-
1
-
-
0033707946
-
Using Bayesian networks to analyze expression data
-
Friedman, N. Linial, M. Nachman, I. Pe'er, D.: 'Using Bayesian networks to analyze expression data', J. Comput. Biol., 2000, 7, p. 601-620
-
(2000)
J. Comput. Biol.
, vol.7
, pp. 601-620
-
-
Friedman, N.1
Linial, M.2
Nachman, I.3
Pe'er, D.4
-
2
-
-
0042526388
-
The mutual information: detecting and evaluating dependencies between variables
-
Steuer, R. Kurths, J. Daub, C.O. Weise, J. Selbig, J.: 'The mutual information: detecting and evaluating dependencies between variables', Bioinformatics, 2002, 18, (Suppl. 2), p. S231-S240
-
(2002)
Bioinformatics
, vol.18
, Issue.SUPPL. 2
-
-
Steuer, R.1
Kurths, J.2
Daub, C.O.3
Weise, J.4
Selbig, J.5
-
3
-
-
0038048325
-
Inferring genetic networks and identifying compound mode of action via expression profiling
-
0036-8075
-
Gardner, T.S. di Bernardo, D. Lorenz, D. Collins, J.J.: 'Inferring genetic networks and identifying compound mode of action via expression profiling', Science, 2003, 301, p. 102-105, 0036-8075
-
(2003)
Science
, vol.301
, pp. 102-105
-
-
Gardner, T.S.1
di Bernardo, D.2
Lorenz, D.3
Collins, J.J.4
-
4
-
-
33747813561
-
The Inferelator: an algorithm for learning parsimonious regulatory networks from systems-biology data sets de novo
-
Bonneau, R. Reiss, D.J. Shannon, P.: et al. 'The Inferelator: an algorithm for learning parsimonious regulatory networks from systems-biology data sets de novo', Genome Biol., 2006, 7, (5), p. R36
-
(2006)
Genome Biol.
, vol.7
, Issue.5
-
-
Bonneau, R.1
Reiss, D.J.2
Shannon, P.3
-
5
-
-
33746477970
-
Identification of signaling components required for the prediction of cytokine release in RAW 264.7 macrophages
-
Pradervand, S. Maurya, M.R. Subramaniam, S.: 'Identification of signaling components required for the prediction of cytokine release in RAW 264.7 macrophages', Genome Biol., 2006, 7, (2), p. R11
-
(2006)
Genome Biol.
, vol.7
, Issue.2
-
-
Pradervand, S.1
Maurya, M.R.2
Subramaniam, S.3
-
6
-
-
76749141419
-
Identification of crosstalk between phosphoprotein signaling pathways in RAW 264.7 macrophage cells
-
Gupta, S. Maurya, M.R. Subramaniam, S.: 'Identification of crosstalk between phosphoprotein signaling pathways in RAW 264.7 macrophage cells', PLoS Comput. Biol., 2010, 6, (1), p. e1000654
-
(2010)
PLoS Comput. Biol.
, vol.6
, Issue.1
-
-
Gupta, S.1
Maurya, M.R.2
Subramaniam, S.3
-
7
-
-
34249740137
-
Reverse engineering of gene regulatory networks
-
Cho, K.-H. Choo, S.-M. Jung, S.H. Choi, H.-S. Kim, J.: 'Reverse engineering of gene regulatory networks', IET Syst. Biol., 2007, 1, (3), p. 149-163
-
(2007)
IET Syst. Biol.
, vol.1
, Issue.3
, pp. 149-163
-
-
Cho, K.-H.1
Choo, S.-M.2
Jung, S.H.3
Choi, H.-S.4
Kim, J.5
-
8
-
-
33847055114
-
How to infer gene regulatory networks from expression profiles
-
Bansal, M. Belcastro, V. Ambesi-Impiombato, A. di Bernardo, D.: 'How to infer gene regulatory networks from expression profiles', Mol. Syst. Biol., 2007, 3, p. 78
-
(2007)
Mol. Syst. Biol.
, vol.3
, pp. 78
-
-
Bansal, M.1
Belcastro, V.2
Ambesi-Impiombato, A.3
di Bernardo, D.4
-
9
-
-
63849210631
-
Lessons from the DREAM2 challenges
-
Stolovitzky, G. Prill, R.J. Califano, A.: 'Lessons from the DREAM2 challenges', Ann. N Y Acad. Sci., 2009, 1158, p. 159-195
-
(2009)
Ann. N Y Acad. Sci.
