-
1
-
-
41349096445
-
Gene regulation by transcription factors and MicroRNAs
-
Hobert O., Gene regulation by transcription factors and MicroRNAs Science 2008 319 5871 1785 1786
-
(2008)
Science
, vol.319
, Issue.5871
, pp. 1785-1786
-
-
Hobert, O.1
-
3
-
-
0035544776
-
Computational cell biology in the post-genomic era
-
Levchenko A., Computational cell biology in the post-genomic era Molecular Biology Reports 2001 28 2 83 89
-
(2001)
Molecular Biology Reports
, vol.28
, Issue.2
, pp. 83-89
-
-
Levchenko, A.1
-
4
-
-
0036941857
-
Looking beyond that details: A rise in system-oriented approaches in genetics and molecular biology
-
Kitano H., Looking beyond that details: a rise in system-oriented approaches in genetics and molecular biology Current Genetics 2002 41 1 1 10
-
(2002)
Current Genetics
, vol.41
, Issue.1
, pp. 1-10
-
-
Kitano, H.1
-
5
-
-
0037079054
-
Computational systems biology
-
Kitano H., Computational systems biology Nature 2002 420 6912 206 210
-
(2002)
Nature
, vol.420
, Issue.6912
, pp. 206-210
-
-
Kitano, H.1
-
6
-
-
0036500993
-
Systems biology: A brief overview
-
Kitano H., Systems biology: a brief overview Science 2002 295 5560 1662 1664
-
(2002)
Science
, vol.295
, Issue.5560
, pp. 1662-1664
-
-
Kitano, H.1
-
8
-
-
33645107349
-
Bayesian sparse hidden components analysis for transcription regulation networks
-
Sabatti C., James G. M., Bayesian sparse hidden components analysis for transcription regulation networks Bioinformatics 2006 22 6 739 746
-
(2006)
Bioinformatics
, vol.22
, Issue.6
, pp. 739-746
-
-
Sabatti, C.1
James, G.M.2
-
9
-
-
33751008680
-
Probabilistic inference of transcription factor concentrations and gene-specific regulatory activities
-
Sanguinetti G., Lawrence N. D., Rattray M., Probabilistic inference of transcription factor concentrations and gene-specific regulatory activities Bioinformatics 2006 22 22 2775 2781
-
(2006)
Bioinformatics
, vol.22
, Issue.22
, pp. 2775-2781
-
-
Sanguinetti, G.1
Lawrence, N.D.2
Rattray, M.3
-
10
-
-
27744472292
-
Inference of transcriptional regulatory network by two-stage constrained space factor analysis
-
Yu T., Li K.-C., Inference of transcriptional regulatory network by two-stage constrained space factor analysis Bioinformatics 2005 21 21 4033 4038
-
(2005)
Bioinformatics
, vol.21
, Issue.21
, pp. 4033-4038
-
-
Yu, T.1
Li, K.-C.2
-
11
-
-
23744491001
-
Predicting transcription factor activities from combined analysis of microarray and ChIP data: A partial least squares approach
-
ARTICLE NO. 23
-
Boulesteix A.-L., Strimmer K., Predicting transcription factor activities from combined analysis of microarray and ChIP data: a partial least squares approach Theoretical Biology and Medical Modelling 2005 2 1, article no. 23
-
(2005)
Theoretical Biology and Medical Modelling
, vol.2
, Issue.1
-
-
Boulesteix, A.-L.1
Strimmer, K.2
-
12
-
-
0345743695
-
Transcriptome-based determination of multiple transcription regulator activities in Escherichia coli by using network component analysis
-
Kao K. C., Yang Y.-L., Boscolo R., Sabatti C., Roychowdhury V., Liao J. C., Transcriptome-based determination of multiple transcription regulator activities in Escherichia coli by using network component analysis Proceedings of the National Academy of Sciences of the United States of America 2004 101 2 641 646
-
(2004)
Proceedings of the National Academy of Sciences of the United States of America
, vol.101
, Issue.2
, pp. 641-646
-
-
Kao, K.C.1
Yang, Y.-L.2
Boscolo, R.3
Sabatti, C.4
Roychowdhury, V.5
Liao, J.C.6
-
13
-
-
0037208166
-
TRANSFAC: Transcriptional regulation, from patterns to profiles
-
Matys V., Fricke E., Geffers R., Gling E., Haubrock M., Hehl R., Hornischer K., Karas D., Kel A. E., Kel-Margoulis O. V., Kloos D.-U., Land S., Lewicki-Potapov B., Michael H., Mnch R., Reuter I., Rotert S., Saxel H., Scheer M., Thiele S., Wingender E., TRANSFAC : transcriptional regulation, from patterns to profiles Nucleic Acids Research 2003 31 1 374 378
-
(2003)
Nucleic Acids Research
, vol.31
, Issue.1
, pp. 374-378
-
-
Matys, V.1
Fricke, E.2
Geffers, R.3
Gling, E.4
Haubrock, M.5
Hehl, R.6
Hornischer, K.7
Karas, D.8
Kel, A.E.9
Kel-Margoulis, O.V.10
Kloos, D.-U.11
Land, S.12
Lewicki-Potapov, B.13
Michael, H.14
Mnch, R.15
Reuter, I.16
Rotert, S.17
Saxel, H.18
Scheer, M.19
Thiele, S.20
Wingender, E.21
more..
