-
1
-
-
0033707946
-
Using bayesian networks to analyze expression data
-
N. Friedman, M. Linial, I. Nachman, and D. Pe'er, "Using Bayesian Networks to Analyze Expression Data," J. Computational Biology, vol. 7, pp. 601-620, 2000.
-
(2000)
J. Computational Biology
, vol.7
, pp. 601-620
-
-
Friedman, N.1
Linial, M.2
Nachman, I.3
Pe'er, D.4
-
2
-
-
0344464762
-
Sensitivity and specificity of inferring genetic regulatory interactions from microarray experiments with dynamic Bayesian networks
-
DOI 10.1093/bioinformatics/btg313
-
D. Husmeier, "Sensitivity and Specificity of Inferring Genetic Regulatory Interactions from Microarray Experiments with Dynamic Bayesian Networks," Bioinformatics, vol. 19, pp. 2271-2282, 2003. (Pubitemid 37483983)
-
(2003)
Bioinformatics
, vol.19
, Issue.17
, pp. 2271-2282
-
-
Husmeier, D.1
-
3
-
-
0032616683
-
Identification of genetic networks from a small number of gene expression patterns under the boolean network model
-
T. Akutsu, S. Miyano, and S. Kuhara, "Identification of Genetic Networks from a Small Number of Gene Expression Patterns under the Boolean Network Model," Proc. Pacific Symp. Biocomputing, pp. 17-28, 1999.
-
(1999)
Proc. Pacific Symp. Biocomputing
, pp. 17-28
-
-
Akutsu, T.1
Miyano, S.2
Kuhara, S.3
-
4
-
-
0031616241
-
Reveal: A general reverse engineering algorithm for inference of genetic network architectures
-
S. Liang, S. Fuhrman, and R. Somogyi, "Reveal: A General Reverse Engineering Algorithm for Inference of Genetic Network Architectures," Proc. Pacific Symp. Biocomputing, pp. 18-29, 1998.
-
(1998)
Proc. Pacific Symp. Biocomputing
, pp. 18-29
-
-
Liang, S.1
Fuhrman, S.2
Somogyi, R.3
-
5
-
-
34248572623
-
Boolean dynamics of genetic regulatory networks inferred from microarray time series data
-
DOI 10.1093/bioinformatics/btm021
-
S. Martin, Z. Zhang, A. Martino, and J.L. Faulon, "Boolean Dynamics of Genetic Regulatory Networks Inferred from Microarray Time Series Data," Bioinformatics, vol. 23, pp. 866-874, 2007. (Pubitemid 47049921)
-
(2007)
Bioinformatics
, vol.23
, Issue.7
, pp. 866-874
-
-
Martin, S.1
Zhang, Z.2
Martino, A.3
Faulon, J.-L.4
-
6
-
-
0036184629
-
Probabilistic Boolean networks: A rule-based uncertainty model for gene regulatory networks
-
I. Shmulevich, E.R. Dougherty, S. Kim, and W. Zhang, "Probabilistic Boolean Networks: A Rule-Based Uncertainty Model for Gene Regulatory Networks," Bioinformatics, vol. 18, pp. 261-274, 2002. (Pubitemid 34183104)
-
(2002)
Bioinformatics
, vol.18
, Issue.2
, pp. 261-274
-
-
Shmulevich, I.1
Dougherty, E.R.2
Kim, S.3
Zhang, W.4
-
7
-
-
0036207347
-
Modeling and simulation of genetic regulatory systems: A literature review
-
DOI 10.1089/10665270252833208
-
H. de Jong, "Modeling and Simulation of Genetic Regulatory Systems: A Literature Review," J. Computational Biology, vol. 9, pp. 67-103, 2002. (Pubitemid 34264287)
-
(2002)
Journal of Computational Biology
, vol.9
, Issue.1
, pp. 67-103
-
-
De Jong, H.1
-
8
-
-
0038048325
-
Inferring genetic networks and identifying compound mode of action via expression profiling
-
DOI 10.1126/science.1081900
-
T.S. Gardner, D. di Bernardo, D. Lorenz, and J.J. Collins, "Inferring Genetic Networks and Identifying Compound Mode of Action via Expression Profiling," Science, vol. 4, pp. 102-105, 2003. (Pubitemid 36801571)
