-
1
-
-
8444225514
-
-
Dec
-
Nat Genet 2002 Dec, 32 Suppl
-
(2002)
Nat Genet
, vol.32
, Issue.SUPPL.
-
-
-
5
-
-
0035875553
-
Issues in cDNA microarray analysis: Quality filtering, channel normalization, models of variations and assessment of gene effects
-
G.C. Tseng, M.K. Oh, and L. Rohlin Issues in cDNA microarray analysis: quality filtering, channel normalization, models of variations and assessment of gene effects Nucleic Acids Res 29 12 2001 2549 2557
-
(2001)
Nucleic Acids Res
, vol.29
, Issue.12
, pp. 2549-2557
-
-
Tseng, G.C.1
Oh, M.K.2
Rohlin, L.3
-
6
-
-
0242281980
-
Bioconductor R packages for exploratory analysis and normalization of cDNA microarray data
-
G. Parmigiani E.S. Garrett R.A. Irizarry Springer New York*et al.
-
Dudoit, and Y.H. Yang Bioconductor R packages for exploratory analysis and normalization of cDNA microarray data G. Parmigiani E.S. Garrett R.A. Irizarry The analysis of gene expression data: methods and software 2003 Springer New York 73 101
-
(2003)
The Analysis of Gene Expression Data: Methods and Software
, pp. 73-101
-
-
Dudoit1
Yang, Y.H.2
-
8
-
-
1342294092
-
Normalization for cDNA microarray data: A robust composite method addressing single and multiple slide systematic variation
-
Y.H. Yang, S. Dudoit, and P. Luu Normalization for cDNA microarray data: a robust composite method addressing single and multiple slide systematic variation Nucleic Acids Res 30 4 2002 e15
-
(2002)
Nucleic Acids Res
, vol.30
, Issue.4
-
-
Yang, Y.H.1
Dudoit, S.2
Luu, P.3
-
9
-
-
0035752668
-
Feature extraction and normalization algorithm for high-density oligonucleotide gene expression array data
-
E.E. Schadt Feature extraction and normalization algorithm for high-density oligonucleotide gene expression array data J Cell Biochem 84 S37 2001 120 125
-
(2001)
J Cell Biochem
, vol.84
, Issue.37
, pp. 120-125
-
-
Schadt, E.E.1
-
10
-
-
0035875553
-
Issues in cDNA microarray analysis: Quality filtering, channel normalization, models of variations and assessment of gene effects
-
G.C. Tseng, M.K. Oh, and L. Rohlin Issues in cDNA microarray analysis: quality filtering, channel normalization, models of variations and assessment of gene effects Nucleic Acids Res 29 12 2001 2549 2557
-
(2001)
Nucleic Acids Res
, vol.29
, Issue.12
, pp. 2549-2557
-
-
Tseng, G.C.1
Oh, M.K.2
Rohlin, L.3
-
11
-
-
0036855423
-
SNOMAD (standardization and normalization of microarray data): Web-accessible gene expression data analysis
-
C. Colantuoni, G. Henry, and S. Zeger SNOMAD (standardization and normalization of microarray data): web-accessible gene expression data analysis Bioinformatics 18 11 2002 1540 1541
-
(2002)
Bioinformatics
, vol.18
, Issue.11
, pp. 1540-1541
-
-
Colantuoni, C.1
Henry, G.2
Zeger, S.3
-
12
-
-
84936916896
-
Robust Locally weighted regression and smoothing scatterplots
-
W.S. Cleveland Robust Locally weighted regression and smoothing scatterplots J Am Stat Assoc 74 1979 829 836
