071-1081
-
-
Tsai, C.-A.1
-
41
-
-
4544298732
-
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
-
42
-
-
46249096804
-
Dynamic repertoire of a eukaryotic transcriptome surveyed at single-nucleotide resolution
-
Wilhelm, B.T. et al. (2008) Dynamic repertoire of a eukaryotic transcriptome surveyed at single-nucleotide resolution. Nature, 453, 1239-1243.
-
(2008)
Nature
, vol.453
, pp. 1239-1243
-
-
Wilhelm, B.T.1
|