-
1
-
-
15944414553
-
Weighted analysis of microarray gene expression using maximum-likelihood
-
D.J. Bakewell and E. Wit. Weighted analysis of microarray gene expression using maximum-likelihood. Bioinformatics, 21(6):723-729, 2005.
-
(2005)
Bioinformatics
, vol.21
, Issue.6
, pp. 723-729
-
-
Bakewell, D.J.1
Wit, E.2
-
2
-
-
0034948896
-
A Bayesian framework for the analysis of microarray expression data: Regularized t-test and statistical inferences of gene changes
-
P. Baldi and A.D. Long. A Bayesian framework for the analysis of microarray expression data: regularized t-test and statistical inferences of gene changes. Bioinformatics, 17(6):509-519, 2001.
-
(2001)
Bioinformatics
, vol.17
, Issue.6
, pp. 509-519
-
-
Baldi, P.1
Long, A.D.2
-
3
-
-
3042710946
-
Gene profiling reveals increased expression of uteroglobin and other anti-inflammatory genes in glucocorticoid-treated nasal polyps
-
M. Benson, L. Carlsson, M. Adner, M. Jernås, M. Rudemo, A. Sjögren, P.A. Svensson, R. Uddman, and Cardell L.O. Gene profiling reveals increased expression of uteroglobin and other anti-inflammatory genes in glucocorticoid-treated nasal polyps. Journal of Allergy and Clinical Immunology, 113(6):1137-1143, 2004.
-
(2004)
Journal of Allergy and Clinical Immunology
, vol.113
, Issue.6
, pp. 1137-1143
-
-
Benson, M.1
Carlsson, L.2
Adner, M.3
Jernås, M.4
Rudemo, M.5
Sjögren, A.6
Svensson, P.A.7
Uddman, R.8
Cardell, L.O.9
-
4
-
-
27644433390
-
-
PhD thesis, University of California, Berkeley, California
-
B.M. Bolstad. Low-level Analysis of High-density Oligonucleotide Array Data: Background, Normalization and Summarization. PhD thesis, University of California, Berkeley, California, 2004.
-
(2004)
Low-level Analysis of High-density Oligonucleotide Array Data: Background, Normalization and Summarization
-
-
Bolstad, B.M.1
-
5
-
-
4644281352
-
A graphical approach for quality control of oligonucleotide array data
-
D.-T. Chen. A graphical approach for quality control of oligonucleotide array data. Journal of Biopharmaceutical Statistics, 14(3):591-606, 2004.
-
(2004)
Journal of Biopharmaceutical Statistics
, vol.14
, Issue.3
, pp. 591-606
-
-
Chen, D.-T.1
-
6
-
-
0242281980
-
Bioconductor R packages for exploratory data analysis and normalization of cDNA microarray data
-
G. Parmigiani, E.S. Garett, R.A. Irizarry, and S.L. Zeger, editors, Springer
-
S. Dudoit and J.Y.H. Yang. Bioconductor R packages for exploratory data analysis and normalization of cDNA microarray data. In G. Parmigiani, E.S. Garett, R.A. Irizarry, and S.L. Zeger, editors, The Analysis of Gene Expression Data. Springer, 2003.
-
(2003)
The Analysis of Gene Expression Data
-
-
Dudoit, S.1
Yang, J.Y.H.2
-
7
-
-
7044286287
-
Evaluation of qualitycontrol criteria for microarray gene expression analysis
-
C.I. Dumur, S. Nasim, A.M. Best, K.J. Archer, A.C. Ladd, V.R. Mas, D.S. Wilkinson, C.T. Garret, and A. Ferreira-Gonzalez. Evaluation of qualitycontrol criteria for microarray gene expression analysis. Clinical Chemistry, 50(11):1994-2002, 2004.