-
14
-
-
60149106101
-
Non-negative matrix factorization of gene expression profiles: A plug-in for BRB-ArrayTools
-
Qi Q., Zhao Y., Li M., Simon R., Non-negative matrix factorization of gene expression profiles: a plug-in for BRB-ArrayTools Bioinformatics 2009 25 4 545 547
-
(2009)
Bioinformatics
, vol.25
, Issue.4
, pp. 545-547
-
-
Qi, Q.1
Zhao, Y.2
Li, M.3
Simon, R.4
-
15
-
-
84900510076
-
Non-negative matrix factorization with sparseness constraints
-
Hoyer P., Non-negative matrix factorization with sparseness constraints The Journal of Machine Learning Research 2004 5 1469
-
(2004)
The Journal of Machine Learning Research
, vol.5
, pp. 1469
-
-
Hoyer, P.1
-
16
-
-
1642529511
-
Metagenes and molecular pattern discovery using matrix factorization
-
Brunet J.-P., Tamayo P., Golub T. R., Mesirov J. P., Metagenes and molecular pattern discovery using matrix factorization Proceedings of the National Academy of Sciences of the United States of America 2004 101 12 4164 4169
-
(2004)
Proceedings of the National Academy of Sciences of the United States of America
, vol.101
, Issue.12
, pp. 4164-4169
-
-
Brunet, J.-P.1
Tamayo, P.2
Golub, T.R.3
Mesirov, J.P.4
-
17
-
-
62549125109
-
High-dimensional sparse factor modeling: Applications in gene expression genomics
-
Carvalho C., Chang J., Lucas J., Nevins J., Wang Q., West M., High-dimensional sparse factor modeling: applications in gene expression genomics Journal of the American Statistical Association 2008 103 484 1438 1456
-
(2008)
Journal of the American Statistical Association
, vol.103
, Issue.484
, pp. 1438-1456
-
-
Carvalho, C.1
Chang, J.2
Lucas, J.3
Nevins, J.4
Wang, Q.5
West, M.6
-
19
-
-
0001120413
-
A Bayesian analysis of some nonparametric problems
-
Ferguson T., A Bayesian analysis of some nonparametric problems The Annals of Statistics 1973 1 2 209 230
-
(1973)
The Annals of Statistics
, vol.1
, Issue.2
, pp. 209-230
-
-
Ferguson, T.1
-
20
-
-
84862911217
-
The rectified Gaussian distribution
-
Denver, Colo, US
-
Socci N., Lee D., Sebastian Seung H., The rectified Gaussian distribution Proceedings of the Conference on Advances in Neural Information Processing Systems 1998 Denver, Colo, US 350 356
-
(1998)
Proceedings of the Conference on Advances in Neural Information Processing Systems
, pp. 350-356
-
-
Socci, N.1
Lee, D.2
Sebastian Seung, H.3
-
21
-
-
0037810449
-
Subsystem identification through dimensionality reduction of large-scale gene expression data
-
Kim P. M., Tidor B., Subsystem identification through dimensionality reduction of large-scale gene expression data Genome Research 2003 13 7 1706 1718
-
(2003)
Genome Research
, vol.13
, Issue.7
, pp. 1706-1718
-
-
Kim, P.M.1
Tidor, B.2
-
23
-
-
0037276175
-
Statistical tests for differential expression in cDNA microarray experiments
-
ARTICLE NO. 210
-
Cui X., Churchill G. A., Statistical tests for differential expression in cDNA microarray experiments Genome Biology 2003 4 4, article no. 210
-
(2003)
Genome Biology
, vol.4
, Issue.4
-
-
Cui, X.1
Churchill, G.A.2
-
26
-
-
0004012196
-
-
Boca Raton, Fla, USA CRC Press
-
Gelman A., Carlin J., Stern H., Rubin D., Bayesian Data Analysis 2003 Boca Raton, Fla, USA CRC Press
-
(2003)
Bayesian Data Analysis
-
-
Gelman, A.1
Carlin, J.2
Stern, H.3
Rubin, D.4
-
28
-
-
85035644599
-
Entity-based cross-document coreferencing using the vector space model
-
Morristown, NJ, USA Association for Computational Linguistics
-
Bagga A., Baldwin B., Entity-based cross-document coreferencing using the vector space model 1 Proceedings of the 17th International Conference on Computational Linguistics 1998 Morristown, NJ, USA Association for Computational Linguistics 79 85
