-
1
-
-
70349882120
-
Unbiased reconstruction of a mammalian transcriptional network mediating pathogen responses
-
Amit, I. et al. Unbiased reconstruction of a mammalian transcriptional network mediating pathogen responses. Science 326, 257-263 (2009).
-
(2009)
Science
, vol.326
, pp. 257-263
-
-
Amit, I.1
-
2
-
-
0033569406
-
Molecular classification of cancer: Class discovery and class prediction by gene expression monitoring
-
Golub, T.R. et al. Molecular classification of cancer: class discovery and class prediction by gene expression monitoring. Science 286, 531-537 (1999).
-
(1999)
Science
, vol.286
, pp. 531-537
-
-
Golub, T.R.1
-
3
-
-
0028806048
-
Quantitative monitoring of gene expression patterns with a complementary DNA microarray
-
Schena, M., Shalon, D., Davis, R.W. & Brown, P.O. Quantitative monitoring of gene expression patterns with a complementary DNA microarray. Science 270, 467-470 (1995).
-
(1995)
Science
, vol.270
, pp. 467-470
-
-
Schena, M.1
Shalon, D.2
Davis, R.W.3
Brown, P.O.4
-
4
-
-
0037370311
-
Natural variation in human gene expression assessed in lymphoblastoid cells
-
DOI 10.1038/ng1094
-
Cheung, V.G. et al. Natural variation in human gene expression assessed in lymphoblastoid cells. Nat. Genet. 33, 422-425 (2003). (Pubitemid 36278862)
-
(2003)
Nature Genetics
, vol.33
, Issue.3
, pp. 422-425
-
-
Cheung, V.G.1
Conlin, L.K.2
Weber, T.M.3
Arcaro, M.4
Jen, K.-Y.5
Morley, M.6
Spielman, R.S.7
-
5
-
-
0037456823
-
Genetics of gene expression surveyed in maize, mouse and man
-
DOI 10.1038/nature01434
-
Schadt, E.E. et al. Genetics of gene expression surveyed in maize, mouse and man. Nature 422, 297-302 (2003). (Pubitemid 36378355)
-
(2003)
Nature
, vol.422
, Issue.6929
, pp. 297-302
-
-
Schadt, E.E.1
Monks, S.A.2
Drake, T.A.3
Lusis, A.J.4
Che, N.5
Colinayo, V.6
Ruff, T.G.7
Milligan, S.B.8
Lamb, J.R.9
Cavet, G.10
Linsley, P.S.11
Mao, M.12
Stoughton, R.B.13
Friend, S.H.14
-
6
-
-
41349095280
-
Genetics of gene expression and its effect on disease
-
DOI 10.1038/nature06758, PII NATURE06758
-
Emilsson, V. et al. Genetics of gene expression and its effect on disease. Nature 452, 423-428 (2008). (Pubitemid 351450845)
-
(2008)
Nature
, vol.452
, Issue.7186
, pp. 423-428
-
-
Emilsson, V.1
Thorleifsson, G.2
Zhang, B.3
Leonardson, A.S.4
Zink, F.5
Zhu, J.6
Carlson, S.7
Helgason, A.8
Walters, G.B.9
Gunnarsdottir, S.10
Mouy, M.11
Steinthorsdottir, V.12
Eiriksdottir, G.H.13
Bjornsdottir, G.14
Reynisdottir, I.15
Gudbjartsson, D.16
Helgadottir, A.17
Jonasdottir, A.18
Jonasdottir, A.19
Styrkarsdottir, U.20
Gretarsdottir, S.21
Magnusson, K.P.22
Stefansson, H.23
Fossdal, R.24
Kristjansson, K.25
Gislason, H.G.26
Stefansson, T.27
Leifsson, B.G.28
Thorsteinsdottir, U.29
Lamb, J.R.30
Gulcher, J.R.31
Reitman, M.L.32
Kong, A.33
Schadt, E.E.34
Stefansson, K.35
more..
