JWS Online
JWS Online is a Systems Biology tool for the construction, modification and simulation of kinetic models and for the storage of curated models.
Description
More detailed information about this field from each metasource.
JWS Online is a Systems Biology tool for the construction, modification and simulation of kinetic models and for the storage of curated models.
metasource: Fairsharing.orgversion: FAIRsharing.org: JWS Online; JWS Online; DOI: https://doi.org/10.25504/FAIRsharing.r09jt6; Last edited: June 23, 2021, 10:26 a.m.; Last accessed: Jan 03 2022 7:08 p.m.
Webpage:
https://jws2.sysmo-db.org/Webpage
More detailed information about this field from each metasource.
https://jws2.sysmo-db.org/
metasource: Fairsharing.orgversion: FAIRsharing.org: JWS Online; JWS Online; DOI: https://doi.org/10.25504/FAIRsharing.r09jt6; Last edited: June 23, 2021, 10:26 a.m.; Last accessed: Jan 03 2022 7:08 p.m.
Publications:
Publications
More detailed information about this field from each metasource.
Web-based kinetic modelling using JWS Online
PMID: 15072998
metasource: Fairsharing.org
version: FAIRsharing.org: JWS Online; JWS Online; DOI: https://doi.org/10.25504/FAIRsharing.r09jt6; Last edited: June 23, 2021, 10:26 a.m.; Last accessed: Jan 03 2022 7:08 p.m.
Publications
More detailed information about this field from each metasource.
Web-based kinetic modelling using JWS Online
PMID: 15072998
metasource: Fairsharing.org
version: FAIRsharing.org: JWS Online; JWS Online; DOI: https://doi.org/10.25504/FAIRsharing.r09jt6; Last edited: June 23, 2021, 10:26 a.m.; Last accessed: Jan 03 2022 7:08 p.m.
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Web-based kinetic modelling using JWS Online
PubMed citations: 93.
93 articles citing: Web-based kinetic modelling using JWS Online
Deciphering signal transduction networks in the liver by mechanistic mathematical modelling. PMID:35748700
Tryptophan Production Maximization in a Fed-Batch Bioreactor with Modified E. coli Cells, by Optimizing Its Operating Policy Based on an Extended Structured Cell Kinetic Model. PMID:34940363
A protocol for dynamic model calibration. PMID:34619769
Synthetic Biology in Plants, a Boon for Coming Decades. PMID:34420149
Relating simulation studies by provenance-Developing a family of Wnt signaling models. PMID:34351901
Benchmarking of numerical integration methods for ODE models of biological systems. PMID:33514831
KiMoSys 2.0: an upgraded database for submitting, storing and accessing experimental data for kinetic modeling. PMID:33247931
Executable biochemical space for specification and analysis of biochemical systems. PMID:32915842
Best Practices for Making Reproducible Biochemical Models. PMID:32853539
Publishing reproducible dynamic kinetic models. PMID:32793969
libsbmljs-Enabling web-based SBML tools. PMID:32339626
A combined experimental and modelling approach for the Weimberg pathway optimisation. PMID:32107375
Data Management in Computational Systems Biology: Exploring Standards, Tools, Databases, and Packaging Best Practices. PMID:31602618
Closing the gap between formats for storing layout information in systems biology. PMID:31273380
Open Source Brain: A Collaborative Resource for Visualizing, Analyzing, Simulating, and Developing Standardized Models of Neurons and Circuits. PMID:31201122
Delving deeper: Relating the behaviour of a metabolic system to the properties of its components using symbolic metabolic control analysis. PMID:30485345
Harmonizing semantic annotations for computational models in biology. PMID:30462164
"Reproducible" Research in Mathematical Sciences Requires Changes in our Peer Review Culture and Modernization of our Current Publication Approach. PMID:30232583
Identifying frequent patterns in biochemical reaction networks: a workflow. PMID:29992320
Tellurium notebooks-An environment for reproducible dynamical modeling in systems biology. PMID:29906293
Low affinity uniporter carrier proteins can increase net substrate uptake rate by reducing efflux. PMID:29615663
MAGPIE: Simplifying access and execution of computational models in the life sciences. PMID:29244826
