-
1
-
-
0036898577
-
Microarray data normalization and transformation
-
Quackenbush J: Microarray data normalization and transformation. Nat Genet 2002, 32(Suppl):496-1.
-
(2002)
Nat. Genet.
, vol.32
, Issue.SUPPL.
, pp. 496-501
-
-
Quackenbush, J.1
-
3
-
-
0035749210
-
Evaluation of normalization procedures for oligonucleotide array data based on spiked cRNA controls
-
Hill AA, Brown EL, Whitley MZ, Tucker-Kellogg G, Hunter CP, Slonim DK: Evaluation of normalization procedures for oligonucleotide array data based on spiked cRNA controls. Genome Biol 2001, 2:RESEARCH0055.
-
(2001)
Genome Biol.
, vol.2
-
-
Hill, A.A.1
Brown, E.L.2
Whitley, M.Z.3
Tucker-Kellogg, G.4
Hunter, C.P.5
Slonim, D.K.6
-
4
-
-
0037316303
-
A comparison of normalization methods for high density oligonucleotide array data based on variance and bias
-
Bolstad BM, Irizarry RA, Astrand M, Speed TP: A comparison of normalization methods for high density oligonucleotide array data based on variance and bias. Bioinformatics 2003, 19: 85-93.
-
(2003)
Bioinformatics
, vol.19
, pp. 185-193
-
-
Bolstad, B.M.1
Irizarry, R.A.2
Astrand, M.3
Speed, T.P.4
-
5
-
-
0035875553
-
Issues in cDNA microarray analysis: Quality filtering, channel normalization, models of variations and assessment of gene effects
-
Tseng GC, Oh MK, Rohlin L, Liao JC, Wong WH: Issues in cDNA microarray analysis: quality filtering, channel normalization, models of variations and assessment of gene effects. Nucleic Acids Res 2001, 29:2549-57.
-
(2001)
Nucleic Acids Res.
, vol.29
, pp. 2549-2557
-
-
Tseng, G.C.1
Oh, M.K.2
Rohlin, L.3
Liao, J.C.4
Wong, W.H.5
-
6
-
-
1342294092
-
Normalization for cDNA microarray data: A robust composite method addressing single and multiple slide systematic variation
-
Yang YH, Dudoit S, Luu P, Lin DM, Peng V, Ngai J, Speed TP: Normalization for cDNA microarray data: a robust composite method addressing single and multiple slide systematic variation. Nucleic Acids Res 2002, 30:e15.
-
(2002)
Nucleic Acids Res.
, vol.30
-
-
Yang, Y.H.1
Dudoit, S.2
Luu, P.3
Lin, D.M.4
Peng, V.5
Ngai, J.6
Speed, T.P.7
-
7
-
-
0038054341
-
PGC-1alpha-responsive genes involved in oxidative phosphorylation are coordinately downregulated in human diabetes
-
Mootha VK, Lindgren CM, Eriksson KF, Subramanian A, Sihag S, Lehar J, Puigserver P, Carlsson E, Ridderstrale M, Laurila E, Houstis N, Daly MJ, Patterson N, Mesirov JP, Golub TR, Tamayo P, Spiegelman B, Lander ES, Hirschhorn JN, Altshuler D, Groop LC: PGC-1alpha-responsive genes involved in oxidative phosphorylation are coordinately downregulated in human diabetes. Nat Genet 2003, 34: 67-73.
-
(2003)
Nat. Genet.
, vol.34
, pp. 267-273
-
-
Mootha, V.K.1
Lindgren, C.M.2
Eriksson, K.F.3
Subramanian, A.4
Sihag, S.5
Lehar, J.6
Puigserver, P.7
Carlsson, E.8
Ridderstrale, M.9
Laurila, E.10
Houstis, N.11
Daly, M.J.12
Patterson, N.13
Mesirov, J.P.14
Golub, T.R.15
Tamayo, P.16
Spiegelman, B.17
Lander, E.S.18
Hirschhorn, J.N.19
Altshuler, D.20
Groop, L.C.21
more..