-
7
-
-
0037007048
-
Large-scale analysis of the human and mouse transcriptomes
-
DOI 10.1073/pnas.012025199
-
Su, A.I. et al. Large-scale analysis of the human and mouse transcriptomes. Proc. Natl. Acad. Sci. USA 99, 4465-4470 (2002). (Pubitemid 34286008)
-
(2002)
Proceedings of the National Academy of Sciences of the United States of America
, vol.99
, Issue.7
, pp. 4465-4470
-
-
Su, A.I.1
Cooke, M.P.2
Ching, K.A.3
Hakak, Y.4
Walker, J.R.5
Wiltshire, T.6
Orth, A.P.7
Vega, R.G.8
Sapinoso, L.M.9
Moqrich, A.10
Patapoutian, A.11
Hampton, G.M.12
Schultz, P.G.13
Hogenesch, J.B.14
-
8
-
-
33749335282
-
The connectivity map: Using gene-expression signatures to connect small molecules, genes, and disease
-
DOI 10.1126/science.1132939
-
Lamb, J. et al. The Connectivity Map: using gene-expression signatures to connect small molecules, genes, and disease. Science 313, 1929-1935 (2006). (Pubitemid 44497995)
-
(2006)
Science
, vol.313
, Issue.5795
, pp. 1929-1935
-
-
Lamb, J.1
Crawford, E.D.2
Peck, D.3
Modell, J.W.4
Blat, I.C.5
Wrobel, M.J.6
Lerner, J.7
Brunet, J.-P.8
Subramanian, A.9
Ross, K.N.10
Reich, M.11
Hieronymus, H.12
Wei, G.13
Armstrong, S.A.14
Haggarty, S.J.15
Clemons, P.A.16
Wei, R.17
Carr, S.A.18
Lander, E.S.19
Golub, T.R.20
more..
-
9
-
-
33846252240
-
Genome-wide atlas of gene expression in the adult mouse brain
-
DOI 10.1038/nature05453, PII NATURE05453
-
Lein, E.S. et al. Genome-wide atlas of gene expression in the adult mouse brain. Nature 445, 168-176 (2007). (Pubitemid 46095716)
-
(2007)
Nature
, vol.445
, Issue.7124
, pp. 168-176
-
-
Lein, E.S.1
Hawrylycz, M.J.2
Ao, N.3
Ayres, M.4
Bensinger, A.5
Bernard, A.6
Boe, A.F.7
Boguski, M.S.8
Brockway, K.S.9
Byrnes, E.J.10
Chen, L.11
Chen, L.12
Chen, T.-M.13
Chin, M.C.14
Chong, J.15
Crook, B.E.16
Czaplinska, A.17
Dang, C.N.18
Datta, S.19
Dee, N.R.20
Desaki, A.L.21
Desta, T.22
Diep, E.23
Dolbeare, T.A.24
Donelan, M.J.25
more..
-
10
-
-
69949176863
-
Common regulatory variation impacts gene expression in a cell type-dependent manner
-
Dimas, A.S. et al. Common regulatory variation impacts gene expression in a cell type-dependent manner. Science 325, 1246-1250 (2009).
-
(2009)
Science
, vol.325
, pp. 1246-1250
-
-
Dimas, A.S.1
-
11
-
-
0034598746
-
Distinct types of diffuse large B-cell lymphoma identified by gene expression profiling
-
DOI 10.1038/35000501
-
Alizadeh, A.A. et al. Distinct types of diffuse large B-cell lymphoma identified by gene expression profiling. Nature 403, 503-511 (2000). (Pubitemid 30082188)
-
(2000)
Nature
, vol.403
, Issue.6769
, pp. 503-511
-
-
Alizadeh, A.A.1
Elsen, M.B.2
Davis, R.E.3
Ma, Ch.L.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
Maru, 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..