-
(1979)
J Am Stat Assoc
, vol.74
, pp. 829-836
-
-
Cleveland, W.S.1
-
13
-
-
0037167899
-
Within the fold: Assessing differential expression measures and reproducibility in microarray assays
-
I.V. Yang Within the fold: assessing differential expression measures and reproducibility in microarray assays Genome Biol 3 2002 1 12
-
(2002)
Genome Biol
, vol.3
, pp. 1-12
-
-
Yang, I.V.1
-
14
-
-
0037188875
-
Normalization and analysis of DNA microarray data by self-consistency and local regression
-
T.B. Kepler, L. Crosby, and K.T. Morgan Normalization and analysis of DNA microarray data by self-consistency and local regression Genome Biol 3 7 2002 1 12
-
(2002)
Genome Biol
, vol.3
, Issue.7
, pp. 1-12
-
-
Kepler, T.B.1
Crosby, L.2
Morgan, K.T.3
-
16
-
-
11244346557
-
Variance stabilization applied to microarray data calibration and to the quantification of differential expression
-
W. Huber, A. von Heidenbreck, and H. Sultmann Variance stabilization applied to microarray data calibration and to the quantification of differential expression Bioinformatics 18 2002 S96 S104
-
(2002)
Bioinformatics
, vol.18
-
-
Huber, W.1
Von Heidenbreck, A.2
Sultmann, H.3
-
18
-
-
0037200201
-
A new non-linear normalization method for reducing variability in DNA microarray experiments
-
C. Workman, L.J. Jensen, and H. Jarmer A new non-linear normalization method for reducing variability in DNA microarray experiments Gen Biol 3 2002 1 16
-
(2002)
Gen Biol
, vol.3
, pp. 1-16
-
-
Workman, C.1
Jensen, L.J.2
Jarmer, H.3
-
19
-
-
0037620675
-
Non-linear normalization and background correction in one channel cDNA microarray studies
-
D. Edwards Non-linear normalization and background correction in one channel cDNA microarray studies Bioinformatics 19 2003 825 833
-
(2003)
Bioinformatics
, vol.19
, pp. 825-833
-
-
Edwards, D.1
-
20
-
-
0035032570
-
Statistical design and the analysis of gene expression microarrays
-
M.K. Kerr, and G.A. Churchill Statistical design and the analysis of gene expression microarrays Genet Res 77 2001 123 128
-
(2001)
Genet Res
, vol.77
, pp. 123-128
-
-
Kerr, M.K.1
Churchill, G.A.2
-
21
-
-
0036012367
-
Statistical analysis of a gene expression microarray experiment with replication
-
M.K. Kerr Statistical analysis of a gene expression microarray experiment with replication Stat Sinica 12 1 2002 203 217
-
(2002)
Stat Sinica
, vol.12
, Issue.1
, pp. 203-217
-
-
Kerr, M.K.1
-
22
-
-
0035687554
-
Assessing gene significance from cDNA microarray expression data via mixed models
-
R.D. Wolfinger, G. Gibson, and E.D. Wolfinger Assessing gene significance from cDNA microarray expression data via mixed models J Comput Biol 8 6 2001 625 637
-
(2001)
J Comput Biol
, vol.8
, Issue.6
, pp. 625-637
-
-
Wolfinger, R.D.1
Gibson, G.2
Wolfinger, E.D.3
-
23
-
-
0642309738
-
Evaluation of normalization methods for microarray data
-
T. Park, S.-G. Yi, and S.-H. Kang Evaluation of normalization methods for microarray data Bioinformatics 4 1 2003 33 45