-
(2003)
Science
, vol.301
, Issue.5629
, pp. 102-105
-
-
Gardner, T.S.1
Di Bernardo, D.2
Lorenz, D.3
Collins, J.J.4
-
9
-
-
43849093137
-
Search for steady states of piecewise-linear differential equation models of genetic gegulatory networks
-
DOI 10.1109/TCBB.2007.70254, 4359902
-
H. de Jong and M. Page, "Search for Steady States of Piecewise-Linear Differential Equation Models of Genetic Regulatory Networks," IEEE/ACM Trans. Computational Biology and Bioinformatics, vol. 5, no. 2, pp. 208-222, Apr.-June 2008. (Pubitemid 351695261)
-
(2008)
IEEE/ACM Transactions on Computational Biology and Bioinformatics
, vol.5
, Issue.2
, pp. 208-222
-
-
De Jong, H.1
Page, M.2
-
10
-
-
36248944068
-
Inference of genetic regulatory networks with recurrent neural network models using particle swarm optimization
-
DOI 10.1109/TCBB.2007.1057
-
R. Xu, D.C. Wunsch II, and R.L. Frank, "Inference of Genetic Regulatory Networks with Recurrent Neural Network Models Using Particle Swarm Optimization," IEEE/ACM Trans. Computational Biology and Bioinformatics, vol. 4, no. 4, pp. 681-692, Oct.-Dec. 2007. (Pubitemid 350125889)
-
(2007)
IEEE/ACM Transactions on Computational Biology and Bioinformatics
, vol.4
, Issue.4
, pp. 681-692
-
-
Xu, R.1
Wunsch II, D.C.2
Frank, R.L.3
-
11
-
-
77952135179
-
Gene association networks from microarray data using a regularized estimation of partial correlation based on pls regression
-
Apr.-June
-
A. Tenenhaus, V. Guillemot, X. Gidrol, and V. Frouin, "Gene Association Networks from Microarray Data Using a Regularized Estimation of Partial Correlation Based on PLS Regression," IEEE/ ACM Trans. Computational Biology and Bioinformatics, vol. 7, no. 2, pp. 251-262, Apr.-June 2010.
-
(2010)
IEEE/ACM Trans. Computational Biology and Bioinformatics
, vol.7
, Issue.2
, pp. 251-262
-
-
Tenenhaus, A.1
Guillemot, V.2
Gidrol, X.3
Frouin, V.4
-
12
-
-
79551674699
-
A markov-blanket-based model for gene regulatory network inference
-
Mar./Apr
-
R. Ram and M. Chetty, "A Markov-Blanket-Based Model for Gene Regulatory Network Inference," IEEE/ACM Trans. Computational Biology and Bioinformatics, vol. 8, no. 2, pp. 353-367, Mar./Apr. 2011.
-
(2011)
IEEE/ACM Trans. Computational Biology and Bioinformatics
, vol.8
, Issue.2
, pp. 353-367
-
-
Ram, R.1
Chetty, M.2
-
13
-
-
78449286773
-
Genetic networks and soft computing
-
Jan./Feb
-
S. Mitra, R. Das, and Y. Hayashi, "Genetic Networks and Soft Computing," IEEE/ACM Trans. Computational Biology and Bioinformatics, vol. 8, no. 1, pp. 94-107, Jan./Feb. 2011.
-
(2011)
IEEE/ACM Trans. Computational Biology and Bioinformatics
, vol.8
, Issue.1
, pp. 94-107
-
-
Mitra, S.1
Das, R.2
Hayashi, Y.3
-
14
-
-
79955864876
-
Recurrent neural network for non-smooth convex optimization problems with application to the identification of genetic regulatory networks
-
May
-
L. Cheng, Z.G. Hou, Y.Z. Lin, M. Tan, W.J. Zhang, and F.X. Wu, "Recurrent Neural Network for Non-Smooth Convex Optimization Problems with Application to the Identification of Genetic Regulatory Networks," IEEE Trans. Neural Networks, vol. 22, no. 5, pp. 714-726, May 2011.