-
12
-
-
0033637153
-
Genomic expression programs in the response of yeast cells to environmental changes
-
Gasch, A.P. et al. Genomic expression programs in the response of yeast cells to environmental changes. Mol. Biol. Cell 11, 4241-4257 (2000).
-
(2000)
Mol. Biol. Cell
, vol.11
, pp. 4241-4257
-
-
Gasch, A.P.1
-
13
-
-
0036177681
-
Estimating coarse gene network structure from large-scale gene perturbation data
-
DOI 10.1101/gr.193902
-
Wagner, A. Estimating coarse gene network structure from large-scale gene perturbation data. Genome Res. 12, 309-315 (2002). (Pubitemid 34162997)
-
(2002)
Genome Research
, vol.12
, Issue.2
, pp. 309-315
-
-
Wagner, A.1
-
14
-
-
0034616930
-
Functional discovery via a compendium of expression profiles
-
Hughes, T.R. et al. Functional discovery via a compendium of expression profiles. Cell 102, 109-126 (2000).
-
(2000)
Cell
, vol.102
, pp. 109-126
-
-
Hughes, T.R.1
-
15
-
-
0035985177
-
Identification of genes periodically expressed in the human cell cycle and their expression in tumors
-
DOI 10.1091/mbc.02-02-0030.
-
Whitfield, M.L. et al. Identification of genes periodically expressed in the human cell cycle and their expression in tumors. Mol. Biol. Cell 13, 1977-2000 (2002). (Pubitemid 34651487)
-
(2002)
Molecular Biology of the Cell
, vol.13
, Issue.6
, pp. 1977-2000
-
-
Whitfield, M.L.1
Sherlock, G.2
Saldanha, A.J.3
Murray, J.I.4
Ball, C.A.5
Alexander, K.E.6
Matese, J.C.7
Perou, C.M.8
Hurt, M.M.9
Brown, P.O.10
Botstein, D.11
-
16
-
-
0032561246
-
The transcriptional program of sporulation in budding yeast
-
DOI 10.1126/science.282.5389.699
-
Chu, S. et al. The transcriptional program of sporulation in budding yeast. Science 282, 699-705 (1998). (Pubitemid 28489376)
-
(1998)
Science
, vol.282
, Issue.5389
, pp. 699-705
-
-
Chu, S.1
DeRisi, J.2
Eisen, M.3
Mulholland, J.4
Botstein, D.5
Brown, P.O.6
Herskowitz, I.7
-
17
-
-
0032112293
-
A genome-wide transcriptional analysis of the mitotic cell cycle
-
Cho, R.J. et al. A genome-wide transcriptional analysis of the mitotic cell cycle. Mol. Cell 2, 65-73 (1998). (Pubitemid 128378967)
-
(1998)
Molecular Cell
, vol.2
, Issue.1
, pp. 65-73
-
-
Cho, R.J.1
Campbell, M.J.2
Winzeler, E.A.3
Steinmetz, L.4
Conway, A.5
Wodicka, L.6
Wolfsberg, T.G.7
Gabrielian, A.E.8
Landsman, D.9
Lockhart, D.J.10
Davis, R.W.11
-
18
-
-
0031742022
-
Comprehensive identification of cell cycle-regulated genes of the yeast Saccharomyces cerevisiae by microarray hybridization
-
Spellman, P.T. et al. Comprehensive identification of cell cycle-regulated genes of the yeast Saccharomyces cerevisiae by microarray hybridization. Mol. Biol. Cell 9, 3273-3297 (1998). (Pubitemid 28551928)
-
(1998)
Molecular Biology of the Cell
, vol.9
, Issue.12
, pp. 3273-3297
-
-
Spellman, P.T.1
Sherlock, G.2
Zhang, M.Q.3
Iyer, V.R.4
Anders, K.5
Eisen, M.B.6
Brown, P.O.7