-
(2004)
Clinical Chemistry
, vol.50
, Issue.11
, pp. 1994-2002
-
-
Dumur, C.I.1
Nasim, S.2
Best, A.M.3
Archer, K.J.4
Ladd, A.C.5
Mas, V.R.6
Wilkinson, D.S.7
Garret, C.T.8
Ferreira-Gonzalez, A.9
-
8
-
-
0036081355
-
Gene Expression Omnibus: NCBI gene expression and hybridization array data repository
-
R. Edgar, M. Domrachev, and A.E. Lash. Gene Expression Omnibus: NCBI gene expression and hybridization array data repository. Nucleic Acids Research, 30(1):207-210, 2002.
-
(2002)
Nucleic Acids Research
, vol.30
, Issue.1
, pp. 207-210
-
-
Edgar, R.1
Domrachev, M.2
Lash, A.E.3
-
9
-
-
1542784653
-
Empirical Bayes analysis of a microarray experiment
-
B. Efron, R. Tibshirani, J.D. Storey, and V. Tusher. Empirical Bayes analysis of a microarray experiment. Journal of the American Statistical Association, 96(456):1151-1160, 2001.
-
(2001)
Journal of the American Statistical Association
, vol.96
, Issue.456
, pp. 1151-1160
-
-
Efron, B.1
Tibshirani, R.2
Storey, J.D.3
Tusher, V.4
-
10
-
-
3042802300
-
Genomic pro-filing of the human heart before and after mechanical support with a ventricular assist device reveals alterations in vascular signaling networks
-
J.L. Hall, S. Grindle, X. Han, D. Fermin, S. Park, Y. Chen, R.J. Bache, A. Mariash, Z. Guan, S. Ormaza, J. Thompson, J. Graziano, S.E. de Sam Lazaro, S. Pan, R.D. Simari, and L.W. Miller. Genomic pro-filing of the human heart before and after mechanical support with a ventricular assist device reveals alterations in vascular signaling networks. Journal of Physiological Genomics, 17(3):283-291, 2004. URL http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc= GDS558.
-
(2004)
Journal of Physiological Genomics
, vol.17
, Issue.3
, pp. 283-291
-
-
Hall, J.L.1
Grindle, S.2
Han, X.3
Fermin, D.4
Park, S.5
Chen, Y.6
Bache, R.J.7
Mariash, A.8
Guan, Z.9
Ormaza, S.10
Thompson, J.11
Graziano, J.12
De Sam Lazaro, S.E.13
Pan, S.14
Simari, R.D.15
Miller, L.W.16
-
11
-
-
0242475343
-
A novel strategy for microarray quality control using bayesian networks
-
S. Hautaniemi, H. Edgren, P. Vesanen, M. Wolf, A.-K. Jarvinen, O. Yli-Harja, J. Astola, K. Olli, and O. Monni. A novel strategy for microarray quality control using bayesian networks. Bioinformatics, 19(16):2031-2038, 2003.
-
(2003)
Bioinformatics
, vol.19
, Issue.16
, pp. 2031-2038
-
-
Hautaniemi, S.1
Edgren, H.2
Vesanen, P.3
Wolf, M.4
Jarvinen, A.-K.5
Yli-Harja, O.6
Astola, J.7
Olli, K.8
Monni, O.9
-
12
-
-
17444428374
-
Analysis of microarray gene expression data
-
M. et al. Bishop, editor, John Wiley & Sons
-
W. Huber, A. von Heydebreck, and M. Vingron. Analysis of microarray gene expression data. In M. et al. Bishop, editor, Handbook of Statistical Genetics, 2nd Edition. John Wiley & Sons, 2003.
-
(2003)
Handbook of Statistical Genetics, 2nd Edition
-
-
Huber, W.1
Von Heydebreck, A.2
Vingron, M.3
-
13
-
-
12344280017
-
Summaries of a ymetrix GeneChip probe level data
-
R.A. Irizarry, B.M. Bolstad, F. Collin, L.M. Cope, B. Hobbs, and T.P. Speed. Summaries of A ymetrix GeneChip probe level data. Nucleic Acids Research, 31(4):e15, 2003.