-
8
-
-
0141450348
-
Comparison and meta-analysis of microarray data: From the bench to the computer desk
-
Moreau Y, Aerts S, De Moor B, De Strooper B, Dabrowski M: Comparison and meta-analysis of microarray data: from the bench to the computer desk. Trends Genet 2003, 19:570-7.
-
(2003)
Trends Genet.
, vol.19
, pp. 570-577
-
-
Moreau, Y.1
Aerts, S.2
De Moor, B.3
De Strooper, B.4
Dabrowski, M.5
-
9
-
-
0036682376
-
Meta-analysis of microarrays: Interstudy validation of gene expression profiles reveals pathway dysregulation in prostate cancer
-
Rhodes DR, Barrette TR, Rubin MA, Ghosh D, Chinnaiyan AM: Meta-analysis of microarrays: interstudy validation of gene expression profiles reveals pathway dysregulation in prostate cancer. Cancer Res 2002, 62:4427-33.
-
(2002)
Cancer Res.
, vol.62
, pp. 4427-4433
-
-
Rhodes, D.R.1
Barrette, T.R.2
Rubin, M.A.3
Ghosh, D.4
Chinnaiyan, A.M.5
-
11
-
-
0036856209
-
Nonparametric methods for identifying differentially expressed genes in microarray data
-
Troyanskaya OG, Garber ME, Brown PO, Botstein D, Altman RB: Nonparametric methods for identifying differentially expressed genes in microarray data. Bioinformatics 2002, 18:1454-61.
-
(2002)
Bioinformatics
, vol.18
, pp. 1454-1461
-
-
Troyanskaya, O.G.1
Garber, M.E.2
Brown, P.O.3
Botstein, D.4
Altman, R.B.5
-
12
-
-
12244313858
-
Analysis of high density expression microarrays with signed-rank call algorithms
-
Liu WM, Mei R, Di X, Ryder TB, Hubbell E, Dee S, Webster TA, Harrington CA, Ho MH, Baid J, Smeekens SP: Analysis of high density expression microarrays with signed-rank call algorithms. Bioinformatics 2002, 18:1593-9.
-
(2002)
Bioinformatics
, vol.18
, pp. 1593-1599
-
-
Liu, W.M.1
Mei, R.2
Di, X.3
Ryder, T.B.4
Hubbell, E.5
Dee, S.6
Webster, T.A.7
Harrington, C.A.8
Ho, M.H.9
Baid, J.10
Smeekens, S.P.11
-
13
-
-
1942533557
-
Molecular profiling of breast cancer: Clinical implications
-
Cleator S, Ashworth A: Molecular profiling of breast cancer: clinical implications. Br J Cancer 2004, 90: 120-4.
-
(2004)
Br. J. Cancer
, vol.90
, pp. 1120-1124
-
-
Cleator, S.1
Ashworth, A.2
-
14
-
-
1542268315
-
Multi-class cancer subtype classification based on gene expression signatures with reliability analysis
-
Fu LM, Fu-Liu CS: Multi-class cancer subtype classification based on gene expression signatures with reliability analysis. FEBS Lett 2004, 561:186-90.
-
(2004)
FEBS Lett.
, vol.561
, pp. 186-190
-
-
Fu, L.M.1
Fu-Liu, C.S.2
-
15
-
-
1242341503
-
Molecular classification and molecular genetics of human lung cancers
-
Meyerson M, Franklin WA, Kelley MJ: Molecular classification and molecular genetics of human lung cancers. Semin Oncol 2004, 31(1 Suppl 1):4-19.
-
(2004)
Semin. Oncol.
, vol.31
, Issue.1 SUPPL. 1
, pp. 4-19
-
-
Meyerson, M.1
Franklin, W.A.2
Kelley, M.J.3
-
16
-
-
1442308342
-
Gene expression profiling of colon cancer by DNA microarrays and correlation with histoclinical parameters
-
Bertucci F, Salas S, Eysteries S, Nasser V, Finetti P, Ginestier C, Charafe-Jauffret E, Loriod B, Bachelart L, Montfort J, Victorero G, Viret F, Ollendorff V, Fert V, Giovaninni M, Delpero JR, Nguyen C, Viens P, Monges G, Birnbaum D, Houlgatte R: Gene expression profiling of colon cancer by DNA microarrays and correlation with histoclinical parameters. Oncogene 2004, 23:1377-91.
