Projects: CropClock
Institutions: University of Cyprus
Disciplines: Modeller
Roles: Postdoc
Expertise: Mathematical modelling, parameter estimation, Systems Biology
Tools: Dynamic modelling, Matlab, ODE, parameter estimation
Projects: EmPowerPutida
Institutions: University of Wageningen
Disciplines: Not specified
Roles: Not specified
Expertise: Systems Biology, Mathematical modelling
Tools: Matlab, Computational Systems Biology
Projects: SBEpo  Systems Biology of Erythropoietin
Institutions: German Cancer Research Center (DKFZ)
Disciplines: Experimentalist, Modeller
Roles: Not specified
Expertise: Systems Biology, Cell biology, Cell Cycle, Mathematical modelling, Cancer research, signal transduction, MAPkinase
Tools: Not specified
Projects: Not specified
Institutions: Not specified
Disciplines: Not specified
Roles: Not specified
Expertise: Mathematical modelling, parameter estimation, Model selection
Tools: Identifiability analysis, ODE, PDE, parameter estimation, uncertainty analysis
Projects: SBEpo  Systems Biology of Erythropoietin
Institutions: German Cancer Research Center (DKFZ)
Disciplines: Modeller, Experimentalist
Roles: PhD Student
Expertise: Mathematical modelling, Single Cell analysis, Cell biology, Molecular Biology
Tools: Biochemistry, Systems Biology, Matlab, R
Projects: Not specified
Institutions: Not specified
Disciplines: Modeller, Bioinformatician
Roles: Not specified
Expertise: Metabolic Engineering, Kinetic modelling, dynamics and control of biological networks, Bioinformatics, Databases, Mathematical modelling, Molecular Biology, Systems Biology
Tools: SBML, Python, Petri Nets, Snoopy, Marcie, Charlie, Matlab, Jupyter, FBA, MySQL, HTML, Javascript, PHP, CSS
Projects: HUMET Startup
Institutions: University of Luxembourg
Disciplines: Modeller, Bioinformatician
Roles: Not specified
Expertise: Metabolomics, Biochemistry, Bioinformatics, Data integration, Systems Biology, Mathematical modelling, human energy metabolism, Nutrition, microbiomics, metabolic networks
Tools: Matlab, constraintbased modeling
Associate Professor for Systems Biomedicine, Luxembourg Centre for Systems Biomedicine, University of Luxembourg
Projects: Not specified
Institutions: Not specified
Projects: HUMET Startup
Institutions: University of Ulster
Disciplines: Modeller
Roles: Not specified
Expertise: computational biology, Mathematical modelling, Data analysis
Tools: Deterministic models, stochastic methods, High Performance Computing
POSITION
Lecturer/Assistant Prof in Computational Biology at the University of Ulster.
RESEARCH
My research focusses principally on cholesterol metabolism and its role in cardiovascular disease and atherosclerosis. I have also studied its role in innate immunity and infection. In addition, I have worked on areas of personalised and stratified medicine for cardiovascular disease and rheumatoid arthritis.
PUBLICATION
My publications can be seen at: https://scholar.google.co.uk/citations?user=oMccxPwAAAAJ&hl=en
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Projects: HUMET Startup
Institutions: Centro de Investigación Príncipe Felipe
Disciplines: Bioinformatician, Modeller
Roles: Member
Expertise: Bioinformatics, Data Management, Data integration, Mathematical modelling, Genomics, Genetics, Transcriptomics, Systems Biology, Microarray analysis
Tools: Bioinformatics, Computational and theoretical biology, Computational Systems Biology, Data Management, Databases, Dynamic modelling, Genetics, Genomics, R, Systems Biology, Transcriptomics, Java
My scientific interests revolve around functional genomics, systems biology and the development of algorithms and software for the analysis of highthroughput data (mainly, but not restricted to, Next Generation Sequencing) and its application to the relationship between genotype and phenotype, mainly oriented to personalized and precision medicine. I am especially interested in the study of disease mechanisms and drug action mechanisms, drug repositioning and the definition of mechanismbased
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Projects: Not specified
Institutions: Not specified
Disciplines: Modeller, Bioinformatician, Admin
Roles: Not specified
Expertise: Software Engineering, Bioinformatics, Molecular Biology, Systems Biology, Transcriptomics, Mathematical modelling
Tools: Supervised Leadning, Bioinformatics, ODE, Transcriptomics
I am had of the Research Group PiDOMICS which aims at the identification of human biomarkers for fungal infection using omicsdata. Moreover, I am PI Infrastructure project of the Collaborative Research Center / Transregio 124 Pathogenic fungi and their human host: Networks of Interaction  FungiNet. Thereby my expertise is the implementation and usage of pipeline for OMICS (genome, transcriptome, protoem) data analysis, as well as datawarehouses for visualizing these data.
