107 related articles for article (PubMed ID: 28155685)
1. Sig2GRN: a software tool linking signaling pathway with gene regulatory network for dynamic simulation.
Zhang F; Liu R; Zheng J
BMC Syst Biol; 2016 Dec; 10(Suppl 4):123. PubMed ID: 28155685
[TBL] [Abstract][Full Text] [Related]
2. SimBoolNet--a Cytoscape plugin for dynamic simulation of signaling networks.
Zheng J; Zhang D; Przytycki PF; Zielinski R; Capala J; Przytycka TM
Bioinformatics; 2010 Jan; 26(1):141-2. PubMed ID: 19887508
[TBL] [Abstract][Full Text] [Related]
3. CyTRANSFINDER: a Cytoscape 3.3 plugin for three-component (TF, gene, miRNA) signal transduction pathway construction.
Politano G; Orso F; Raimo M; Benso A; Savino A; Taverna D; Di Carlo S
BMC Bioinformatics; 2016 Apr; 17():157. PubMed ID: 27059647
[TBL] [Abstract][Full Text] [Related]
4. Quantitative inference of dynamic regulatory pathways via microarray data.
Chang WC; Li CW; Chen BS
BMC Bioinformatics; 2005 Mar; 6():44. PubMed ID: 15748298
[TBL] [Abstract][Full Text] [Related]
5. Boolean Modeling of Cellular and Molecular Pathways Involved in Influenza Infection.
Anderson CS; DeDiego ML; Topham DJ; Thakar J
Comput Math Methods Med; 2016; 2016():7686081. PubMed ID: 26981147
[TBL] [Abstract][Full Text] [Related]
6. Integrated signaling pathway and gene expression regulatory model to dissect dynamics of Escherichia coli challenged mammary epithelial cells.
den Breems NY; Nguyen LK; Kulasiri D
Biosystems; 2014 Dec; 126():27-40. PubMed ID: 25289583
[TBL] [Abstract][Full Text] [Related]
7. Biological Network Inference and analysis using SEBINI and CABIN.
Taylor R; Singhal M
Methods Mol Biol; 2009; 541():551-76. PubMed ID: 19381531
[TBL] [Abstract][Full Text] [Related]
8. Integration of genomic information with biological networks using Cytoscape.
Bauer-Mehren A
Methods Mol Biol; 2013; 1021():37-61. PubMed ID: 23715979
[TBL] [Abstract][Full Text] [Related]
9. EpiLog: A software for the logical modelling of epithelial dynamics.
Varela PL; Ramos CV; Monteiro PT; Chaouiya C
F1000Res; 2018; 7():1145. PubMed ID: 30363398
[TBL] [Abstract][Full Text] [Related]
10. A stochastic differential equation model for quantifying transcriptional regulatory network in Saccharomyces cerevisiae.
Chen KC; Wang TY; Tseng HH; Huang CY; Kao CY
Bioinformatics; 2005 Jun; 21(12):2883-90. PubMed ID: 15802287
[TBL] [Abstract][Full Text] [Related]
11. GenePro: a Cytoscape plug-in for advanced visualization and analysis of interaction networks.
Vlasblom J; Wu S; Pu S; Superina M; Liu G; Orsi C; Wodak SJ
Bioinformatics; 2006 Sep; 22(17):2178-9. PubMed ID: 16921162
[TBL] [Abstract][Full Text] [Related]
12. Generalized logical model based on network topology to capture the dynamical trends of cellular signaling pathways.
Zhang F; Chen H; Zhao LN; Liu H; Przytycka TM; Zheng J
BMC Syst Biol; 2016 Jan; 10 Suppl 1(Suppl 1):7. PubMed ID: 26818802
[TBL] [Abstract][Full Text] [Related]
13. Estimation of delays in generalized asynchronous Boolean networks.
Das H; Layek RK
Mol Biosyst; 2016 Oct; 12(10):3098-110. PubMed ID: 27464825
[TBL] [Abstract][Full Text] [Related]
14. Synthetic microarray data generation with RANGE and NEMO.
Long J; Roth M
Bioinformatics; 2008 Jan; 24(1):132-4. PubMed ID: 17982169
[TBL] [Abstract][Full Text] [Related]
15. NetAtlas: a Cytoscape plugin to examine signaling networks based on tissue gene expression.
Yang L; Walker JR; Hogenesch JB; Thomas RS
In Silico Biol; 2008; 8(1):47-52. PubMed ID: 18430989
[TBL] [Abstract][Full Text] [Related]
16. Building Transcriptional Association Networks in Cytoscape with RegNetC.
Nepomuceno-Chamorro IA; Marquez-Chamorro A; Aguilar-Ruiz JS
IEEE/ACM Trans Comput Biol Bioinform; 2015; 12(4):823-4. PubMed ID: 26357322
[TBL] [Abstract][Full Text] [Related]
17. BioASF: a framework for automatically generating executable pathway models specified in BioPAX.
Haydarlou R; Jacobsen A; Bonzanni N; Feenstra KA; Abeln S; Heringa J
Bioinformatics; 2016 Jun; 32(12):i60-i69. PubMed ID: 27307645
[TBL] [Abstract][Full Text] [Related]
18. PetriScape - A plugin for discrete Petri net simulations in Cytoscape.
Almeida D; Azevedo V; Silva A; Baumbach J
J Integr Bioinform; 2016 Jun; 13(1):284. PubMed ID: 27402693
[TBL] [Abstract][Full Text] [Related]
19. A new dynamic Bayesian network (DBN) approach for identifying gene regulatory networks from time course microarray data.
Zou M; Conzen SD
Bioinformatics; 2005 Jan; 21(1):71-9. PubMed ID: 15308537
[TBL] [Abstract][Full Text] [Related]
20. Constructing logical models of gene regulatory networks by integrating transcription factor-DNA interactions with expression data: an entropy-based approach.
Karlebach G; Shamir R
J Comput Biol; 2012 Jan; 19(1):30-41. PubMed ID: 22216865
[TBL] [Abstract][Full Text] [Related]
[Next] [New Search]