-
(2003)
Bioinformatics
, vol.4
, Issue.1
, pp. 33-45
-
-
Park, T.1
Yi, S.-G.2
Kang, S.-H.3
-
24
-
-
0242333835
-
Normalization of cDNA microarray data
-
G.K. Smyth, and T. Speed Normalization of cDNA microarray data Methods 31 4 2003 265 273
-
(2003)
Methods
, vol.31
, Issue.4
, pp. 265-273
-
-
Smyth, G.K.1
Speed, T.2
-
25
-
-
0242440112
-
Normalization of DNA-microarray data by non-linear correlation maximization
-
D. Faller, H.U. Voss, and J. Timmer Normalization of DNA-microarray data by non-linear correlation maximization J Comput Biol 10 5 2003 751 762
-
(2003)
J Comput Biol
, vol.10
, Issue.5
, pp. 751-762
-
-
Faller, D.1
Voss, H.U.2
Timmer, J.3
-
26
-
-
0042594501
-
New normalization methods for cDNA microarray data
-
D.L. Wilson, M.J. Buckley, and C.A. Helliwell New normalization methods for cDNA microarray data Bioinformatics 19 11 2003 1325 1332
-
(2003)
Bioinformatics
, vol.19
, Issue.11
, pp. 1325-1332
-
-
Wilson, D.L.1
Buckley, M.J.2
Helliwell, C.A.3
-
27
-
-
12244284624
-
DNA microarray experiments: Biological and technological aspects
-
D.V. Nguyen, A.B. Arpat, and N. Wang DNA microarray experiments: biological and technological aspects Biometrics 58 4 2002 701 717
-
(2002)
Biometrics
, vol.58
, Issue.4
, pp. 701-717
-
-
Nguyen, D.V.1
Arpat, A.B.2
Wang, N.3
-
28
-
-
0034730124
-
Importance of replication in microarray gene expression studies: Statistical methods and evidence from repetitive cDNA hybridizations
-
M.T. Lee, F.C. Kuo, and Whitmore Importance of replication in microarray gene expression studies: statistical methods and evidence from repetitive cDNA hybridizations PNAS 97 18 2000 9834 9839
-
(2000)
PNAS
, vol.97
, Issue.18
, pp. 9834-9839
-
-
Lee, M.T.1
Kuo, F.C.2
-
29
-
-
0036855402
-
Comparison of microarray design for class comparison and class discovery
-
K. Dobbin, and R. Simon Comparison of microarray design for class comparison and class discovery Bioinformatics 18 11 2002 1438 1445
-
(2002)
Bioinformatics
, vol.18
, Issue.11
, pp. 1438-1445
-
-
Dobbin, K.1
Simon, R.2
-
30
-
-
0036319960
-
Design issues for cDNA microarray experiments
-
Y.H. Yang, and T. Speed Design issues for cDNA microarray experiments Nat Rev Genet 3 8 2002 579 588
-
(2002)
Nat Rev Genet
, vol.3
, Issue.8
, pp. 579-588
-
-
Yang, Y.H.1
Speed, T.2
-
31
-
-
0141939435
-
The efficiency of pooling mRNA in microarray experiments
-
C.M. Kendziorski, Y. Zhang, and H. Lan The efficiency of pooling mRNA in microarray experiments Biostatistics 4 3 2003 465 477
-
(2003)
Biostatistics
, vol.4
, Issue.3
, pp. 465-477
-
-
Kendziorski, C.M.1
Zhang, Y.2
Lan, H.3
-
32
-
-
0036898577
-
Microarray data normalization and transformation
-
J. Quackenbush Microarray data normalization and transformation Nat Genet 32 Suppl 2002 496 501
-
(2002)
Nat Genet
, vol.32
, pp. 496-501
-
-
Quackenbush, J.1
-
35
-
-
0242606431
-
Microarrays: How many do you need?