PharmML in Action: an Interoperable Language for Modeling and Simulation. PMID:28575551
SED-ML web tools: generate, modify and export standard-compliant simulation studies. PMID:28049131
FAIRDOMHub: a repository and collaboration environment for sharing systems biology research. PMID:27899646
COMODI: an ontology to characterise differences in versions of computational models in biology. PMID:27401413
Development of an accurate kinetic model for the central carbon metabolism of Escherichia coli. PMID:27329289
PASMet: a web-based platform for prediction, modelling and analyses of metabolic systems. PMID:27174940
The Human Physiome: how standards, software and innovative service infrastructures are providing the building blocks to make it achievable. PMID:27051515
Reproducibility in Computational Neuroscience Models and Simulations. PMID:27046845
Challenges in horizontal model integration. PMID:26968798
Flux Control in Glycolysis Varies Across the Tree of Life. PMID:26920685
The Development of Computational Biology in South Africa: Successes Achieved and Lessons Learnt. PMID:26845152
Predictive Modeling of Drug Treatment in the Area of Personalized Medicine. PMID:26692759
Tracing regulatory routes in metabolism using generalised supply-demand analysis. PMID:26635009
BioModels: Content, Features, Functionality, and Use. PMID:26225232
SEEK: a systems biology data and model management platform. PMID:26160520
Annotation-based feature extraction from sets of SBML models. PMID:25904997
Combining computational models, semantic annotations and simulation experiments in a graph database. PMID:25754863
Analytical study of robustness of a negative feedback oscillator by multiparameter sensitivity. PMID:25605374
Improving collaboration by standardization efforts in systems biology. PMID:25538939
Computational strategies for a system-level understanding of metabolism. PMID:25427076
BioModels: ten-year anniversary. PMID:25414348
MOSBIE: a tool for comparison and analysis of rule-based biochemical models. PMID:25253680
KiMoSys: a web-based repository of experimental data for KInetic MOdels of biological SYStems. PMID:25115331
What mRNA Abundances Can Tell us about Metabolism. PMID:24957650
Optimality principles in the regulation of metabolic networks. PMID:24957646
SensA: web-based sensitivity analysis of SBML models. PMID:24903418
Bridging the gaps in systems biology. PMID:24728588
Plant systems biology: insights, advances and challenges. PMID:24671625
An online model composition tool for system biology models. PMID:24006914
A model of yeast glycolysis based on a consistent kinetic characterisation of all its enzymes. PMID:23831062
D-Lactate production as a function of glucose metabolism in Saccharomyces cerevisiae. PMID:23361949
Systems biology, bioinformatics, and biomarkers in neuropsychiatry. PMID:23269912
Data management strategies for multinational large-scale systems biology projects. PMID:23047157
A Systems Biology Approach to Deciphering the Etiology of Steatosis Employing Patient-Derived Dermal Fibroblasts and iPS Cells. PMID:22969728
Elucidating the sources of β-catenin dynamics in human neural progenitor cells. PMID:22952611
Condor-COPASI: high-throughput computing for biochemical networks. PMID:22834945
OREMPdb: a semantic dictionary of computational pathway models. PMID:22536973
What it takes to understand and cure a living system: computational systems biology and a systems biology-driven pharmacokinetics-pharmacodynamics platform. PMID:22419971
Simplification of biochemical models: a general approach based on the analysis of the impact of individual species and reactions on the systems dynamics. PMID:22390191
Creating interactive, web-based and data-enriched maps with the Systems Biology Graphical Notation. PMID:22383037
Reproducible computational biology experiments with SED-ML--the Simulation Experiment Description Markup Language. PMID:22172142
SABIO-RK--database for biochemical reaction kinetics. PMID:22102587
Dupuytren's: a systems biology disease. PMID:21943049
Retrieval, alignment, and clustering of computational models based on semantic annotations. PMID:21772260