Projects: Kinetics on the move  Workshop 2016
Institutions: University of Heidelberg
Disciplines: Modeller
Roles: Not specified
Expertise: Mathematical modelling, Methode Development, Signalling networks, metabolic networks, Scientific Computing
Tools: kinetic modeling, parameter estimation, Identifiability analysis
Projects: Not specified
Institutions: Not specified
Disciplines: Not specified
Roles: Not specified
Expertise: Mathematical modelling, Biofilms, (Bio)Process Design
Tools: Numerical modells, Comsol, Matlab
Projects: ICYSB 2015  International Practical Course in Systems Biology
Institutions: Åbo Akademi University
Disciplines: Modeller, Experimentalist
Roles: Not specified
Expertise: Mathematical modelling, Cell biology, apoptosis
Tools: parameter estimation, Matlab, quantitative western blot analyses, Fluorescence and confocal microscopy, ODE, sensitivity analysis
Projects: ICYSB 2015  International Practical Course in Systems Biology
Institutions: Institute for Experimental Internal Medicine
Disciplines: Modeller
Roles: Not specified
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: ICYSB 2015  International Practical Course in Systems Biology
Institutions: Institute of Cytology and Genetics
Disciplines: Modeller
Roles: Not specified
Expertise: Mathematical modelling, Software Engineering, Systems Biology
Tools: Computational and theoretical biology, Computational Systems Biology, Data Management, Java, ODE, Stochastic models, Scilab, Individualbased models
I am a biomodeler, PhD student. Actually, I've graduated from Novosibirsk State University on two specialities: my bachelor diploma is done in computer science and the master thesis is defended in information biology. So, I'm kind of drifting towards biology. I am a part of the Haploid Evolutionary Constructor project. Our research group studies are dedicated to the simulation of prokaryotic communities. Personally, I am involved into the simulation of spatially distributed bacterial communities
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Projects: ICYSB 2015  International Practical Course in Systems Biology
Institutions: Universität Konstanz
Disciplines: Experimentalist, Modeller
Roles: PhD Student
Expertise: Molecular Biology, Systems Biology, Mathematical modelling
Tools: quantitative western blot analysis, Molecular Biology, Java, octave, R, ODE
I studied Life Science (which is similar to chemical biology) at the University of Konstanz and became interested in Bioinformatics, Systems Biology and quantitative analyses during my Master's. In my PhD project I combine experimental analyses with modeling and parameter estimation approaches to quantitatively analyse regulation of apoptosis at the level of the Bcl2 protein family.
Institutions: University of Tuebingen, University of Tübingen
Disciplines: Not specified
Roles: Not specified
Expertise: Data analysis, Systems Biology, Transcriptomics, Mathematical modelling, Bioinformatics
Tools: R, qtPCR, Transcriptomics, Computational and theoretical biology, Data Management, Bioinformatics
Projects: BaCellSysMO
Institutions: University of Rostock
Disciplines: Not specified
Roles: Not specified
Expertise: sensitivity analysis, Systems Biology, stress responses, Deterministic modelling of gene regulation networks, dynamics and control of biological networks, parameter estimation, Bacillus subtilis, Mathematical modelling
Tools: Dynamic modelling, Deterministic models, Stochastic models, linux, Matlab, ODE, Computational and theoretical biology, Biochemistry
Modelling of the general stress response activation cascade of sigB in B. subtilis in response to starvation.