-
X. Zien, J. Fluck, and R. Zimmer Microarrays: How many do you need? J Comput Biol 10 3-4 2003 653 667
-
(2003)
J Comput Biol
, vol.10
, Issue.34
, pp. 653-667
-
-
Zien, X.1
Fluck, J.2
Zimmer, R.3
-
36
-
-
0038048164
-
Statistical issues in cDNA microarray data analysis
-
G.K. Smyth, Y.H. Yang, and T. Speed Statistical issues in cDNA microarray data analysis Methods Mol Biol 224 2003 111 136
-
(2003)
Methods Mol Biol
, vol.224
, pp. 111-136
-
-
Smyth, G.K.1
Yang, Y.H.2
Speed, T.3
-
37
-
-
0035942271
-
Significance analysis of microarrays applied to the ionizing radiation response
-
V.G. Tusher, G. Tibshirani, and G. Chu Significance analysis of microarrays applied to the ionizing radiation response Proc Natl Acad Sci USA 98 9 2001 5116 5121
-
(2001)
Proc Natl Acad Sci USA
, vol.98
, Issue.9
, pp. 5116-5121
-
-
Tusher, V.G.1
Tibshirani, G.2
Chu, G.3
-
38
-
-
1542784653
-
Empirical Bayes analysis of a microarray experiment
-
B. Efron Empirical Bayes analysis of a microarray experiment J Am Stat Assoc 96 456 2001 1151 1160
-
(2001)
J Am Stat Assoc
, vol.96
, Issue.456
, pp. 1151-1160
-
-
Efron, B.1
-
39
-
-
0036841485
-
Changes in differential gene expression because of warm ischemia time of radical prostatectomy specimens
-
A. Dash, I.P. Maine, S. Varambally, and R. Shen Changes in differential gene expression because of warm ischemia time of radical prostatectomy specimens Am J Pathol 161 5 2002 1743 1748
-
(2002)
Am J Pathol
, vol.161
, Issue.5
, pp. 1743-1748
-
-
Dash, A.1
Maine, I.P.2
Varambally, S.3
Shen, R.4
-
40
-
-
0034303643
-
Molecular profiling of human cancer
-
L. Liotta, and E. Petricoin Molecular profiling of human cancer Nat Rev Genet 1 1 2000 48 56
-
(2000)
Nat Rev Genet
, vol.1
, Issue.1
, pp. 48-56
-
-
Liotta, L.1
Petricoin, E.2
-
41
-
-
0345168051
-
Moderate degradation does not preclude microarray analysis of small amounts of RNA
-
O. Schoor, T. Weinschenk, and J. Hennenlotter Moderate degradation does not preclude microarray analysis of small amounts of RNA Biotechniques 35 6 2003 1192 1196 1198-1201
-
(2003)
Biotechniques
, vol.35
, Issue.6
, pp. 1192-1196
-
-
Schoor, O.1
Weinschenk, T.2
Hennenlotter, J.3
-
42
-
-
0036898053
-
Tissue microarrays for miniaturized high-throughput molecular profiling of tumors
-
R. Simon, and G. Sauter Tissue microarrays for miniaturized high-throughput molecular profiling of tumors Exp Hematol 30 12 2002 1365 1372
-
(2002)
Exp Hematol
, vol.30
, Issue.12
, pp. 1365-1372
-
-
Simon, R.1
Sauter, G.2
-
43
-
-
0036901655
-
Tissue microarrays are an effective quality assurance tool for diagnostic immunohistochemistry
-
F.D. Hsu, T.O. Nielsen, and A. Alkushi Tissue microarrays are an effective quality assurance tool for diagnostic immunohistochemistry Mod Pathol 15 12 2002 1374 1380
-
(2002)
Mod Pathol
, vol.15
, Issue.12
, pp. 1374-1380
-
-
Hsu, F.D.1
Nielsen, T.O.2
Alkushi, A.3
-
44
-
-
0035939903
-
Delineation of prognostic biomarkers in prostate cancer
-
S.M. Dhanasekaran, T.R. Barrette, and D. Ghosh Delineation of prognostic biomarkers in prostate cancer Nature 412 6849 2001 822 826
-
(2001)
Nature
, vol.412
, Issue.6849
, pp. 822-826
-
-
Dhanasekaran, S.M.1
Barrette, T.R.2
Ghosh, D.3
-
45
-
-
0021230025
-
A high-resolution study of chromosome changes in a human prostatic carcinoma cell line (LNCaP)
