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For: Henriques D, Rocha M, Saez-Rodriguez J, Banga JR. Reverse engineering of logic-based differential equation models using a mixed-integer dynamic optimization approach. Bioinformatics 2015;31:2999-3007. [PMID: 26002881 DOI: 10.1093/bioinformatics/btv314] [Cited by in Crossref: 16] [Cited by in F6Publishing: 11] [Article Influence: 2.3] [Reference Citation Analysis]
Number Citing Articles
1 González P, Argüeso-alejandro P, Penas DR, Pardo XC, Saez-rodriguez J, Banga JR, Doallo R. Hybrid parallel multimethod hyperheuristic for mixed-integer dynamic optimization problems in computational systems biology. J Supercomput 2019;75:3471-98. [DOI: 10.1007/s11227-019-02871-0] [Cited by in Crossref: 1] [Cited by in F6Publishing: 1] [Article Influence: 0.3] [Reference Citation Analysis]
2 Fröhlich F, Loos C, Hasenauer J. Scalable Inference of Ordinary Differential Equation Models of Biochemical Processes. Methods Mol Biol 2019;1883:385-422. [PMID: 30547409 DOI: 10.1007/978-1-4939-8882-2_16] [Cited by in Crossref: 6] [Cited by in F6Publishing: 1] [Article Influence: 1.5] [Reference Citation Analysis]
3 Tanevski J, Todorovski L, Džeroski S. Learning stochastic process-based models of dynamical systems from knowledge and data. BMC Syst Biol 2016;10:30. [PMID: 27005698 DOI: 10.1186/s12918-016-0273-4] [Cited by in Crossref: 12] [Cited by in F6Publishing: 6] [Article Influence: 2.0] [Reference Citation Analysis]
4 Yuan M, Hong W, Li P. Identification of regulatory variables for state transition of biological networks. Biosystems 2019;181:71-81. [PMID: 31071365 DOI: 10.1016/j.biosystems.2019.05.001] [Cited by in Crossref: 2] [Article Influence: 0.7] [Reference Citation Analysis]
5 Gabel M, Hohl T, Imle A, Fackler OT, Graw F. FAMoS: A Flexible and dynamic Algorithm for Model Selection to analyse complex systems dynamics. PLoS Comput Biol 2019;15:e1007230. [PMID: 31419221 DOI: 10.1371/journal.pcbi.1007230] [Cited by in Crossref: 3] [Cited by in F6Publishing: 4] [Article Influence: 1.0] [Reference Citation Analysis]
6 Xing L, Guo M, Liu X, Wang C, Zhang L. Gene Regulatory Networks Reconstruction Using the Flooding-Pruning Hill-Climbing Algorithm. Genes (Basel) 2018;9:E342. [PMID: 29986472 DOI: 10.3390/genes9070342] [Cited by in Crossref: 4] [Cited by in F6Publishing: 1] [Article Influence: 1.0] [Reference Citation Analysis]
7 Xing L, Guo M, Liu X, Wang C, Wang L, Zhang Y. An improved Bayesian network method for reconstructing gene regulatory network based on candidate auto selection. BMC Genomics 2017;18:844. [PMID: 29219084 DOI: 10.1186/s12864-017-4228-y] [Cited by in Crossref: 13] [Cited by in F6Publishing: 9] [Article Influence: 2.6] [Reference Citation Analysis]
8 Newman RH, Zhang J. Integrated Strategies to Gain a Systems-Level View of Dynamic Signaling Networks. Methods Enzymol 2017;589:133-70. [PMID: 28336062 DOI: 10.1016/bs.mie.2017.01.016] [Cited by in Crossref: 1] [Cited by in F6Publishing: 1] [Article Influence: 0.2] [Reference Citation Analysis]
9 Penas DR, González P, Egea JA, Doallo R, Banga JR. Parameter estimation in large-scale systems biology models: a parallel and self-adaptive cooperative strategy. BMC Bioinformatics 2017;18:52. [PMID: 28109249 DOI: 10.1186/s12859-016-1452-4] [Cited by in Crossref: 120] [Cited by in F6Publishing: 31] [Article Influence: 24.0] [Reference Citation Analysis]
10 Eduati F, Doldàn-Martelli V, Klinger B, Cokelaer T, Sieber A, Kogera F, Dorel M, Garnett MJ, Blüthgen N, Saez-Rodriguez J. Drug Resistance Mechanisms in Colorectal Cancer Dissected with Cell Type-Specific Dynamic Logic Models. Cancer Res 2017;77:3364-75. [PMID: 28381545 DOI: 10.1158/0008-5472.CAN-17-0078] [Cited by in Crossref: 67] [Cited by in F6Publishing: 33] [Article Influence: 13.4] [Reference Citation Analysis]
11 Penas DR, Henriques D, González P, Doallo R, Saez-Rodriguez J, Banga JR. A parallel metaheuristic for large mixed-integer dynamic optimization problems, with applications in computational biology. PLoS One 2017;12:e0182186. [PMID: 28813442 DOI: 10.1371/journal.pone.0182186] [Cited by in Crossref: 7] [Cited by in F6Publishing: 3] [Article Influence: 1.4] [Reference Citation Analysis]
12 Henriques D, Villaverde AF, Rocha M, Saez-Rodriguez J, Banga JR. Data-driven reverse engineering of signaling pathways using ensembles of dynamic models. PLoS Comput Biol 2017;13:e1005379. [PMID: 28166222 DOI: 10.1371/journal.pcbi.1005379] [Cited by in Crossref: 27] [Cited by in F6Publishing: 23] [Article Influence: 5.4] [Reference Citation Analysis]