Projects: COSMIC
Institutions: Beuth University of Applied Sciences Berlin
Disciplines: Modeller, Experimentalist
Roles: Member
Expertise: Nonlinear Dynamics, Data integration, Dynamic optimization., Optimal experimental design, bioreactor models, dynamics of biological networks, parameter estimation, coupling metabolome and environome, rapid sampling experiments, Data Management, Mathematical modelling
Tools: Dynamic modelling, evaluation of process dynamics, continuous cultivation, Material balance based modeling, stimulus response experiments, Fermentation, Matlab, SBML
Process engineer, modeling biological systems since 1985.
Projects: BaCellSysMO
Institutions: University of Goettingen
Disciplines: Not specified
Roles: Not specified
Expertise: Mathematical modelling
Tools: SubtiWiki, Python, Computational and theoretical biology, Bioinformatics
I'm a PhD student at the lab of Prof. Dr. Jörg Stülke.
My main interest is to analyze the central metabolism of Bacillus subtilis using systems biology software.
I have developed an algorithm to find short pathways connecting sets of metabolites and I'm also involved in SubtiWiki, the wiki for all genes of Bacillus subtilis (http://subtiwiki.unigoettingen.de)
Projects: SUMO
Institutions: University of Stuttgart
Disciplines: Modeller
Roles: Member
Expertise: Systems Biology, parameter estimation, Data Management, Mathematical modelling
Tools: Matlab, Mathematica, SBML, ODE
Former:
PhD student as research associate at the Institute for System Dynamics (ISYS), Universität Stuttgart, Germany. Engineering background→modelling, identification and analyses. Detailed kinetic modelling, identification and analysis of the TCA cycle (tricarboxylic acid cycle, citric acid cycle) and the ETC (electron transport chains, respiratory chains) of Escherichia coli. One of the SysMODB pals for SUMO.
Now:
Industrial affiliation
Projects: SUMO
Institutions: University of Stuttgart
Disciplines: Not specified
Roles: Not specified
Expertise: Signalling networks, metabolic networks, Systems Biology, Mathematical modelling
Tools: Logical modelling, Dynamic modelling, Computational Systems Biology, quantitative western blot analysis, Transcriptomics
From 2005 to 2008 I was group leader at the Institute for System Dynamics at the University of Stuttgart. Since 2008 I am now Professor of Systems Biology at the University of Luxembourg.
The research of the Systems Biology Group at the University of Luxembourg is focussed in the area of experimental and theoretical systems biology. We are applying different modelling techniques (mainly ODE and logical) to biological systems to develop suitable computational models. The analysis of these models
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Projects: BaCellSysMO
Institutions: University of Stuttgart
Disciplines: Not specified
Roles: Not specified
Expertise: carbon metabolism, Signalling networks, metabolic networks, Nonlinear Dynamics, Systems Biology, stress responses, Mathematical modelling of biosystems and bioprocesses, Bacillus subtilis, Mathematical modelling, Biochemistry, Microbiology
Tools: fedbatch cultivation, Dynamic modelling, Computational Systems Biology, Deterministic models, continuous cultivation, Enzyme assay, Chromatography, Fermentation, Matlab, Mathematica, ODE, Computational and theoretical biology
I am a biologist in the lab of Prof. Reuss at the University of Stuttgart and I am working in the field of biotechnology and mathematical modelling.
Projects: SUMO
Institutions: University of Stuttgart
Disciplines: Not specified
Roles: Member
Expertise: Nonlinear Dynamics, parameter estimation, Mathematical modelling
PI of the SUMO work package "Detailed kinetic modelling, identification and analysis of the citric acid cycle and respiratory chains of E. coli". Director of the Institute for System Dynamics, Universität Stuttgart, Germany.
Projects: COSMIC
Institutions: Beuth University of Applied Sciences Berlin
Disciplines: Modeller
Roles: Not specified
Expertise: Systems Biology, dynamics and control of biological networks, Data Management, Mathematical modelling
I am a biotechnologist with main focus on theoretical studies. Currently, I am working on the implementation of a parameter estimation algorithm on GPUs to reduce the computational burden of huge ODE systems.
I am a PAL and I am looking forward to communication with other SYSMO members.