-
(1998)
Proceedings of the 17th International Conference on Computational Linguistics
, vol.1
, pp. 79-85
-
-
Bagga, A.1
Baldwin, B.2
-
29
-
-
67650932694
-
A comparison of extrinsic clustering evaluation metrics based on formal constraints
-
Amig E., Gonzalo J., Artiles J., Verdejo F., A comparison of extrinsic clustering evaluation metrics based on formal constraints Information Retrieval 2009 12 4 461 486
-
(2009)
Information Retrieval
, vol.12
, Issue.4
, pp. 461-486
-
-
Amig, E.1
Gonzalo, J.2
Artiles, J.3
Verdejo, F.4
-
30
-
-
84862567520
-
The Gibbs centroid sampler
-
Thompson W. A., Newberg L. A., Conlan S., McCue L. A., Lawrence C. E., The Gibbs centroid sampler Nucleic Acids Research 2007 35 W232 W237
-
(2007)
Nucleic Acids Research
, vol.35
-
-
Thompson, W.A.1
Newberg, L.A.2
Conlan, S.3
McCue, L.A.4
Lawrence, C.E.5
-
31
-
-
0003053548
-
Bayesian computation via the Gibbs sampler and related Markov chain Monte Carlo methods
-
Smith A., Roberts G., Bayesian computation via the Gibbs sampler and related Markov chain Monte Carlo methods Journal of the Royal Statistical Society. Series B 1993 55 1 3 23
-
(1993)
Journal of the Royal Statistical Society. Series B
, vol.55
, Issue.1
, pp. 3-23
-
-
Smith, A.1
Roberts, G.2
-
33
-
-
35248889408
-
EGFR associated expression profiles vary with breast tumor subtype
-
Hoadley K. A., Weigman V. J., Fan C., Sawyer L. R., He X., Troester M. A., Sartor C. I., Rieger-House T., Bernard P. S., Carey L. A., Perou C. M., EGFR associated expression profiles vary with breast tumor subtype BMC Genomics 2007 8, article no. 258
-
(2007)
BMC Genomics
, vol.8258
-
-
Hoadley, K.A.1
Weigman, V.J.2
Fan, C.3
Sawyer, L.R.4
He, X.5
Troester, M.A.6
Sartor, C.I.7
Rieger-House, T.8
Bernard, P.S.9
Carey, L.A.10
Perou, C.M.11
-
34
-
-
34347388416
-
Agreement in breast cancer classification between microarray and quantitative reverse transcription PCR from fresh-frozen and formalin-fixed, paraffin-embedded tissues
-
Mullins M., Perreard L., Quackenbush J., Agreement in breast cancer classification between microarray and quantitative reverse transcription PCR from fresh-frozen and formalin-fixed, paraffin-embedded tissues Clinical Chemistry 2007 53 7 1273
-
(2007)
Clinical Chemistry
, vol.53
, Issue.7
, pp. 1273
-
-
Mullins, M.1
Perreard, L.2
Quackenbush, J.3
-
35
-
-
34548863946
-
Identification of conserved gene expression features between murine mammary carcinoma models and human breast tumors
-
ARTICLE NO. R76
-
Herschkowitz J. I., Simin K., Weigman V. J., Mikaelian I., Usary J., Hu Z., Rasmussen K. E., Jones L. P., Assefnia S., Chandrasekharan S., Backlund M. G., Yin Y., Khramtsov A. I., Bastein R., Quackenbush J., Glazer R. I., Brown P. H., Green J. E., Kopelovich L., Furth P. A., Palazzo J. P., Olopade O. I., Bernard P. S., Churchill G. A., Van Dyke T., Perou C. M., Identification of conserved gene expression features between murine mammary carcinoma models and human breast tumors Genome Biology 2007 8 5, article no. R76
-
(2007)
Genome Biology
, vol.8
, Issue.5
-
-
Herschkowitz, J.I.1
Simin, K.2
Weigman, V.J.3
Mikaelian, I.4
Usary, J.5
Hu, Z.6
Rasmussen, K.E.7
Jones, L.P.8
Assefnia, S.9
Chandrasekharan, S.10
Backlund, M.G.11
Yin, Y.12
Khramtsov, A.I.13
Bastein, R.14
Quackenbush, J.15
Glazer, R.I.16
Brown, P.H.17
Green, J.E.18
Kopelovich, L.19
Furth, P.A.20
Palazzo, J.P.21
Olopade, O.I.22
Bernard, P.S.23
Churchill, G.A.24
Van Dyke, T.25
Perou, C.M.26
more..