, vol.1158
, pp. 159-195
-
-
Stolovitzky, G.1
Prill, R.J.2
Califano, A.3
-
10
-
-
52249116064
-
Necessary and sufficient conditions for dynamical structure reconstruction of LTI networks
-
0018-9286
-
Gonçalves, J. Warnick, S.: 'Necessary and sufficient conditions for dynamical structure reconstruction of LTI networks', IEEE Trans. Autom. Control, 2008, 53, (7), p. 1670-1674, 0018-9286
-
(2008)
IEEE Trans. Autom. Control
, vol.53
, Issue.7
, pp. 1670-1674
-
-
Gonçalves, J.1
Warnick, S.2
-
11
-
-
84923570019
-
Systems biology: properties of reconstructed networks
-
Cambridge University Press, Cambridge, UK
-
Palsson, B.Ø.: 'Systems biology: properties of reconstructed networks', (Cambridge University Press, Cambridge, UK 2006)
-
(2006)
-
-
Palsson, B.Ø.1
-
12
-
-
0242490789
-
Importance of input perturbations and stochastic gene expression in the reverse engineering of genetic regulatory networks: insights from an identifiability analysis of an in silico network
-
Zak, D.E. Gonye, G.E. Schwaber, J.S. Doyle, F.J.: 'Importance of input perturbations and stochastic gene expression in the reverse engineering of genetic regulatory networks: insights from an identifiability analysis of an in silico network', Genome Res., 2003, 13, p. 2396-2405
-
(2003)
Genome Res.
, vol.13
, pp. 2396-2405
-
-
Zak, D.E.1
Gonye, G.E.2
Schwaber, J.S.3
Doyle, F.J.4
-
13
-
-
34247882020
-
Numerical matrices method for nonlinear system identification and description of dynamics of biochemical reaction networks
-
0006-3495
-
Karnaukhov, A.V. Karnaukhova, E.V. Williamson, J.R.: 'Numerical matrices method for nonlinear system identification and description of dynamics of biochemical reaction networks', Biophys. J., 2007, 92, (10), p. 3459-3473, 0006-3495
-
(2007)
Biophys. J.
, vol.92
, Issue.10
, pp. 3459-3473
-
-
Karnaukhov, A.V.1
Karnaukhova, E.V.2
Williamson, J.R.3
-
14
-
-
58849115471
-
Mixed-integer nonlinear optimisation approach to coarsegraining biochemical networks
-
Maurya, M.R. Bornheimer, S.J. Venkatasubramanian, V. Subramaniam, S.: 'Mixed-integer nonlinear optimisation approach to coarsegraining biochemical networks', IET Syst. Biol., 2009, 3, (1), p. 24-39
-
(2009)
IET Syst. Biol.
, vol.3
, Issue.1
, pp. 24-39
-
-
Maurya, M.R.1
Bornheimer, S.J.2
Venkatasubramanian, V.3
Subramaniam, S.4
-
15
-
-
34249734738
-
Linear matrix inequalities approach to reconstruction of biological networks
-
Cosentino, C. Curatola, W. Montefusco, F. Bansal, M. di Bernardo, D. Amato, F.: 'Linear matrix inequalities approach to reconstruction of biological networks', IET Syst. Biol., 2007, 1, (3), p. 164-173
-
(2007)
IET Syst. Biol.
, vol.1
, Issue.3
, pp. 164-173
-
-
Cosentino, C.1
Curatola, W.2
Montefusco, F.3
Bansal, M.4
di Bernardo, D.5
Amato, F.6
-
16
-
-
66249091244
-
Genetic network identification using convex programming
-
Julius, A. Zavlanos, M. Boyd, S. Pappas, G.J.: 'Genetic network identification using convex programming', IET Syst. Biol., 2009, 3, (3), p. 155-166
-
(2009)
IET Syst. Biol.
, vol.3
, Issue.3
, pp. 155-166
-
-
Julius, A.1
Zavlanos, M.2
Boyd, S.3
Pappas, G.J.4
-
17
-
-
65449129586
-
Efficient, sparse biological network determination
-
August, E. Papachristodoulou, A.: 'Efficient, sparse biological network determination', BMC Syst. Biol., 2009, 3, p. 25
-
(2009)
BMC Syst. Biol.
, vol.3
, pp. 25
-
-
August, E.1
Papachristodoulou, A.2
-
18
-
-
0034609791
-
The large-scale organization of metabolic networks
-
0028-0836
-
Jeong, H. Tombor, B. Albert, R. Oltvai, Z.N. Barabási, A.-L.: 'The large-scale organization of metabolic networks', Nature, 2000, 407, p. 651-654, 0028-0836
-
(2000)
Nature
, vol.407
, pp. 651-654
-
-
Jeong, H.1
Tombor, B.2
Albert, R.3
Oltvai, Z.N.4
Barabási, A.-L.5
-
19
-
-
27944493925
-
Scale-free networks in cell biology
-
Albert, R.: 'Scale-free networks in cell biology', J. Cell Sci., 2005, 118, p. 4947-4957
-
(2005)