-
(2011)
IEEE Trans. Neural Networks
, vol.22
, Issue.5
, pp. 714-726
-
-
Cheng, L.1
Hou, Z.G.2
Lin, Y.Z.3
Tan, M.4
Zhang, W.J.5
Wu, F.X.6
-
15
-
-
65649102679
-
Recent developments in parameter estimation and structure identification of biochemical and genomic systems
-
I.C. Chou and E.O. Voit, "Recent Developments in Parameter Estimation and Structure Identification of Biochemical and Genomic Systems," Math. Biosciences, vol. 219, pp. 57-83, 2009.
-
(2009)
Math. Biosciences
, vol.219
, pp. 57-83
-
-
Chou, I.C.1
Voit, E.O.2
-
16
-
-
79960136692
-
Estimating parameters in the caspase activated apoptosis system
-
F.X. Wu, Z.K. Shi, and L. Mu, "Estimating Parameters in the Caspase Activated Apoptosis System," Int'l J. Biomedical Eng. and Technology, vol. 4, pp. 338-354, 2010.
-
(2010)
Int'l J. Biomedical Eng. and Technology
, vol.4
, pp. 338-354
-
-
Wu, F.X.1
Shi, Z.K.2
Mu, L.3
-
17
-
-
4444351989
-
Decoupling dynamical systems for pathway identification from metabolic profiles
-
DOI 10.1093/bioinformatics/bth140
-
E.O. Voit and J. Almeida, "Decoupling Dynamical Systems for Pathway Identification from Metabolic Profiles," Bioinformatics, vol. 20, pp. 1670-1681, 2004. (Pubitemid 39172057)
-
(2004)
Bioinformatics
, vol.20
, Issue.11
, pp. 1670-1681
-
-
Voit, E.O.1
Almeida, J.2
-
18
-
-
0037461033
-
Dynamics modeling of genetic networks using genetic algorithm and S-system
-
DOI 10.1093/bioinformatics/btg027
-
S. Kikuchi, D. Tominaga, M. Arita, K. Takahashi, and M. Tomita, "Dynamic Modeling of Genetic Networks Using Genetic Algorithm and S-System," Bioinformatics, vol. 19, pp. 643-650, 2003. (Pubitemid 36417059)
-
(2003)
Bioinformatics
, vol.19
, Issue.5
, pp. 643-650
-
-
Kikuchi, S.1
Tominaga, D.2
Arita, M.3
Takahashi, K.4
Tomita, M.5
-
19
-
-
33745726568
-
Inference of scale-free networks from gene expression time series
-
DOI 10.1142/S0219720006001886, PII S0219720006001886
-
T. Daisuke and P. Horton, "Inference of Scale-Free Networks from Gene Expression Time Series." J. Bioinformatics and Computational Biology, vol. 4, pp. 503-514, 2006. (Pubitemid 43997134)
-
(2006)
Journal of Bioinformatics and Computational Biology
, vol.4
, Issue.2
, pp. 503-514
-
-
Daisuke, T.1
Horton, P.2
-
20
-
-
16344364990
-
Inference of S-system models of genetic networks from noisy time-series data
-
DOI 10.1273/cbij.4.1
-
S. Kimura, M. Hatakeyama, and A. Konagaya, "Inference of S-System Models of Genetic Networks from Noisy Time-Series Data," Chem-Bio Informatics J., vol. 4, pp. 1-14, 2004. (Pubitemid 40632068)
-
(2004)
Chem-Bio Informatics Journal
, vol.4
, Issue.1
, pp. 1-14
-
-
Kimura, S.1
Hatakeyama, M.2
Konagaya, A.3
-
21
-
-
20144387371
-
Inference of S-system models of genetic networks using a cooperative coevolutionary algorithm
-
DOI 10.1093/bioinformatics/bti071
-
S. Kimura, K. Ide, A. Kashihara, M. Kano, M. Hatakeyama, R. Masui, N. Nakagawa, S. Yokoyama, S. Kuramitsu, and A. Konagaya, "Inference of S-System Models of Genetic Networks Using A Cooperative Coevolutionary Algorithm," Bioinformatics, vol. 21, pp. 1154-1163, 2005. (Pubitemid 40467940)
-
(2005)
Bioinformatics
, vol.21
, Issue.7
, pp. 1154-1163
-
-
Kimura, S.1
Ide, K.2
Kashihara, A.3
Kano, M.4
Hatakeyama, M.5
Masui, R.6
Nakagawa, N.7
Yokoyama, S.8
Kuramitsu, S.9
Konagaya, A.10
-
22
-
-
36249014245
-
An intelligent two-stage evolutionary algorithm for dynamic pathway identification from gene expression profiles
-
Oct. -Dec.