Botstein, D.8
Futcher, B.9
-
19
-
-
0030669030
-
Exploring the metabolic and genetic control of gene expression on a genomic scale
-
DOI 10.1126/science.278.5338.680
-
DeRisi, J.L., Iyer, V.R. & Brown, P.O. Exploring the metabolic and genetic control of gene expression on a genomic scale. Science 278, 680-686 (1997). (Pubitemid 27464965)
-
(1997)
Science
, vol.278
, Issue.5338
, pp. 680-686
-
-
DeRisi, J.L.1
Iyer, V.R.2
Brown, P.O.3
-
20
-
-
0037165140
-
Prediction of central nervous system embryonal tumour outcome based on gene expression
-
DOI 10.1038/415436a
-
Pomeroy, S.L. et al. Prediction of central nervous system embryonal tumour outcome based on gene expression. Nature 415, 436-442 (2002). (Pubitemid 34100955)
-
(2002)
Nature
, vol.415
, Issue.6870
, pp. 436-442
-
-
Pomeroy, S.L.1
Tamayo, P.2
Gaasenbeek, M.3
Sturla, L.M.4
Angelo, M.5
McLaughlin, M.E.6
Kim, J.Y.H.7
Goumnerova, L.C.8
Black, P.M.9
Lau, C.10
Allen, J.C.11
Zagzag, D.12
Olson, J.M.13
Curran, T.14
Wetmore, C.15
Biegel, J.A.16
Poggio, T.17
Mukherjee, S.18
Rifkin, R.19
Califano, A.20
Stolovitzky, G.21
Louis, D.N.22
Mesirov, J.P.23
Lander, E.S.24
Golub, T.R.25
more..
-
21
-
-
18244409687
-
Gene expression profiling predicts clinical outcome of breast cancer
-
van 't Veer, L.J. et al. Gene expression profiling predicts clinical outcome of breast cancer. Nature 415, 530-536 (2002).
-
(2002)
Nature
, vol.415
, pp. 530-536
-
-
Van 'T Veer, L.J.1
-
22
-
-
7244245443
-
Quantitative gene expression profiling in formalin-fixed, paraffin-embedded tissues using universal bead arrays
-
Bibikova, M. et al. Quantitative gene expression profiling in formalin-fixed, paraffin-embedded tissues using universal bead arrays. Am. J. Pathol. 165, 1799-1807 (2004). (Pubitemid 39435177)
-
(2004)
American Journal of Pathology
, vol.165
, Issue.5
, pp. 1799-1807
-
-
Bibikova, M.1
Talantov, D.2
Chudin, E.3
Yeakley, J.M.4
Chen, J.5
Doucet, D.6
Wickham, E.7
Atkins, D.8
Barker, D.9
Chee, M.10
Wang, Y.11
Fan, J.-B.12
-
23
-
-
19944422061
-
A multigene assay to predict recurrence of tamoxifen-treated, node-negative breast cancer
-
DOI 10.1056/NEJMoa041588
-
Paik, S. et al. A multigene assay to predict recurrence of tamoxifen-treated, node-negative breast cancer. N. Engl. J. Med. 351, 2817-2826 (2004). (Pubitemid 40051905)
-
(2004)
New England Journal of Medicine
, vol.351
, Issue.27
, pp. 2817-2826
-
-
Paik, S.1
Shak, S.2
Tang, G.3
Kim, C.4
Baker, J.5
Cronin, M.6
Baehner, F.L.7
Walker, M.G.8
Watson, D.9
Park, T.10
Hiller, W.11
Fisher, E.R.12
Wickerham, D.L.13
Bryant, J.14
Wolmark, N.15
-
24
-
-
0033775615
-
Absolute quantification of mRNA using real-time reverse transcription polymerase chain reaction assays
-
Bustin, S.A. Absolute quantification of mRNA using real-time reverse transcription polymerase chain reaction assays. J. Mol. Endocrinol. 25, 169-193 (2000).
