276 related articles for article (PubMed ID: 23079107)
21. Bio-logic builder: a non-technical tool for building dynamical, qualitative models.
Helikar T; Kowal B; Madrahimov A; Shrestha M; Pedersen J; Limbu K; Thapa I; Rowley T; Satalkar R; Kochi N; Konvalina J; Rogers JA
PLoS One; 2012; 7(10):e46417. PubMed ID: 23082121
[TBL] [Abstract][Full Text] [Related]
22. Logic integer programming models for signaling networks.
Haus UU; Niermann K; Truemper K; Weismantel R
J Comput Biol; 2009 May; 16(5):725-43. PubMed ID: 19432541
[TBL] [Abstract][Full Text] [Related]
23. A framework to find the logic backbone of a biological network.
Maheshwari P; Albert R
BMC Syst Biol; 2017 Dec; 11(1):122. PubMed ID: 29212542
[TBL] [Abstract][Full Text] [Related]
24. Boolean network identification from perturbation time series data combining dynamics abstraction and logic programming.
Ostrowski M; Paulevé L; Schaub T; Siegel A; Guziolowski C
Biosystems; 2016 Nov; 149():139-153. PubMed ID: 27484338
[TBL] [Abstract][Full Text] [Related]
25. CABIN: collective analysis of biological interaction networks.
Singhal M; Domico K
Comput Biol Chem; 2007 Jun; 31(3):222-5. PubMed ID: 17500038
[TBL] [Abstract][Full Text] [Related]
26. Rapidly exploring structural and dynamic properties of signaling networks using PathwayOracle.
Ruths D; Nakhleh L; Ram PT
BMC Syst Biol; 2008 Aug; 2():76. PubMed ID: 18713463
[TBL] [Abstract][Full Text] [Related]
27. Non Linear Programming (NLP) formulation for quantitative modeling of protein signal transduction pathways.
Mitsos A; Melas IN; Morris MK; Saez-Rodriguez J; Lauffenburger DA; Alexopoulos LG
PLoS One; 2012; 7(11):e50085. PubMed ID: 23226239
[TBL] [Abstract][Full Text] [Related]
28. JNets: exploring networks by integrating annotation.
Macpherson JI; Pinney JW; Robertson DL
BMC Bioinformatics; 2009 Mar; 10():95. PubMed ID: 19323810
[TBL] [Abstract][Full Text] [Related]
29. DEEP--a tool for differential expression effector prediction.
Degenhardt J; Haubrock M; Dönitz J; Wingender E; Crass T
Nucleic Acids Res; 2007 Jul; 35(Web Server issue):W619-24. PubMed ID: 17584786
[TBL] [Abstract][Full Text] [Related]
30. Discrete logic modelling as a means to link protein signalling networks with functional analysis of mammalian signal transduction.
Saez-Rodriguez J; Alexopoulos LG; Epperlein J; Samaga R; Lauffenburger DA; Klamt S; Sorger PK
Mol Syst Biol; 2009; 5():331. PubMed ID: 19953085
[TBL] [Abstract][Full Text] [Related]
31. 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]
32. Exhaustively characterizing feasible logic models of a signaling network using Answer Set Programming.
Guziolowski C; Videla S; Eduati F; Thiele S; Cokelaer T; Siegel A; Saez-Rodriguez J
Bioinformatics; 2013 Sep; 29(18):2320-6. PubMed ID: 23853063
[TBL] [Abstract][Full Text] [Related]
33. cPath: open source software for collecting, storing, and querying biological pathways.
Cerami EG; Bader GD; Gross BE; Sander C
BMC Bioinformatics; 2006 Nov; 7():497. PubMed ID: 17101041
[TBL] [Abstract][Full Text] [Related]
34. Constraints on signaling network logic reveal functional subgraphs on Multiple Myeloma OMIC data.
Miannay B; Minvielle S; Magrangeas F; Guziolowski C
BMC Syst Biol; 2018 Mar; 12(Suppl 3):32. PubMed ID: 29589566
[TBL] [Abstract][Full Text] [Related]
35. kboolnet: a toolkit for the verification, validation, and visualization of reaction-contingency (rxncon) models.
Carretero Chavez W; Krantz M; Klipp E; Kufareva I
BMC Bioinformatics; 2023 Jun; 24(1):246. PubMed ID: 37308855
[TBL] [Abstract][Full Text] [Related]
36. A pipeline to create predictive functional networks: application to the tumor progression of hepatocellular carcinoma.
Folschette M; Legagneux V; Poret A; Chebouba L; Guziolowski C; Théret N
BMC Bioinformatics; 2020 Jan; 21(1):18. PubMed ID: 31937236
[TBL] [Abstract][Full Text] [Related]
37. Reconn: a cytoscape plug-in for exploring and visualizing reactome.
Ligtenberg WP; Bošnački D; Hilbers PA
J Bioinform Comput Biol; 2013 Aug; 11(4):1350004. PubMed ID: 23859268
[TBL] [Abstract][Full Text] [Related]
38. Designing Experiments to Discriminate Families of Logic Models.
Videla S; Konokotina I; Alexopoulos LG; Saez-Rodriguez J; Schaub T; Siegel A; Guziolowski C
Front Bioeng Biotechnol; 2015; 3():131. PubMed ID: 26389116
[TBL] [Abstract][Full Text] [Related]
39. GraphCrunch: a tool for large network analyses.
Milenković T; Lai J; Przulj N
BMC Bioinformatics; 2008 Jan; 9():70. PubMed ID: 18230190
[TBL] [Abstract][Full Text] [Related]
40. UNIPred-Web: a web tool for the integration and visualization of biomolecular networks for protein function prediction.
Perlasca P; Frasca M; Ba CT; Notaro M; Petrini A; Casiraghi E; Grossi G; Gliozzo J; Valentini G; Mesiti M
BMC Bioinformatics; 2019 Aug; 20(1):422. PubMed ID: 31412768
[TBL] [Abstract][Full Text] [Related]
[Previous] [Next] [New Search]