J. Cell Sci.
, vol.118
, pp. 4947-4957
-
-
Albert, R.1
-
20
-
-
4644326931
-
Genomic analysis of regulatory network dynamics reveals large topological changes
-
0028-0836
-
Luscombe, N.M. Babu, M.M. Yu, H. Snyder, M. Teichmann, S.A. Gerstein, M.: 'Genomic analysis of regulatory network dynamics reveals large topological changes', Nature, 2004, 431, p. 308-312, 0028-0836
-
(2004)
Nature
, vol.431
, pp. 308-312
-
-
Luscombe, N.M.1
Babu, M.M.2
Yu, H.3
Snyder, M.4
Teichmann, S.A.5
Gerstein, M.6
-
21
-
-
0142077573
-
Topology of evolving networks: local events and universality
-
0031-9007
-
Albert, R. Barabási, A.-L.: 'Topology of evolving networks: local events and universality', Phys. Rev. Lett., 2000, 85, (24), p. 5234-5237, 0031-9007
-
(2000)
Phys. Rev. Lett.
, vol.85
, Issue.24
, pp. 5234-5237
-
-
Albert, R.1
Barabási, A.-L.2
-
22
-
-
2442639332
-
Robust identification of large genetic networks
-
Hawaii, USA, January
-
di Bernardo, D. Gardner, T.S. Collins, J.J.: 'Robust identification of large genetic networks', Proc. Pacific Symp. on Biocomputing (PSB'04), Hawaii, USA, January 2004, p. 486-497
-
(2004)
Proc. Pacific Symp. on Biocomputing (PSB'04)
, pp. 486-497
-
-
di Bernardo, D.1
Gardner, T.S.2
Collins, J.J.3
-
23
-
-
17444430052
-
Dynamic network reconstruction from gene expression data applied to immune response during bacterial infection
-
Guthke, R. Moller, U. Hoffman, M. Thies, F. Topfer, S.: 'Dynamic network reconstruction from gene expression data applied to immune response during bacterial infection', Bioinformatics, 2005, 21, p. 1626-1634
-
(2005)
Bioinformatics
, vol.21
, pp. 1626-1634
-
-
Guthke, R.1
Moller, U.2
Hoffman, M.3
Thies, F.4
Topfer, S.5
-
24
-
-
43349086434
-
Linear time-varying models can reveal non-linear interactions of biomolecular regulatory networks using multiple time-series data
-
Kim, J. Bates, D.G. Postlethwaite, I. Heslop-Harrison, P. Cho, K.-H.: 'Linear time-varying models can reveal non-linear interactions of biomolecular regulatory networks using multiple time-series data', Bioinformatics, 2008, 24, p. 1286-1292
-
(2008)
Bioinformatics
, vol.24
, pp. 1286-1292
-
-
Kim, J.1
Bates, D.G.2
Postlethwaite, I.3
Heslop-Harrison, P.4
Cho, K.-H.5
-
25
-
-
0003736354
-
Matrix analysis and applied linear algebra
-
SIAM Press, Philadelphia, PA
-
Meyer, C.D.: 'Matrix analysis and applied linear algebra', (SIAM Press, Philadelphia, PA 2000)
-
(2000)
-
-
Meyer, C.D.1
-
26
-
-
0003595806
-
Linear matrix inequalities in system and control theory
-
Boyd, S., El Ghaoui, L., Feron, E., Balakrishnan, V., SIAM Press, Philadelphia, PA
-
Boyd, S., El Ghaoui, L., Feron, E., Balakrishnan, V., 'Linear matrix inequalities in system and control theory', (SIAM Press, Philadelphia, PA 1994)
-
(1994)
-
-
-
27
-
-
0003446303
-
LMI control toolbox
-
The Mathworks, Inc., Natick, MA
-
Gahinet, P. Nemirovski, A. Laub, A.J. Chilali, M.: 'LMI control toolbox', (The Mathworks, Inc., Natick, MA 1995)
-
(1995)
-
-
Gahinet, P.1
Nemirovski, A.2
Laub, A.J.3
Chilali, M.4
-
28
-
-
0003654646
-
Feedback control of dynamic systems
-
Prentice-Hall, Upper Saddle River, NJ, USA
-
Franklin, G.F. Powell, J.D. Emami-Naeini, A.: 'Feedback control of dynamic systems', (Prentice-Hall, Upper Saddle River, NJ, USA 2002)
-
(2002)
-
-
Franklin, G.F.1
Powell, J.D.2
Emami-Naeini, A.3
-
29
-
-
84885708772
-
Advanced data mining techniques
-
Olson, D.L., Delen, D., Springer
-
Olson, D.L., Delen, D., 'Advanced data mining techniques', (Springer 2008)
-
(2008)
-
-
-
30
-
-
12344259602
-
Advances to Bayesian network inference for generating causal networks from observational biological data
-
Yu, J. Smith, V.A. Wang, P.P. Hartemink, A.J. Jarvis, E.D.: 'Advances to Bayesian network inference for generating causal networks from observational biological data', Bioinformatics, 2009, 20, p. 3594-3603
-
(2009)
Bioinformatics
, vol.20
, pp. 3594-3603
-
-
Yu, J.1
Smith, V.A.2
Wang, P.P.3
Hartemink, A.J.4
Jarvis, E.D.5
-
31
-
-
33846400424
-
Large-scale mapping and validation of , Escherichia coli transcriptional regulation from a compendium of expression profiles
-
Faith, J.J. Hayete, B. Thaden, J.T.: et al. 'Large-scale mapping and validation of , Escherichia coli transcriptional regulation from a compendium of expression profiles', PLoS Biol., 2007, 5, p. 54-66
-
(2007)
PLoS Biol.