-
(2000)
J. Mol. Endocrinol
, vol.25
, pp. 169-193
-
-
Bustin, S.A.1
-
25
-
-
40449100030
-
Direct multiplexed measurement of gene expression with color-coded probe pairs
-
DOI 10.1038/nbt1385, PII NBT1385
-
Geiss, G.K. et al. Direct multiplexed measurement of gene expression with color-coded probe pairs. Nat. Biotechnol. 26, 317-325 (2008). (Pubitemid 351355126)
-
(2008)
Nature Biotechnology
, vol.26
, Issue.3
, pp. 317-325
-
-
Geiss, G.K.1
Bumgarner, R.E.2
Birditt, B.3
Dahl, T.4
Dowidar, N.5
Dunaway, D.L.6
Fell, H.P.7
Ferree, S.8
George, R.D.9
Grogan, T.10
James, J.J.11
Maysuria, M.12
Mitton, J.D.13
Oliveri, P.14
Osborn, J.L.15
Peng, T.16
Ratcliffe, A.L.17
Webster, P.J.18
Davidson, E.H.19
Hood, L.20
more..
-
26
-
-
45849087630
-
High throughput gene expression measurement with real time PCR in a microfluidic dynamic array
-
Spurgeon, S.L., Jones, R.C. & Ramakrishnan, R. High throughput gene expression measurement with real time PCR in a microfluidic dynamic array. PLoS ONE 3, e1662 (2008).
-
(2008)
PLoS ONE
, vol.3
-
-
Spurgeon, S.L.1
Jones, R.C.2
Ramakrishnan, R.3
-
27
-
-
59849113821
-
Solution hybrid selection with ultra-long oligonucleotides for massively parallel targeted sequencing
-
Gnirke, A. et al. Solution hybrid selection with ultra-long oligonucleotides for massively parallel targeted sequencing. Nat. Biotechnol. 27, 182-189 (2009).
-
(2009)
Nat. Biotechnol
, vol.27
, pp. 182-189
-
-
Gnirke, A.1
-
28
-
-
0003076895
-
Feature selection for high-dimensional genomic microarray data
-
eds. Brodley, C.E. & Pohoreckyj Danyluk, A. ICML
-
Xing, E.P., Jordan, M.I. & Karp, R.M. Feature selection for high-dimensional genomic microarray data. in Proc. Int. Conf. Mach. Learn. (eds. Brodley, C.E. & Pohoreckyj Danyluk, A.) 601-608 (ICML 2001).
-
(2001)
Proc. Int. Conf. Mach. Learn.
, pp. 601-608
-
-
Xing, E.P.1
Jordan, M.I.2
Karp, R.M.3
-
29
-
-
0035931947
-
Gene-expression profiles in hereditary breast cancer
-
DOI 10.1056/NEJM200102223440801
-
Hedenfalk, I. et al. Gene-expression profiles in hereditary breast cancer. N. Engl. J. Med. 344, 539-548 (2001). (Pubitemid 32167867)
-
(2001)
New England Journal of Medicine
, vol.344
, Issue.8
, pp. 539-548
-
-
Hedenfalk, I.1
Duggan, D.2
Chen, Y.3
Radmacher, M.4
Bittner, M.5
Simon, R.6
Meltzer, P.7
Gusterson, B.8
Esteller, M.9
Raffeld, M.10
Yakhini, Z.11
Ben-Dor, A.12
Dougherty, E.13
Kononen, J.14
Bubendorf, L.15
Fehrle, W.16
Pittaluga, S.17
Gruvberger, S.18
Loman, N.19
Johannsson, O.20
Olsson, H.21
Wilfond, B.22
Sauter, G.23
Kallioniemi, O.-P.24
Borg, A.25
Trent, J.26
more..