-
S.Y. Ho, C.H. Hsieh, F. chieh Yu, and H.L. Huang, "An Intelligent Two-Stage Evolutionary Algorithm for Dynamic Pathway Identification from Gene Expression Profiles," IEEE/ACM Trans. Computational Biology and Bioinformatics, vol. 4, no. 4, pp. 648-704, Oct.-Dec. 2007.
-
(2007)
IEEE/ACM Trans. Computational Biology and Bioinformatics
, vol.4
, Issue.4
, pp. 648-704
-
-
Ho, S.Y.1
Hsieh, C.H.2
Chieh Yu, F.3
Huang, H.L.4
-
23
-
-
16344385431
-
Evolutionary optimization with data collocation for reverse engineering of biological networks
-
K.Y. Tsai and F.S. Wang, "Evolutionary Optimization with Data Collocation for Reverse Engineering of Biological Networks," Bioinformatics, vol. 21, pp. 1180-1188, 2005.
-
(2005)
Bioinformatics
, vol.21
, pp. 1180-1188
-
-
Tsai, K.Y.1
Wang, F.S.2
-
24
-
-
33745616528
-
Identification of biochemical networks by s-tree based genetic programming
-
D.Y. Cho, K.H. Cho, and B.T. Zhang, "Identification of Biochemical Networks by S-Tree Based Genetic Programming," Bioinformatics, vol. 22, pp. 1631-1640, 2006.
-
(2006)
Bioinformatics
, vol.22
, pp. 1631-1640
-
-
Cho, D.Y.1
Cho, K.H.2
Zhang, B.T.3
-
25
-
-
33749340654
-
Parameter estimation in biochemical systems models with alternating regression
-
I.C. Chou, H. Martens, and E. Voit, "Parameter Estimation in Biochemical Systems Models with Alternating Regression," Theoretical Biology and Medical Modelling, vol. 3, p. 25, 2006.
-
(2006)
Theoretical Biology and Medical Modelling
, vol.3
, pp. 25
-
-
Chou, I.C.1
Martens, H.2
Voit, E.3
-
26
-
-
42649134526
-
Parameter optimization in s-system models
-
article 35
-
M. Vilela, I.C. Chou, S. Vinga, A.T.R. Vasconcelos, E.O. Voit, and J.S. Almeida, "Parameter Optimization in S-System Models," BMC Systems Biology, vol. 2, article 35, 2008.
-
(2008)
BMC Systems Biology
, vol.2
-
-
Vilela, M.1
Chou, I.C.2
Vinga, S.3
Vasconcelos, A.T.R.4
Voit, E.O.5
Almeida, J.S.6
-
27
-
-
33746895132
-
Parameter reconstruction for biochemical networks using interval analysis
-
DOI 10.1007/s11155-006-9009-2
-
W. Tucker and V. Moulton, "Parameter Reconstruction for Biochemical Networks Using Interval Analysis," Reliable Computing, vol. 12, pp. 389-402, 2006. (Pubitemid 44199967)
-
(2006)
Reliable Computing
, vol.12
, Issue.5
, pp. 389-402
-
-
Tucker, W.1
Moulton, V.2
|