, vol.5
, pp. 54-66
-
-
Faith, J.J.1
Hayete, B.2
Thaden, J.T.3
-
32
-
-
8344266354
-
Statistics toolbox
-
The Mathworks, Inc., Natick, MA
-
'Statistics toolbox', (The Mathworks, Inc., Natick, MA 2003)
-
(2003)
-
-
-
33
-
-
17944372930
-
Serial regulation of transcriptional regulators in the yeast cell cycle
-
Simon, I. Barnett, J. Hannett, N.: et al. 'Serial regulation of transcriptional regulators in the yeast cell cycle', Cell, 2001, 106, (1), p. 697-708
-
(2001)
Cell
, vol.106
, Issue.1
, pp. 697-708
-
-
Simon, I.1
Barnett, J.2
Hannett, N.3
-
34
-
-
29444455715
-
Cell-cycle control of gene expression in budding and fission yeast
-
Bähler, J.: 'Cell-cycle control of gene expression in budding and fission yeast', Annu. Rev. Genetic., 2005, 39, (1), p. 69-94
-
(2005)
Annu. Rev. Genetic.
, vol.39
, Issue.1
, pp. 69-94
-
-
Bahler, J.1
-
35
-
-
0031742022
-
Comprehensive identification of cell cycle-regulated genes of the yeast , Saccharomyces cerevisiae by microarray hybridization
-
Spellman, P.T. Sherlock, G. Zhang, M.Q.: et al. 'Comprehensive identification of cell cycle-regulated genes of the yeast , Saccharomyces cerevisiae by microarray hybridization', Mol. Biol. Cell., 1998, 9, (1), p. 3273-3297
-
(1998)
Mol. Biol. Cell.
, vol.9
, Issue.1
, pp. 3273-3297
-
-
Spellman, P.T.1
Sherlock, G.2
Zhang, M.Q.3
-
36
-
-
33644873184
-
BioGRID: a general repository for interaction datasets
-
Stark, C. Breitkreutz, B.J. Reguly, T. Boucher, L. Breitkreutz, A. Tyers, M.: 'BioGRID: a general repository for interaction datasets', Nucleic Acids Res., 2006, 34, (1), p. D535-D539
-
(2006)
Nucleic Acids Res.
, vol.34
, Issue.1
-
-
Stark, C.1
Breitkreutz, B.J.2
Reguly, T.3
Boucher, L.4
Breitkreutz, A.5
Tyers, M.6
-
37
-
-
33644873683
-
The YEASTRACT database: a tool for the analysis of transcription regulatory associations in , Saccharomyces cerevisiae
-
Teixeira, M.C. Monteiro, P. Jain, P.: et al. 'The YEASTRACT database: a tool for the analysis of transcription regulatory associations in , Saccharomyces cerevisiae', Nucleic Acids Res., 2006, 34, (1), p. D446-D451
-
(2006)
Nucleic Acids Res.
, vol.34
, Issue.1
-
-
Teixeira, M.C.1
Monteiro, P.2
Jain, P.3
-
38
-
-
34548388925
-
Inference of gene networks from temporal gene expression profiles
-
Bansal, M. di Bernardo, D.: 'Inference of gene networks from temporal gene expression profiles', IET Syst. Biol., 2007, 1, (5), p. 306-312
-
(2007)
IET Syst. Biol.
, vol.1
, Issue.5
, pp. 306-312
-
-
Bansal, M.1
di Bernardo, D.2
-
39
-
-
0003641574
-
A practical guide to splines
-
Springer-Verlag, New York, USA
-
de Boor, C.: 'A practical guide to splines', (Springer-Verlag, New York, USA 2001)
-
(2001)
-
-
de Boor, C.1
-
40
-
-
0008302340
-
Spline toolbox
-
The Mathworks, Inc., Natick, MA
-
de Boor, C.: 'Spline toolbox', (The Mathworks, Inc., Natick, MA 2002)
-
(2002)
-
-
de Boor, C.1
|