-
(2004)
Oncogene
, vol.23
, pp. 1377-1391
-
-
Bertucci, F.1
Salas, S.2
Eysteries, S.3
Nasser, V.4
Finetti, P.5
Ginestier, C.6
Charafe-Jauffret, E.7
Loriod, B.8
Bachelart, L.9
Montfort, J.10
Victorero, G.11
Viret, F.12
Ollendorff, V.13
Fert, V.14
Giovaninni, M.15
Delpero, J.R.16
Nguyen, C.17
Viens, P.18
Monges, G.19
Birnbaum, D.20
Houlgatte, R.21
more..
-
17
-
-
0034598746
-
Distinct types of diffuse large B-cell lymphoma identified by gene expression profiling
-
Alizadeh AA, Eisen MB, Davis RE, Ma C, Lossos IS, Rosenwald A, Boldrick JC, Sabet H, Tran T, Yu X, Powell JI, Yang L, Marti GE, Moore T, Hudson J Jr, Lu L, Lewis DB, Tibshirani R, Sherlock G, Chan WC, Greiner TC, Weisenburger DD, Armitage JO, Warnke R, Levy R, Wilson W, Grever MR, Byrd JC, Botstein D, Brown PO, Staudt LM: Distinct types of diffuse large B-cell lymphoma identified by gene expression profiling. Nature 2000, 403:503-11.
-
(2000)
Nature
, vol.403
, pp. 503-511
-
-
Alizadeh, A.A.1
Eisen, M.B.2
Davis, R.E.3
Ma, C.4
Lossos, I.S.5
Rosenwald, A.6
Boldrick, J.C.7
Sabet, H.8
Tran, T.9
Yu, X.10
Powell, J.I.11
Yang, L.12
Marti, G.E.13
Moore, T.14
Hudson Jr., J.15
Lu, L.16
Lewis, D.B.17
Tibshirani, R.18
Sherlock, G.19
Chan, W.C.20
Greiner, T.C.21
Weisenburger, D.D.22
Armitage, J.O.23
Warnke, R.24
Levy, R.25
Wilson, W.26
Grever, M.R.27
Byrd, J.C.28
Botstein, D.29
Brown, P.O.30
Staudt, L.M.31
more..
-
18
-
-
0033569406
-
Molecular classification of cancer: Class discovery and class prediction by gene expression monitoring
-
Golub TR, Slonim DK, Tamayo P, Huard C, Gaasenbeek M, Mesirov JP, Coller H, Loh ML, Downing JR, Caligiuri MA, Bloomfield CD, Lander ES: Molecular classification of cancer: class discovery and class prediction by gene expression monitoring. Science 1999, 286: 31-7.
-
(1999)
Science
, vol.286
, pp. 531-537
-
-
Golub, T.R.1
Slonim, D.K.2
Tamayo, P.3
Huard, C.4
Gaasenbeek, M.5
Mesirov, J.P.6
Coller, H.7
Loh, M.L.8
Downing, J.R.9
Caligiuri, M.A.10
Bloomfield, C.D.11
Lander, E.S.12
-
19
-
-
0347201147
-
Multiclass cancer diagnosis using tumor gene expression signatures
-
Ramaswamy S, Tamayo P, Rifkin R, Mukherjee S, Yeang CH, Angelo M, Ladd C, Reich M, Latulippe E, Mesirov JP, Poggio T, Gerald W, Loda M, Lander ES, Golub TR: Multiclass cancer diagnosis using tumor gene expression signatures. Proc Natl Acad Sci U S A 2001, 98:15149-54.
