Disciplines: Experimentalist, Bioinformatician
Roles: Not specified
Expertise: Cell biology, Biochemistry, Molecular Biology, protein-protein interactions
Tools: Molecular biology techniques (RNA/DNA/Protein), Biochemistry and protein analysis, Computational Systems Biology
I am performing research in biomarkers discovery, particularly regarding liver fibrosis in non-alcoholic fatty liver disease. My research activities involved the use of bioinformatic platforms, the analysis of biological protein-protein interaction networks and the experimental validation of candidates by ELISA.
Projects: COMBINE Multicellular Modelling
Institutions: Indiana University Bloomington

Disciplines: Modeller
Roles: Not specified
Expertise: Mathematical modelling, Data Management, Software Engineering, Python, standards, c++
Research Associate in the Macklin Lab, School of Informatics, Computing, and Engineering. Indiana University, Bloomington, IN USA.
Disciplines: Bioinformatician, Modeller
Roles: Not specified
Expertise: Systems Biology, Bioinformatics, Data integration, Dynamic modelling, Genomics, Mathematical modelling, parameter estimation
Tools: Computational Systems Biology, Python, Molecular biology techniques (RNA/DNA/Protein)
Projects: TID - Dynamics of tolerant potato-potato virus Y interaction
Institutions: National Institute of Biology

Disciplines: Modeller, Bioinformatician
Roles: Not specified
Expertise: Bioinformatics, Data integration, Data Management, Dynamic modelling, Systems Biology, Transcriptomics
Tools: Bioinformatics, Computational Systems Biology, Databases, Dynamic modelling, Microarray analysis, ODE, R
Projects: EmPowerPutida
Institutions: Wageningen University & Research
Disciplines: Not specified
Roles: PhD Student
Expertise: Metabolic Engineering, metabolism, metabolic networks, Biotechnology, Synthetic Biology, Systems Biology, Mathematical modelling
Tools: Flux balance analysis, COBRA toolbox, Matlab, Computational Systems Biology
I'm currently a PhD student in Laboratory of Systems and Synthetic Biology in Wageningen University & Research. My project involves using genome scale metabolic modelling to understand and improve chemical production capacities of microorganism.
Projects: EmPowerPutida
Institutions: LifeGlimmer GmbH
Disciplines: Bioinformatician
Roles: Not specified
Expertise: Bioinformatics, Systems Biology, Transcriptomics, R, Genomics, Proteomics, Data integration, Databases
Tools: Bioinformatics, Molecular Biology, Computational Systems Biology
Computational Biologist and App Designer @LifeGlimmer
Projects: HYp - Spatiotemporal analysis of hypersensitive response to Potato virus Y in potato, pISA-tree
Institutions: National Institute of Biology

Disciplines: Modeller, Bioinformatician, Admin
Roles: Project Coordinator
Expertise: Mathematical and statistical modeling, Bioinformatics, Visualization, Statistics, R, Programming, Computational Statistics
Tools: R, Statistical tools, Statistics, Data integration, Data Management, Computational Systems Biology
Projects: HUMET Startup
Institutions: Centro de Investigación Príncipe Felipe

Disciplines: Bioinformatician, Modeller
Roles: Not specified
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 high-throughput 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 mechanism-based
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Projects: FAIRDOM user meeting
Institutions: Peter MacCallum Cancer Centre
Disciplines: Bioinformatician
Roles: PhD Student
Expertise: Systems Biology, Transcriptomics, Genomics
Tools: Systems Biology, Transcriptomics, Computational Systems Biology, Bioinformatics, R
Projects: GenoSysFat, DigiSal, FAIRDOM user meeting, SEEK tutorial for DigiSal, Systems toxicology of Atlantic cod
Institutions: Norwegian University of Life Sciences