-
(2003)
Nucleic Acids Research
, vol.31
, Issue.4
-
-
Irizarry, R.A.1
Bolstad, B.M.2
Collin, F.3
Cope, L.M.4
Hobbs, B.5
Speed, T.P.6
-
14
-
-
0037336332
-
QA/QC as a pressing need for microarray analysis: Meeting report from CAMDA'02
-
K. Johnson and S. Lin. QA/QC as a pressing need for microarray analysis: meeting report from CAMDA'02. BioTechniques, 34(suppl):S62-S63, 3 2003.
-
(2003)
BioTechniques
, vol.34
, Issue.SUPPL.
-
-
Johnson, K.1
Lin, S.2
-
16
-
-
0035793042
-
Model-based analysis of oligonucleotide arrays: Expression index computation and outlier detection
-
C. Li and W. Wong. Model-based analysis of oligonucleotide arrays: Expression index computation and outlier detection. Proceedings of the National Academy of Science U S A, 98:31-36, 2001.
-
(2001)
Proceedings of the National Academy of Science U S A
, vol.98
, pp. 31-36
-
-
Li, C.1
Wong, W.2
-
17
-
-
0036012343
-
Replicated microarray data
-
I. Lönnstedt and T. Speed. Replicated microarray data. Statistica Sinica, 12 (1):31-46, 2002.
-
(2002)
Statistica Sinica
, vol.12
, Issue.1
, pp. 31-46
-
-
Lönnstedt, I.1
Speed, T.2
-
19
-
-
15244345205
-
Diagnostic plots for detecting outlying slides in a cDNA microarray experiment
-
T. Park, S.-G. Yi, S. Lee, and J.K. Lee. Diagnostic plots for detecting outlying slides in a cDNA microarray experiment. BioTechniques, 38(3): 463-471, 2005.
-
(2005)
BioTechniques
, vol.38
, Issue.3
, pp. 463-471
-
-
Park, T.1
Yi, S.-G.2
Lee, S.3
Lee, J.K.4
-
20
-
-
5344244656
-
-
R Foundation for Statistical Computing, Vienna, Austria
-
R Development Core Team. R: A language and environment for statistical computing. R Foundation for Statistical Computing, Vienna, Austria, 2004. URL http://www.R-project.org.
-
(2004)
R: A Language and Environment for Statistical Computing
-
-
-
23
-
-
1042289325
-
Application and optimization of microarray technologies for human postmortem brain studies
-
M.M. Ryan, S.J. Huffaker, M.J. Webster, M. Wayland, T. Freeman, and S. Bahn. Application and optimization of microarray technologies for human postmortem brain studies. Biological Psychiatry, 55(4):329-336, 2004.
-
(2004)
Biological Psychiatry
, vol.55
, Issue.4
, pp. 329-336
-
-
Ryan, M.M.1
Huffaker, S.J.2
Webster, M.J.3
Wayland, M.4
Freeman, T.5
Bahn, S.6
-
24
-
-
8444246272
-
QA/QC: Challenges and pitfalls facing the microarray community and regulatory agencies
-
L. Shi, W. Tong, F. Goodsaid, F.W. Frueh, H. Fang, T. Han, J.C. Fuscoe, and D.A. Casciano. QA/QC: Challenges and pitfalls facing the microarray community and regulatory agencies. Expert Review of Molecular Diagnostics, 4(6):761-777, 2004.
-
(2004)
Expert Review of Molecular Diagnostics
, vol.4
, Issue.6
, pp. 761-777
-
-
Shi, L.1
Tong, W.2
Goodsaid, F.3
Frueh, F.W.4
Fang, H.5
Han, T.6
Fuscoe, J.C.7
Casciano, D.A.8
-
25
-
-
4544341015
-
Linear models and empirical Bayes methods for assessing differential expression in microarray experiments
-
G.K. Smyth. Linear models and empirical Bayes methods for assessing differential expression in microarray experiments. Statistical Applications in Genetics and Molecular Biology, 3(1), 2004.