-
36
-
-
59449086167
-
The functional loss of the retinoblastoma tumour suppressor is a common event in basal-like and luminal B breast carcinomas
-
Herschkowitz J. I., He X., Fan C., Perou C. M., The functional loss of the retinoblastoma tumour suppressor is a common event in basal-like and luminal B breast carcinomas Breast Cancer Research 2008 10 5 R75
-
(2008)
Breast Cancer Research
, vol.10
, Issue.5
, pp. 75
-
-
Herschkowitz, J.I.1
He, X.2
Fan, C.3
Perou, C.M.4
-
37
-
-
0013886333
-
Evaluation of survival data and two new rank order statistics arising in its consideration
-
Mantel N., Evaluation of survival data and two new rank order statistics arising in its consideration Cancer Chemotherapy Reports. Part 1 1966 50 3 163 170
-
(1966)
Cancer Chemotherapy Reports. Part 1
, vol.50
, Issue.3
, pp. 163-170
-
-
Mantel, N.1
-
38
-
-
0034934774
-
Promoter-specific binding of Rap1 revealed by genome-wide maps of protein-DNA association
-
Lieb J. D., Liu X., Botstein D., Brown P. O., Promoter-specific binding of Rap1 revealed by genome-wide maps of protein-DNA association Nature Genetics 2001 28 4 327 334
-
(2001)
Nature Genetics
, vol.28
, Issue.4
, pp. 327-334
-
-
Lieb, J.D.1
Liu, X.2
Botstein, D.3
Brown, P.O.4
-
39
-
-
0035945567
-
Genomic binding sites of the yeast cell-cycle transcription factors SBF and MBF
-
Iyer V. R., Horak C. E., Scafe C. S., Botstein D., Snyder M., Brown P. O., Genomic binding sites of the yeast cell-cycle transcription factors SBF and MBF Nature 2001 409 6819 533 538
-
(2001)
Nature
, vol.409
, Issue.6819
, pp. 533-538
-
-
Iyer, V.R.1
Horak, C.E.2
Scafe, C.S.3
Botstein, D.4
Snyder, M.5
Brown, P.O.6
-
40
-
-
0034704248
-
Genome-wide location and function of DNA binding proteins
-
Ren B., Robert F., Wyrick J. J., Aparicio O., Jennings E. G., Simon I., Zeitlinger J., Schreiber J., Hannett N., Kanin E., Volkert T. L., Wilson C. J., Bell S. P., Young R. A., Genome-wide location and function of DNA binding proteins Science 2000 290 5500 2306 2309
-
(2000)
Science
, vol.290
, Issue.5500
, pp. 2306-2309
-
-
Ren, B.1
Robert, F.2
Wyrick, J.J.3
Aparicio, O.4
Jennings, E.G.5
Simon, I.6
Zeitlinger, J.7
Schreiber, J.8
Hannett, N.9
Kanin, E.10
Volkert, T.L.11
Wilson, C.J.12
Bell, S.P.13
Young, R.A.14
-
41
-
-
0037372003
-
Epigenetic regulation of gene expression: How the genome integrates intrinsic and environmental signals
-
Jaenisch R., Bird A., Epigenetic regulation of gene expression: how the genome integrates intrinsic and environmental signals Nature Genetics 2003 33 245 254
-
(2003)
Nature Genetics
, vol.33
, pp. 245-254
-
-
Jaenisch, R.1
Bird, A.2
-
42
-
-
16544373609
-
Analysis of transcriptional regulation of the small leucine rich proteoglycans
-
Tasheva E. S., Klocke B., Conrad G. W., Analysis of transcriptional regulation of the small leucine rich proteoglycans Molecular Vision 2004 10 758 772
-
(2004)
Molecular Vision
, vol.10
, pp. 758-772
-
-
Tasheva, E.S.1
Klocke, B.2
Conrad, G.W.3
-
44
-
-
0033354523
-
Torpid mixing of some Monte Carlo Markov chain algorithms in statistical physics
-
October 1999
-
Borgs C., Chayes J. T., Frieze A., Kim J. H., Tetali P., Vigoda E., Vu V. HA., Torpid mixing of some Monte Carlo Markov chain algorithms in statistical physics Proceedings of the 1999 IEEE 40th Annual Conference on Foundations of Computer Science October 1999 218 229
-
Proceedings of the 1999 IEEE 40th Annual Conference on Foundations of Computer Science
, pp. 218-229
-
-
Borgs, C.1
Chayes, J.T.2
Frieze, A.3
Kim, J.H.4
Tetali, P.5
Vigoda, E.6
-
45
-
-
77957837958
-
Detecting poor convergence of posterior samplers due to multimodality
-
Woodard D., Detecting poor convergence of posterior samplers due to multimodality 2007 Citeseer
-
(2007)
Citeseer
-
-
Woodard, D.1
|