-
Z. Gibas, R. Becher, and E. Kawinski A high-resolution study of chromosome changes in a human prostatic carcinoma cell line (LNCaP) Cancer Genet Cytogenet 11 4 1984 399 404
-
(1984)
Cancer Genet Cytogenet
, vol.11
, Issue.4
, pp. 399-404
-
-
Gibas, Z.1
Becher, R.2
Kawinski, E.3
-
46
-
-
0018779369
-
Establishment and characterization of a human prostatic carcinoma cell line (PC-3)
-
M.E. Kaighn, K.S. Narayan, and Y. Ohnuki Establishment and characterization of a human prostatic carcinoma cell line (PC-3) Invest Urol 17 1 1979 16 23
-
(1979)
Invest Urol
, vol.17
, Issue.1
, pp. 16-23
-
-
Kaighn, M.E.1
Narayan, K.S.2
Ohnuki, Y.3
-
47
-
-
0343067144
-
Characterization of chromosomal abnormalities in prostate cancer cell lines by spectral karyotyping
-
Y. Pan, S. Kytola, and F. Farnebo Characterization of chromosomal abnormalities in prostate cancer cell lines by spectral karyotyping Cytogenet Cell Genet 87 3-4 1999 225 232
-
(1999)
Cytogenet Cell Genet
, vol.87
, Issue.34
, pp. 225-232
-
-
Pan, Y.1
Kytola, S.2
Farnebo, F.3
-
48
-
-
0035313305
-
Widely used prostate carcinoma cell lines share common origins
-
A. Van Bokhoven, M. Varella-Garcia, and C. Korch Widely used prostate carcinoma cell lines share common origins Prostate 47 1 2001 36 51
-
(2001)
Prostate
, vol.47
, Issue.1
, pp. 36-51
-
-
Van Bokhoven, A.1
Varella-Garcia, M.2
Korch, C.3
-
49
-
-
0036900895
-
Fundamentals of experimental design for cDNA microarrays
-
G.A. Churchill Fundamentals of experimental design for cDNA microarrays Nat Genet 32 Suppl 2002 490 495
-
(2002)
Nat Genet
, vol.32
, pp. 490-495
-
-
Churchill, G.A.1
-
50
-
-
0036976368
-
Evaluation and optimization of procedures for target labelling and hybridization of cDNA microarrays
-
J. Yu, M.I. Othman, and R. Farjo Evaluation and optimization of procedures for target labelling and hybridization of cDNA microarrays Mol Vis 8 2002 130 137
-
(2002)
Mol Vis
, vol.8
, pp. 130-137
-
-
Yu, J.1
Othman, M.I.2
Farjo, R.3
-
51
-
-
0037015215
-
Comparison of different labelling methods for two-channel high-density microarray experiments
-
E. Manduchi, L.M. Scearce, and J.E. Brestelli Comparison of different labelling methods for two-channel high-density microarray experiments Physiol Genomics 10 3 2002 169 179
-
(2002)
Physiol Genomics
, vol.10
, Issue.3
, pp. 169-179
-
-
Manduchi, E.1
Scearce, L.M.2
Brestelli, J.E.3
-
52
-
-
9444231674
-
Amplified RNA degradation in T7-amplification methods results in biased microarray hybridizations
-
A.N. Spiess, N. Mueller, and R. Ivell Amplified RNA degradation in T7-amplification methods results in biased microarray hybridizations BMC Genomics 4 1 2003 44
-
(2003)
BMC Genomics
, vol.4
, Issue.1
, pp. 44
-
-
Spiess, A.N.1
Mueller, N.2
Ivell, R.3
-
53
-
-
18344396568
-
Minimum information about a microarray experiment (MIAME)-toward standards for microarray data
-
A. Brazma, P. Hingamp, and J. Quackenbush Minimum information about a microarray experiment (MIAME)-toward standards for microarray data Nat Genet 29 4 2001 365 371
-
(2001)
Nat Genet
, vol.29
, Issue.4
, pp. 365-371
-
-
Brazma, A.1
Hingamp, P.2
Quackenbush, J.3
-
54
-
-
0036211063
-
Analysis of matched mRNA measurements from two different microarray technologies
-
W.P. Kuo, T.K. Jenssen, and A.J. Butte Analysis of matched mRNA measurements from two different microarray technologies Bioinformatics 18 3 2002 405 412