-
30
-
-
0034960264
-
Missing value estimation methods for DNA microarrays
-
Troyanskaya, O. et al. Missing value estimation methods for DNA microarrays. Bioinformatics 17, 520-525 (2001). (Pubitemid 32600498)
-
(2001)
Bioinformatics
, vol.17
, Issue.6
, pp. 520-525
-
-
Troyanskaya, O.1
Cantor, M.2
Sherlock, G.3
Brown, P.4
Hastie, T.5
Tibshirani, R.6
Botstein, D.7
Altman, R.B.8
-
31
-
-
52649097448
-
The Immunological Genome Project: Networks of gene expression in immune cells
-
Heng, T.S.P. et al. The Immunological Genome Project: networks of gene expression in immune cells. Nat. Immunol. 9, 1091-1094 (2008).
-
(2008)
Nat. Immunol
, vol.9
, pp. 1091-1094
-
-
Heng, T.S.P.1
-
32
-
-
0242643743
-
A Bayesian missing value estimation method for gene expression profile data
-
DOI 10.1093/bioinformatics/btg287
-
Oba, S. et al. A Bayesian missing value estimation method for gene expression profile data. Bioinformatics 19, 2088-2096 (2003). (Pubitemid 37408160)
-
(2003)
Bioinformatics
, vol.19
, Issue.16
, pp. 2088-2096
-
-
Oba, S.1
Sato, M.-A.2
Takemasa, I.3
Monden, M.4
Matsubara, K.-I.5
Ishii, S.6
-
33
-
-
13444304426
-
Missing value estimation for DNA microarray gene expression data: Local least squares imputation
-
DOI 10.1093/bioinformatics/bth499
-
Kim, H., Golub, G.H. & Park, H. Missing value estimation for DNA microarray gene expression data: local least squares imputation. Bioinformatics 21, 187-198 (2005). (Pubitemid 40202020)
-
(2005)
Bioinformatics
, vol.21
, Issue.2
, pp. 187-198
-
-
Kim, H.1
Golub, G.H.2
Park, H.3
-
34
-
-
2342646842
-
LSimpute accurate estimation of missing values in microarray data with least squares methods
-
Bø, T.H., Dysvik, B. & Jonassen, I. LSimpute: accurate estimation of missing values in microarray data with least squares methods. Nucleic Acids Res. 32, e34 (2004).
-
(2004)
Nucleic Acids Res
, vol.32
-
-
Bø, T.H.1
Dysvik, B.2
Jonassen, I.3
-
35
-
-
0034088857
-
A gene expression database for the molecular pharmacology of cancer
-
DOI 10.1038/73439
-
Scherf, U. et al. A gene expression database for the molecular pharmacology of cancer. Nat. Genet. 24, 236-244 (2000). (Pubitemid 30132190)
-
(2000)
Nature Genetics
, vol.24
, Issue.3
, pp. 236-244
-
-
Scherf, U.1
Ross, D.T.2
Waltham, M.3
Smith, L.H.4
Lee, J.K.5
Tanabe, L.6
Kohn, K.W.7
Reinhold, W.C.8
Myers, T.G.9
Andrews, D.T.10
Scudiero, D.A.11
Eisen, M.B.12
Sausville, E.A.13
Pommier, Y.14
Botstein, D.15
Brown, P.O.16
Weinstein, J.N.17
-
36
-
-
70350355138
-
Analysis of cell fate from single-cell gene expression profiles in C. elegans
-
Liu, X. et al. Analysis of cell fate from single-cell gene expression profiles in C. elegans. Cell 139, 623-633 (2009).
-
(2009)
Cell
, vol.139
, pp. 623-633
-
-
Liu, X.1
-
37
-
-
37249049422
-
AGEMAP: A gene expression database for aging in mice
-
Zahn, J.M. et al. AGEMAP: a gene expression database for aging in mice. PLoS Genet. 3, e201 (2007).
-
(2007)
PLoS Genet
, vol.3
-
-
Zahn, J.M.1
|