Projects: NoisyStrep
Institutions: University of Cologne
Disciplines: Not specified
Roles: Member
Expertise: Statistical Physics, Mathematical modelling
Tools: fortran, stochastic methods, Stochastic models, Mathematica, Matlab, Python
I am a phd student working on statistical physics and complex systems and applying concepts from these fields to biology.
Projects: COSMIC
Institutions: University of Nottingham
Disciplines: Modeller
Roles: Postdoc
Expertise: Mathematical modelling
Tools: Partial differential equations, ODE, Computational and theoretical biology
Projects: SysMOLAB
Institutions: University of Wageningen
Disciplines: Modeller
Roles: Not specified
Expertise: Reactor models, dynamics of biological networks., Mathematical modelling, Bioinformatics
Tools: SQL, Material balance based modeling, Mathematica, Matlab, Copasi, JWS Online, Algebraic equations, Linear equations, ODE, Partial differential equations, SBML, Metabolomics, Model organisms, Cell biology, Computational and theoretical biology, Molecular Biology
I'm a modeller, specialized in kinetic modeling of biochemical networks. My focus in the SysMOLAB 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 (genomescale modeling, qualitative modeling).
Projects: KOSMOBAC
Institutions: Max Planck Institute for Dynamics of Complex Technical Systems
Disciplines: Not specified
Roles: Not specified
Expertise: parameter estimation, dynamics and control of biological networks, Mathematical modelling
Tools: DIVA, ProMOT, differential algebraic equations, Matlab, ODE, SBML
Projects: MOSES
Institutions: VU University Amsterdam
Disciplines: Not specified
Roles: Not specified
Expertise: Mathematical modelling, Molecular Biology, Biochemistry, Microbiology
Tools: continuous cultivation, Fermentation, Mathematica, Metabolomics, Transcriptomics, Genomics, Biochemistry and protein analysis
Disciplines: Not specified
Roles: Not specified
Expertise: Mathematical and statistical modeling, bioreactor models, dynamics of biological networks, dynamics and control of biological networks, parameter estimation, Reactor models, Mathematical modelling, Bioinformatics, Molecular Biology
Tools: evaluation of process dynamics, continuous cultivation, DIVA, differential algebraic equations, linux, Material balance based modeling, stimulus response experiments, Microarray analysis, Matlab, Linear equations, ODE, Model organisms, Single Cell analysis, SBML, Transcriptomics, Computational and theoretical biology, Bioinformatics
I'm an engineer at the MPI Magdeburg and I'm working in the field of mathematical modeling, model verification, parameter identification, model analysis and experimental design. I'm involved in two projects, KOsmoBac and PSYSMO.
Projects: KOSMOBAC
Institutions: University of Aberdeen
Disciplines: Not specified
Roles: Not specified
Expertise: Mathematical and statistical modeling, dynamics of biological networks, parameter estimation, Mathematical modelling
Tools: Stochastic models, C programming, linux, Perl, Python, Partial differential equations, ODE, Computational and theoretical biology
Physicist, working on the modelling side.
Projects: COSMIC
Institutions: University of Nottingham
Disciplines: Modeller
Roles: Not specified
Expertise: Deterministic modelling of gene regulation networks, Mathematical modelling
Tools: XPPAUT, Matlab, Computational and theoretical biology
I am a Birmingham and MRC Fellow in mathematical biology. Specialising in the modelling of gene regulation networks using both numerical and analytical approaches, my work spans a range of biological applications, from drug development to bioenergy to understanding bacterial behaviour. My MRC fellowship gave me the opportunity to gain experimental training in order to generate the complementary data required to adopt a truly interdisciplinary approach to mathematical modelling in biology.