The logic of kinetic regulation in the thioredoxin system. PMID:21266044
Consistent robustness analysis (CRA) identifies biologically relevant properties of regulatory network models. PMID:21179566
Design principles of nuclear receptor signaling: how complex networking improves signal transduction. PMID:21179018
Systematic integration of experimental data and models in systems biology. PMID:21114840
Ranked retrieval of Computational Biology models. PMID:20701772
BioModels Database: An enhanced, curated and annotated resource for published quantitative kinetic models. PMID:20587024
Simulating plant metabolic pathways with enzyme-kinetic models. PMID:20118273
TIde: a software for the systematic scanning of drug targets in kinetic network models. PMID:19840374
"Hot standards" for the thermoacidophilic archaeon Sulfolobus solfataricus. PMID:19802714
Metabolic network discovery through reverse engineering of metabolome data. PMID:19718266
Approaches to biosimulation of cellular processes. PMID:19669467
Web-based applications for building, managing and analysing kinetic models of biological systems. PMID:18805901
The model repository of the models of infectious disease agent study. PMID:18632331
Systems biology towards life in silico: mathematics of the control of living cells. PMID:18278498
A data integration approach for cell cycle analysis oriented to model simulation in systems biology. PMID:17678529
Modeling biochemical transformation processes and information processing with Narrator. PMID:17389034
Reactome: a knowledge base of biologic pathways and processes. PMID:17367534
Thermodynamically feasible kinetic models of reaction networks. PMID:17208985
Bringing metabolic networks to life: integration of kinetic, metabolic, and proteomic data. PMID:17173670
Parameter estimate of signal transduction pathways. PMID:17118160
Model storage, exchange and integration. PMID:17118155
Mathematical modeling of intracellular signaling pathways. PMID:17118154
Escalating model sizes and complexities call for standardized forms of representation. PMID:16729046
Quantitative elementary mode analysis of metabolic pathways: the example of yeast glycolysis. PMID:16584566
Cell-signalling dynamics in time and space. PMID:16482094
BioModels Database: a free, centralized database of curated, published, quantitative kinetic models of biochemical and cellular systems. PMID:16381960
Computational modelling of the receptor-tyrosine-kinase-activated MAPK pathway. PMID:16293107
Tags:
Tags
More detailed information about this field from each metasource.
kinetic model
metasource: Fairsharing.org
version: FAIRsharing.org: JWS Online; JWS Online; DOI: https://doi.org/10.25504/FAIRsharing.r09jt6; Last edited: June 23, 2021, 10:26 a.m.; Last accessed: Jan 03 2022 7:08 p.m.
mathematical model
metasource: Fairsharing.org
version: FAIRsharing.org: JWS Online; JWS Online; DOI: https://doi.org/10.25504/FAIRsharing.r09jt6; Last edited: June 23, 2021, 10:26 a.m.; Last accessed: Jan 03 2022 7:08 p.m.
modeling and simulation
metasource: Fairsharing.org
version: FAIRsharing.org: JWS Online; JWS Online; DOI: https://doi.org/10.25504/FAIRsharing.r09jt6; Last edited: June 23, 2021, 10:26 a.m.; Last accessed: Jan 03 2022 7:08 p.m.
Tags
More detailed information about this field from each metasource.
kinetic model
metasource: Fairsharing.orgversion: FAIRsharing.org: JWS Online; JWS Online; DOI: https://doi.org/10.25504/FAIRsharing.r09jt6; Last edited: June 23, 2021, 10:26 a.m.; Last accessed: Jan 03 2022 7:08 p.m.
mathematical model
metasource: Fairsharing.orgversion: FAIRsharing.org: JWS Online; JWS Online; DOI: https://doi.org/10.25504/FAIRsharing.r09jt6; Last edited: June 23, 2021, 10:26 a.m.; Last accessed: Jan 03 2022 7:08 p.m.
modeling and simulation
metasource: Fairsharing.orgversion: FAIRsharing.org: JWS Online; JWS Online; DOI: https://doi.org/10.25504/FAIRsharing.r09jt6; Last edited: June 23, 2021, 10:26 a.m.; Last accessed: Jan 03 2022 7:08 p.m.
kinetic model mathematical model modeling and simulation
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