• Chemotaxis

  • Referenced in 201 articles [sw07009]
  • PDEs models (parabolic, hyperbolic and kinetic models...
  • GRI-Mech 3.0

  • Referenced in 88 articles [sw07056]
  • optimized mechanism designed to model natural gas combustion, including NO formation and reburn chemistry ... provide sound basic kinetics which also furnish the best combined modeling predictability of basic combustion ... made in the categories of updating the kinetics with recent literature results, including some...
  • BioModels

  • Referenced in 32 articles [sw13610]
  • centralized database of curated, published, quantitative kinetic models of biochemical and cellular systems. BioModels Database...
  • MPSalsa

  • Referenced in 24 articles [sw06960]
  • when coupled with a detailed, fundamental chemistry model. The goal of our research ... emphasis on fluid flow and chemical kinetics modeling. In our research, we focus...
  • Bio-PEPA

  • Referenced in 105 articles [sw01361]
  • features of biological models, suchas stoichiometry and the use of general kinetic laws. Bio-PEPA ... show the translation of a biological model into thenew language and we report some analysis...
  • VAMPnets

  • Referenced in 19 articles [sw32927]
  • relevant structures, equilibria and long-timescale kinetics of biomolecular processes, such as protein-drug binding ... data, and estimation of a Markov state model or related model of the interconversion rates ... step will lead to large modeling errors. Here we employ the variational approach for Markov ... provides easily interpretable few-state kinetic models...
  • Dizzy

  • Referenced in 18 articles [sw35541]
  • have the greatest impact on the model kinetics. The Dizzy software is freely available...
  • E-CELL

  • Referenced in 23 articles [sw07917]
  • rules of the developed cell model with kinetic parameters can be obtained...
  • RELAP5

  • Referenced in 14 articles [sw13228]
  • isometric image of the LOFT input model generated with RGUI. The RELAP5–3D code ... integrated, multi-dimensional thermal-hydraulic and kinetic modeling capability. RELAP5–3D is available from...
  • BIOCHAM

  • Referenced in 45 articles [sw09927]
  • unique features for developing/correcting/completing/coupling models, including the inference of kinetic parameters in high dimension from...
  • CHEMKIN

  • Referenced in 254 articles [sw06684]
  • powerful tools for incorporating complex chemical kinetics into simulations of reacting flow. Using CHEMKIN, researchers ... CHEMKIN has enabled significant strides in the modeling of complex chemical processes, such as combustion...
  • GEPASI

  • Referenced in 34 articles [sw07916]
  • software package for modeling biochemical systems. It simulates the kinetics of systems of biochemical reactions...
  • TChem

  • Referenced in 6 articles [sw12714]
  • facilitates the analysis of detailed kinetic models. The toolkit provide capabilities for thermodynamic properties based ... time advancement and analysis of detailed kinetic models...
  • EPE

  • Referenced in 4 articles [sw09287]
  • Kinetic modelling in systems biology. With more and more interest in how components of biological ... both the methods and applications of kinetic modeling in this emerging field.par The book introduces ... process of constructing and verifying kinetic models. It presents the features, user interface, and examples ... authors describe how to construct kinetic models of intracellular systems on the basis of models...
  • GMWB3D-SLC

  • Referenced in 7 articles [sw18132]
  • equations. Although the kinetic description is more accurate than fluid models (MHD, gyro-fluid), because ... account nonlinear resonant wave–particle interaction, kinetic modeling has the drawback of a huge computer ... considering water-bag-like weak solutions of kinetic collisionless equations, which allow to reduce ... hydrodynamic equations, while keeping its kinetic behaviour. As a result this exact reduction induces...
  • BioBayes

  • Referenced in 26 articles [sw08082]
  • levels of uncertainty involved in the mathematical modelling of biochemical systems. There often ... values of kinetic parameters, about the general structure of the model and about the behaviour...
  • parest_dae

  • Referenced in 7 articles [sw09087]
  • QSSA in Chemical Kinetics: As Taught and as Practiced. Chemical mechanisms for even simple reaction ... QSSA model reduction cannot be carried out for many of the relevant kinetics problems ... values of the large kinetic parameters appearing in the model. These parameters cannot be estimated ... parest_dae) for estimating the reduced model’s kinetic parameters and confidence intervals is briefly...
  • CGAL

  • Referenced in 384 articles [sw00118]
  • graphics, scientific visualization, computer aided design and modeling, geographic information systems, molecular biology, medical imaging ... ellipsoid of points, principal component analysis), and kinetic data structures. All these data structures...
  • APBS

  • Referenced in 92 articles [sw05766]
  • most popular continuum models for describing electrostatic interactions between molecular solutes in salty, aqueous media ... determine ligand-protein and protein-protein binding kinetics, implicit solvent molecular dynamics of biomolecules, solvation...
  • CppTransport

  • Referenced in 10 articles [sw40977]
  • curvature perturbation) for any inflationary model with canonical kinetic terms. It makes no approximations beyond ... determine the ’Feynman rules’ of the model and generates efficient C++ to integrate the correlation...