Projects: Rhodolive
Institutions: Latvia University of Agriculture
Expertise: Stoichiometric modelling
Tools: Copasi, COBRA toolbox, Matlab
Institutions: Latvia University of Agriculture
Expertise: Python, Systems Biology, Dynamic modelling, Mathematical modelling
Tools: COBRA toolbox, cobrapy toolbox, Python, SBML, Copasi, Computational Systems Biology
Projects: Service to URV Tarragona, Spain with respect to their Safety Assessment of Endocrine Disrupting Chemicals model (Active NOW), EraCoBiotech 2 nd call proposal preparation, SNAPPER: Synergistic Neurotoxicology APP for Environmental Regulation
Institutions: VU University Amsterdam, Universitat Rovira i Virgili
https://orcid.org/0000-0001-9103-9127Expertise: PBPK modeling, Pharmacology, Pharmacokinetics, Mechanistic Modelling
Tools: R, Berkeley Madonna, Copasi, Cell designer
Projects: MycoSynVac - Engineering Mycoplasma pneumoniae as a broad-spectrum animal vaccine, WURSynBio
Institutions: Wageningen University & Research
https://orcid.org/0000-0001-7049-5334Expertise: Bioinformatics, Systems Biology, Agent-based modelling, Dynamic modelling, Python, Java, R, pathogen host interaction, Molecular Biology
Tools: Copasi, libRoadrunner, Python, R, semantic web
I am a researcher (PhD student) working at Wageningen University & Research as bioinformatician and modeller. I am working as part of the MycoSynVac (http://www.mycosynvac.eu/) project on dynamic modelling of central carbon metabolism in M. pneumoniae, to be extended to full dynamic modelling of metabolism to be implemented in a whole cell model. I am also looking into possibilities to improve standards in model generation using semantic technologies, improving automatic generation, annotation ...
Projects: Kinetics on the move - Workshop 2016, COVID-19 Disease Map
Institutions: Kinetics on the move Workshop at HITS, University of Edinburgh
https://orcid.org/0000-0002-6086-7357Expertise: Calcium signalling, learning, memory, cooperativity
Tools: Copasi, multi-state modelling, MCell
Projects: SilicoTryp, SYSTERACT, SynBio4Flav
Institutions: University of Glasgow, Chalmers University of Technology
https://orcid.org/0000-0002-3593-5792Projects: ICYSB 2015 - International Practical Course in Systems Biology
Institutions: Institute for Experimental Internal Medicine
Expertise: Mathematical modelling, Image processing
Tools: Matlab, Copasi, c++, Mathematica
I am a PhD student in the field of Systems Biology. In my PhD project I apply mathematical modelling to understand the role of time delay in biological systems containing delayed negative feedbacks.
Projects: SysMO DB, Whole body modelling of glucose metabolism in malaria patients, Manchester Institute for Biotechnology, FAIRDOM, ICYSB 2015 - International Practical Course in Systems Biology, GenoSysFat, DigiSal, FAIRDOM user meeting
Institutions: University of Manchester - Department of Computer Science, Manchester Centre for Integrative Systems Biology, University of Manchester
https://orcid.org/0000-0003-4958-0184Interested in systems + synthetic biology, biotechnology, mountaineering, swimming, running, and the occasional cup of tea. Once diagnosed as an ENFP.
Projects: SUMO
Institutions: University of Stuttgart
Tools: Matlab, Copasi, Flux balance analysis, Dynamic modelling
I recently joined the Institute for System Dynamics as a PhD student. I'm currently working on a dynamic model of nitrate respiration in E. coli.
Projects: SysMO-LAB
Institutions: Wageningen University & Research
Expertise: Bioinformatics, Mathematical modelling, Reactor models, dynamics of biological networks.
Tools: Molecular Biology, Cell biology, Computational and theoretical biology, Metabolomics, Model organisms, SBML, ODE, Partial differential equations, Algebraic equations, Linear equations, Copasi, JWS Online, Matlab, Mathematica, SQL, Material balance based modeling
I'm a modeller, specialized in kinetic modeling of biochemical networks. My focus in the SysMO-LAB consortium is on creating models of Lactococcus lactis glycolysis and couple this to other related lactic acid bacteria like Streptococcus pyogenes and Enterococcus faecalis. Besides kinetic modeling, I'm also interested in combining various modeling techniques (genome-scale modeling, qualitative modeling).
Projects: SysMO-LAB
Institutions: University of Heidelberg
Expertise: Bioinformatics, Databases
Tools: Copasi
I am working on the development of algorithms for Comparative Systems Biology.
Projects: SysMO-LAB
Institutions: University of Heidelberg
I am working on a kinetic model of the central metabolism as well as on a genome wide model of Streptococcus pyogenes.
Projects: SysMO-LAB, Kinetics on the move - Workshop 2016, de.NBI-SysBio
Institutions: University of Heidelberg
Ursula Kummer is heading the dept. "Modeling of Biological Processes" at the University of Heidelberg.
Projects: SUMO
Institutions: University of Sheffield
Expertise: Bioinformatics, Agent-based modelling, Microarray Data Analysis
Tools: Java, Copasi, Taverna, Bioconductor Packages in R
I am a research associate in the department of computer science at the University of Sheffield since January 2008. My research is primarily involved with using agent-based modelling techniques and mathematical modelling techniques to model Escherichia coli K-12 Respiratory Adaptation. My research interests also include, development of workflows to analyze Microarray Data.
Here is a kinetic model (in COPASI format) of L. lactis glycolysis.
Creator: Mark Musters
Submitter: Mark Musters
Model type: Ordinary differential equations (ODE)
Model format: Copasi
Environment: Copasi
Organism: Lactococcus lactis
Investigations: No Investigations
Studies: No Studies
Assays: No Assays