These tools will no longer be maintained as of December 31, 2024. Archived website can be found here. PubMed4Hh GitHub repository can be found here. Contact NLM Customer Service if you have questions.


BIOMARKERS

Molecular Biopsy of Human Tumors

- a resource for Precision Medicine *

272 related articles for article (PubMed ID: 21186362)

  • 1. Efficient modeling, simulation and coarse-graining of biological complexity with NFsim.
    Sneddon MW; Faeder JR; Emonet T
    Nat Methods; 2011 Feb; 8(2):177-83. PubMed ID: 21186362
    [TBL] [Abstract][Full Text] [Related]  

  • 2. MCell-R: A Particle-Resolution Network-Free Spatial Modeling Framework.
    Tapia JJ; Saglam AS; Czech J; Kuczewski R; Bartol TM; Sejnowski TJ; Faeder JR
    Methods Mol Biol; 2019; 1945():203-229. PubMed ID: 30945248
    [TBL] [Abstract][Full Text] [Related]  

  • 3. The efficiency of reactant site sampling in network-free simulation of rule-based models for biochemical systems.
    Yang J; Hlavacek WS
    Phys Biol; 2011 Oct; 8(5):055009. PubMed ID: 21832806
    [TBL] [Abstract][Full Text] [Related]  

  • 4. Rule-based modeling: a computational approach for studying biomolecular site dynamics in cell signaling systems.
    Chylek LA; Harris LA; Tung CS; Faeder JR; Lopez CF; Hlavacek WS
    Wiley Interdiscip Rev Syst Biol Med; 2014; 6(1):13-36. PubMed ID: 24123887
    [TBL] [Abstract][Full Text] [Related]  

  • 5. Exact hybrid particle/population simulation of rule-based models of biochemical systems.
    Hogg JS; Harris LA; Stover LJ; Nair NS; Faeder JR
    PLoS Comput Biol; 2014 Apr; 10(4):e1003544. PubMed ID: 24699269
    [TBL] [Abstract][Full Text] [Related]  

  • 6. Specification, annotation, visualization and simulation of a large rule-based model for ERBB receptor signaling.
    Creamer MS; Stites EC; Aziz M; Cahill JA; Tan CW; Berens ME; Han H; Bussey KJ; Von Hoff DD; Hlavacek WS; Posner RG
    BMC Syst Biol; 2012 Aug; 6():107. PubMed ID: 22913808
    [TBL] [Abstract][Full Text] [Related]  

  • 7. Compartmental and Spatial Rule-Based Modeling with Virtual Cell.
    Blinov ML; Schaff JC; Vasilescu D; Moraru II; Bloom JE; Loew LM
    Biophys J; 2017 Oct; 113(7):1365-1372. PubMed ID: 28978431
    [TBL] [Abstract][Full Text] [Related]  

  • 8. MONALISA for stochastic simulations of Petri net models of biochemical systems.
    Balazki P; Lindauer K; Einloft J; Ackermann J; Koch I
    BMC Bioinformatics; 2015 Jul; 16():215. PubMed ID: 26156221
    [TBL] [Abstract][Full Text] [Related]  

  • 9. New approaches to modeling complex biochemistry.
    Bachman JA; Sorger P
    Nat Methods; 2011 Feb; 8(2):130-1. PubMed ID: 21278724
    [TBL] [Abstract][Full Text] [Related]  

  • 10. Hybrid deterministic/stochastic simulation of complex biochemical systems.
    Lecca P; Bagagiolo F; Scarpa M
    Mol Biosyst; 2017 Nov; 13(12):2672-2686. PubMed ID: 29058744
    [TBL] [Abstract][Full Text] [Related]  

  • 11. Unified representation of Life's basic properties by a 3-species Stochastic Cubic Autocatalytic Reaction-Diffusion system of equations.
    Muñuzuri AP; Pérez-Mercader J
    Phys Life Rev; 2022 Jul; 41():64-83. PubMed ID: 35594602
    [TBL] [Abstract][Full Text] [Related]  

  • 12. FERN - a Java framework for stochastic simulation and evaluation of reaction networks.
    Erhard F; Friedel CC; Zimmer R
    BMC Bioinformatics; 2008 Aug; 9():356. PubMed ID: 18755046
    [TBL] [Abstract][Full Text] [Related]  

  • 13. Adiabatic coarse-graining and simulations of stochastic biochemical networks.
    Sinitsyn NA; Hengartner N; Nemenman I
    Proc Natl Acad Sci U S A; 2009 Jun; 106(26):10546-51. PubMed ID: 19525397
    [TBL] [Abstract][Full Text] [Related]  

  • 14. Modeling biological systems using Dynetica--a simulator of dynamic networks.
    You L; Hoonlor A; Yin J
    Bioinformatics; 2003 Feb; 19(3):435-6. PubMed ID: 12584138
    [TBL] [Abstract][Full Text] [Related]  

  • 15. Rule-based modeling with Virtual Cell.
    Schaff JC; Vasilescu D; Moraru II; Loew LM; Blinov ML
    Bioinformatics; 2016 Sep; 32(18):2880-2. PubMed ID: 27497444
    [TBL] [Abstract][Full Text] [Related]  

  • 16. Multi-state modeling of biomolecules.
    Stefan MI; Bartol TM; Sejnowski TJ; Kennedy MB
    PLoS Comput Biol; 2014 Sep; 10(9):e1003844. PubMed ID: 25254957
    [TBL] [Abstract][Full Text] [Related]  

  • 17. Stochastic off-lattice modeling of molecular self-assembly in crowded environments by Green's function reaction dynamics.
    Lee B; Leduc PR; Schwartz R
    Phys Rev E Stat Nonlin Soft Matter Phys; 2008 Sep; 78(3 Pt 1):031911. PubMed ID: 18851069
    [TBL] [Abstract][Full Text] [Related]  

  • 18. Stochastic model simulation using Kronecker product analysis and Zassenhaus formula approximation.
    Caglar MU; Pal R
    IEEE/ACM Trans Comput Biol Bioinform; 2013; 10(5):1125-36. PubMed ID: 24384703
    [TBL] [Abstract][Full Text] [Related]  

  • 19. Cyto-Sim: a formal language model and stochastic simulator of membrane-enclosed biochemical processes.
    Sedwards S; Mazza T
    Bioinformatics; 2007 Oct; 23(20):2800-2. PubMed ID: 17855418
    [TBL] [Abstract][Full Text] [Related]  

  • 20. Deterministic modelling and stochastic simulation of biochemical pathways using MATLAB.
    Ullah M; Schmidt H; Cho KH; Wolkenhauer O
    Syst Biol (Stevenage); 2006 Mar; 153(2):53-60. PubMed ID: 16986253
    [TBL] [Abstract][Full Text] [Related]  

    [Next]    [New Search]
    of 14.