-
(2002)
Bioinformatics
, vol.18
, Issue.3
, pp. 405-412
-
-
Kuo, W.P.1
Jenssen, T.K.2
Butte, A.J.3
-
55
-
-
0037251963
-
SOURCE: A unified genomic resource of functional annotations, ontologies, and gene expression data
-
M. Diehn, G. Sherlock, and G. Binkley SOURCE: a unified genomic resource of functional annotations, ontologies, and gene expression data Nucleic Acids Res 31 1 2003 219 223
-
(2003)
Nucleic Acids Res
, vol.31
, Issue.1
, pp. 219-223
-
-
Diehn, M.1
Sherlock, G.2
Binkley, G.3
-
56
-
-
0033569406
-
Molecular classification of cancer: Class discovery and class prediction by gene expression monitoring
-
T.R. Golub, D.K. Slonim, and P. Tamayo Molecular classification of cancer: class discovery and class prediction by gene expression monitoring Science 286 5439 1999 531 537
-
(1999)
Science
, vol.286
, Issue.5439
, pp. 531-537
-
-
Golub, T.R.1
Slonim, D.K.2
Tamayo, P.3
-
57
-
-
0035887459
-
Molecular classification of human carcinomas by use of gene expression signatures
-
A.I. Su, J.B. Welsh, and L.M. Sapinoso Molecular classification of human carcinomas by use of gene expression signatures Cancer Res 61 20 2001 7388 7393
-
(2001)
Cancer Res
, vol.61
, Issue.20
, pp. 7388-7393
-
-
Su, A.I.1
Welsh, J.B.2
Sapinoso, L.M.3
-
58
-
-
0037007048
-
Large-scale analysis of the human and mouse transcriptomes
-
A.I. Su, M.P. Cooke, and K.A. Ching Large-scale analysis of the human and mouse transcriptomes Proc Natl Acad Sci USA 99 7 2002 4465 4470
-
(2002)
Proc Natl Acad Sci USA
, vol.99
, Issue.7
, pp. 4465-4470
-
-
Su, A.I.1
Cooke, M.P.2
Ching, K.A.3
-
59
-
-
0041691050
-
Androgen receptors in prostate cancer
-
Z. Culig, H. Klocker, and G. Bartsch Androgen receptors in prostate cancer J Urol 170 4 Pt 1 2003 1363 1369
-
(2003)
J Urol
, vol.170
, Issue.41
, pp. 1363-1369
-
-
Culig, Z.1
Klocker, H.2
Bartsch, G.3
-
61
-
-
0035328671
-
Trp-p8, a novel prostate-specific gene, is up-regulated in prostate cancer and other malignancies and shares high homology with transient receptor potential calcium channel proteins
-
L. Tsavaler, M.H. Shapero, and S. Morkowski Trp-p8, a novel prostate-specific gene, is up-regulated in prostate cancer and other malignancies and shares high homology with transient receptor potential calcium channel proteins Cancer Res 61 9 2001 3760 3769
-
(2001)
Cancer Res
, vol.61
, Issue.9
, pp. 3760-3769
-
-
Tsavaler, L.1
Shapero, M.H.2
Morkowski, S.3
-
62
-
-
0042674136
-
Survival analysis of genome-wide gene expression profiles of prostate cancers identifies new prognostic targets of disease relapse
-
S.M. Henshall, D.E. Afar, and J. Hiller Survival analysis of genome-wide gene expression profiles of prostate cancers identifies new prognostic targets of disease relapse Cancer Res 63 14 2003 4196 4203
-
(2003)
Cancer Res
, vol.63
, Issue.14
, pp. 4196-4203
-
-
Henshall, S.M.1
Afar, D.E.2
Hiller, J.3
-
63
-
-
9144264883
-
In silico dissection of cell-type-associated patterns of gene expression in prostate cancer
-
R.O. Stuart, W. Wachsman, and C.C. Berry In silico dissection of cell-type-associated patterns of gene expression in prostate cancer PNAS 101 2 2004 615 620
-
(2004)
PNAS
, vol.101
, Issue.2
, pp. 615-620
-
-
Stuart, R.O.1
Wachsman, W.2
Berry, C.C.3
|