-
(2001)
Proc. Natl. Acad. Sci. U S A
, vol.98
, pp. 15149-15154
-
-
Ramaswamy, S.1
Tamayo, P.2
Rifkin, R.3
Mukherjee, S.4
Yeang, C.H.5
Angelo, M.6
Ladd, C.7
Reich, M.8
Latulippe, E.9
Mesirov, J.P.10
Poggio, T.11
Gerald, W.12
Loda, M.13
Lander, E.S.14
Golub, T.R.15
-
20
-
-
0000060617
-
Molecular classification of multiple tumor types
-
Yeang CH, Ramaswamy S, Tamayo P, Mukherjee S, Rifkin RM, Angelo M, Reich M, Lander E, Mesirov J, Golub T: Molecular classification of multiple tumor types. Bioinformatics 2001, 17(Suppl 1):S316-22.
-
(2001)
Bioinformatics
, vol.17
, Issue.SUPPL. 1
-
-
Yeang, C.H.1
Ramaswamy, S.2
Tamayo, P.3
Mukherjee, S.4
Rifkin, R.M.5
Angelo, M.6
Reich, M.7
Lander, E.8
Mesirov, J.9
Golub, T.10
-
21
-
-
0004255908
-
Machine Learning
-
McGraw-Hill
-
Mitchell T: Machine Learning. McGraw-Hill 1997.
-
(1997)
-
-
Mitchell, T.1
-
22
-
-
0034568109
-
'Gene shaving' as a method for identifying distinct sets of genes with similar expression patterns
-
Hastie T, Tibshirani R, Eisen MB, Alizadeh A, Levy R, Staudt L, Chan WC, Botstein D, Brown P: 'Gene shaving' as a method for identifying distinct sets of genes with similar expression patterns. Genome Biol 2000, 1:RESEARCH0003.
-
(2000)
Genome Biol.
, vol.1
-
-
Hastie, T.1
Tibshirani, R.2
Eisen, M.B.3
Alizadeh, A.4
Levy, R.5
Staudt, L.6
Chan, W.C.7
Botstein, D.8
Brown, P.9
-
23
-
-
0037352039
-
A classification-based machine learning approach for the analysis of genome-wide expression data
-
Lyons-Weiler J, Patel S, Bhattacharya S: A classification-based machine learning approach for the analysis of genome-wide expression data. Genome Res 2003, 13:503-12.
-
(2003)
Genome Res.
, vol.13
, pp. 503-512
-
-
Lyons-Weiler, J.1
Patel, S.2
Bhattacharya, S.3
-
25
-
-
0142244192
-
Accurate molecular classification of human cancers based on gene expression using a simple classifier with a pathological tree-based framework
-
Shedden KA, Taylor JM, Giordano TJ, Kuick R, Misek DE, Rennert G, Schwartz DR, Gruber SB, Logsdon C, Simeone D, Kardia SL, Greenson JK, Cho KR, Beer DG, Fearon ER, Hanash S: Accurate molecular classification of human cancers based on gene expression using a simple classifier with a pathological tree-based framework. Am J Pathol 2003, 163:1985-95.
-
(2003)
Am. J. Pathol.
, vol.163
, pp. 1985-1995
-
-
Shedden, K.A.1
Taylor, J.M.2
Giordano, T.J.3
Kuick, R.4
Misek, D.E.5
Rennert, G.6
Schwartz, D.R.7
Gruber, S.B.8
Logsdon, C.9
Simeone, D.10
Kardia, S.L.11
Greenson, J.K.12
Cho, K.R.13
Beer, D.G.14
Fearon, E.R.15
Hanash, S.16
-
26
-
-
0344872506
-
Molecular classification of cancer types from microarray data using the combination of genetic algorithms and support vector machines
-
Peng S, Xu Q, Ling XB, Peng X, Du W, Chen L: Molecular classification of cancer types from microarray data using the combination of genetic algorithms and support vector machines. FEBS Lett 2003, 555:358-62.
-
(2003)
FEBS Lett.
, vol.555
, pp. 358-362
-
-
Peng, S.1
Xu, Q.2
Ling, X.B.3
Peng, X.4
Du, W.5
Chen, L.6
|