I worked
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Projects: COSMIC, BaCellSysMO
Institutions: University of Rostock
Disciplines: Modeller
Roles: Postdoc
Expertise: Statistical Physics, Data analysis, Systems Biology, bistability, Physics, dynamics of biological networks, dynamics and control of biological networks, Mathematical modelling
Tools: data modelling, Dynamic modelling, Computational Systems Biology, Stochastic models, C programming, differential algebraic equations, Mathematica, Matlab, ODE, Computational and theoretical biology
Modelling of cellular signalling, Dynamic Motifs and Feedback, Quantitative Measures, Theoretical Aspects of Modelling Biological Systems
Projects: COSMIC
Institutions: University of Rostock
Disciplines: Not specified
Roles: Not specified
Expertise: Bacterial metabolism  Metabolic engineering, Systems Biology, Mathematics, dynamics of biological networks, parameter estimation, Mathematical modelling
Tools: data modeling, Matlab, SBML, ODE, Computational and theoretical biology
biomathematician, PhD student at the University of Rostock, Systems Biology Group Rostock
Projects: PSYSMO
Institutions: Max Planck Institute for Dynamics of Complex Technical Systems
Disciplines: Not specified
Roles: Not specified
Expertise: Mathematics, dynamics and control of biological networks, Mathematical modelling
Tools: Stochastic models, Fluorecence based reporter gene analyses/single cell analyses, Matlab, ODE, Computational and theoretical biology
Disciplines: Not specified
Roles: Not specified
Expertise: Mathematical modelling of biosystems and bioprocesses, Statistically and biologically inspired optimization algorithms, dynamics and control of biological networks, parameter estimation, Mathematical modelling
Tools: including:  Dynamic modelling  Parameter estimation  Optimal experimental design  Dynamic optimization, Computational Systems Biology, Mathematica, Matlab, Partial differential equations, ODE, Computational and theoretical biology
We are very interested in applying a systems approach (i.e. modelbased concepts and related computational tools) to problems from the biological domain. In particular, we are doing research in computational systems biology, targetting the following topics:
 Parameter estimation (inverse problems, model calibration) in biochemical pathways
 Optimal experimental design (optimal dynamic experiments) for Systems Biology
 Dynamic optimization (optimal control) of biosystems and bioprocesses

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Projects: KOSMOBAC
Institutions: University of Aberdeen
Disciplines: Not specified
Roles: Not specified
Expertise: Mathematics, Programming, Physics, Mathematical modelling
Tools: Computational Systems Biology, C programming, data modeling, differential algebraic equations, Algebraic equations, ODE, Computational and theoretical biology
My background is physics engineering & biomedical engineering. I did my PhD in Surrey on the modelling of response of mammalian cells to radiation of different qualities.
I have been working at the University of Aberdeen since November 2007 as a theoreticien research fellow of the KOSMOBAC project. We are investigating the homeostasis of ions in bacteria E. coli. I have been working at a model of the buffering capacity of the cytopplasm, arising from the presence of weak acids and bases. We have
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Projects: KOSMOBAC
Institutions: University of Aberdeen
Disciplines: Not specified
Roles: Not specified
Expertise: Mathematical modelling of biosystems and bioprocesses, Mathematical modelling
Tools: Deterministic models, including: Dynamic modelling Parameter estimation Optimal experimental design Dynamic optimization, Computational Systems Biology, Stochastic models, C programming, enzymatic analyses, data modeling, linux, ODE, Computational and theoretical biology
Projects: KOSMOBAC
Institutions: MaxPlanckInstitute of Biochemistry Martinsried
Disciplines: Modeller, Experimentalist, Bioinformatician
Roles: Not specified
Expertise: sequencing, Mathematical modelling, Bioinformatics, Molecular Biology, Biochemistry, Microbiology
Tools: Transcriptomics, qPCR, molecular biological techniques (RNA/DNA techniques, rtPCR, Fermentation, Matlab, Biochemistry and protein analysis, Bioinformatics, Molecular Biology, Microbiology
Professor in Jinan University, Guangzhou, China.
My research interest is in the modeling of translation. Connecting various processes in translation, we can investigate the impact of different factors on protein biosynthesis and biogenesis in genomewide scale. This may reveal various general mechanisms on control level of gene expression and folding efficiency regulation in different growth conditions.
Projects: KOSMOBAC
Institutions: University of Aberdeen
Disciplines: Not specified
Roles: Not specified
Expertise: Programming, Physics, Mathematical modelling
Tools: PDE, C programing, Stochastic models, linux, ODE, Computational and theoretical biology