-
(2004)
Statistical Applications in Genetics and Molecular Biology
, vol.3
, Issue.1
-
-
Smyth, G.K.1
-
27
-
-
10744228401
-
Effect of agonal and postmortem factors on gene expression profile: Quality control in microarray analyses of postmortem human brain
-
H. Tomita, M.P. Vawter, D.M. Walsh, S.J. Evans, P.V. Choudary, J. Li, K.M. Overman, M.E. Atz, R.M. Myers, E.G. Jones, S.J. Watson, H. Akil, and W.E. Bunney Jr. Effect of agonal and postmortem factors on gene expression profile: Quality control in microarray analyses of postmortem human brain. Biological Psychiatry, 55(4):346-352, 2004.
-
(2004)
Biological Psychiatry
, vol.55
, Issue.4
, pp. 346-352
-
-
Tomita, H.1
Vawter, M.P.2
Walsh, D.M.3
Evans, S.J.4
Choudary, P.V.5
Li, J.6
Overman, K.M.7
Atz, M.E.8
Myers, R.M.9
Jones, E.G.10
Watson, S.J.11
Akil, H.12
Bunney Jr., W.E.13
-
28
-
-
11144358192
-
Development of public toxicogenomics software for microarray data management and analysis
-
W. Tong, S. Harris, X. Cao, H. Fang, L. Shi, H. Sun, J. Fuscoe, A. Harris, H. Hong, Q. Xie, R. Perkins, and Casciano D. Development of public toxicogenomics software for microarray data management and analysis. Mutation Research - Fundamental and Molecular Mechanisms of Mutagenesis, 549(1-2):241-253, 2004.
-
(2004)
Mutation Research - Fundamental and Molecular Mechanisms of Mutagenesis
, vol.549
, Issue.1-2
, pp. 241-253
-
-
Tong, W.1
Harris, S.2
Cao, X.3
Fang, H.4
Shi, L.5
Sun, H.6
Fuscoe, J.7
Harris, A.8
Hong, H.9
Xie, Q.10
Perkins, R.11
Casciano, D.12
-
29
-
-
0035433128
-
Quantitative quality control in microarray image processing and data acquisition
-
X. Wang, S. Ghosh, and S.W. Guo. Quantitative quality control in microarray image processing and data acquisition. Nucleic Acids Research, 29(15):e75, 2001.
-
(2001)
Nucleic Acids Research
, vol.29
, Issue.15
-
-
Wang, X.1
Ghosh, S.2
Guo, S.W.3
-
30
-
-
0041592552
-
Quantitative quality control in microarray experiments and the application in data filtering, normalization and false positive rate prediction
-
X. Wang, M.J. Hessner, Y. Wu, N. Pati, and S. Ghosh. Quantitative quality control in microarray experiments and the application in data filtering, normalization and false positive rate prediction. Bioinformatics, 19(11):1341-1347, 2003.
-
(2003)
Bioinformatics
, vol.19
, Issue.11
, pp. 1341-1347
-
-
Wang, X.1
Hessner, M.J.2
Wu, Y.3
Pati, N.4
Ghosh, S.5
-
31
-
-
1342294092
-
Normalization for cDNA microarray data: A robust composite method addressing single and multiple slide systematic variation
-
Y.H. Yang, S. Dudoit, P. Luu, D. Lin, V. Peng, J. Ngai, and T.P. Speed. Normalization for cDNA microarray data: a robust composite method addressing single and multiple slide systematic variation. Nucleic Acids Research, 30(4):e15, 2002.
-
(2002)
Nucleic Acids Research
, vol.30
, Issue.4
-
-
Yang, Y.H.1
Dudoit, S.2
Luu, P.3
Lin, D.4
Peng, V.5
Ngai, J.6
Speed, T.P.7
|