Disciplines: Modeller
Roles: Not specified
Expertise: Systems Biology, Mathematical and statistical modeling
Systems biology for salmon farming is what I do. I lead the DigiSal project (http://tinyurl.com/digisal), whose full title is "Towards the Digital Salmon: From a reactive to a pre-emptive research strategy in aquaculture". DigiSal is part of Digital Life, the first call dedicated to systems biology by the Research Council of Norway. I'm also one of the lead modellers in GenoSysFat (http://tinyurl.com/genosysfat), working to improve the omega-3 content of salmon farmed on sustainable feeds by
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Projects: FAIRDOM, Early Metabolic Injury (LiSyM-EMI - Pillar I), Chronic Liver Disease Progression (LiSyM-DP - Pillar II), Regeneration and Repair in Acute-on-Chronic Liver Failure (LiSyM-ACLF - Pillar III), LiSyM Core Infrastructure and Management (LiSyM-PD), Liver Function Diagnostics (LiSyM-LiFuDi - Pillar IV), Model Guided Pharmacotherapy In Chronic Liver Disease (LiSyM-MGP), Multi-Scale Models for Personalized Liver Function Tests (LiSyM-MM-PLF), The Hedgehog Signalling Pathway (LiSyM-JGMMS), Molecular Steatosis - Imaging & Modeling (LiSyM-MSIM), Kinetics on the move - Workshop 2016, Example use cases, FAIRDOM user meeting, MS_DILI, COMBINE Multicellular Modelling, FAIRDOM & LiSyM & de.NBI Data Structuring Training
Institutions: Heidelberg Institute for Theoretical Studies (HITS gGmbH)

Disciplines: Experimentalist, Bioinformatician, Admin
Roles: Not specified
Expertise: Data Management, Databases, Biochemistry, Bioinformatics, Systems Biology, Data integration, standards
Tools: Computational Systems Biology, Data Management, Databases, kinetic modeling, Ontologies, Workflows
Data management and standardization expert for systems biology and systems medicine, responsible for the data management user requirements and user contacts within the German LiSyM network (Liver Systems Medicine: http://lisym.org/) and associated to the FAIRDOM team.
Involved in different standardization initiatives and committees, i.e. COMBINE (http://co.mbine.org), ISO/TC 276 Biotechnology (https://www.iso.org/committee/4514241.html), European COST action CHARME (http://www.cost-charme.eu) and
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Projects: de.NBI-SysBio, GenoSysFat, Kinetics on the move - Workshop 2016, Example use cases, COMBINE Multicellular Modelling
Institutions: University of Rostock

Disciplines: Bioinformatician
Roles: Not specified
Expertise: Data Management, Databases, Data integration, standards, model management
Tools: Computational Systems Biology, Data Management, Databases, Neo4J, SBML, SED-ML, Ontologies
Reproducibility of results is fundamental to all sciences. In computational biology, standard formats like Systems Biology Markup Language (SBML), CellML, or NeuroML enable the exchange of simulation models, and foster interoperability between software tools importing and exporting these formats.
My main research interest is in developing methods and tools that (1) improve the reuse of computational models in biology, (2) ensure reproducibility of modeling results and (3) that lead to easier
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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, Individual-based 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: Imperial College London
Disciplines: Modeller
Roles: Not specified
Expertise: Systems Biology, dynamics and control of biological networks, stochastic modelling
Tools: Dynamic modelling, ODE, parameter estimation, Matlab, Stochastic models, Computational Systems Biology
I am a PhD student in the Theoretical Systems Biology group, based at Imperial College London.
The aim of my PhD is to understand how noise can be the driving force of decision-making processes (differentiation, self-renewal, apoptosis or tumorgenesis), and what are our chances to control them. So far I have been working on method development for stochastic models, a moment closure framework and a stochastic reachability method, to look into cell-to-cell-variability.
Projects: FAIRDOM, ICYSB 2015 - International Practical Course in Systems Biology, FAIRDOM user meeting
Institutions: University of Zürich, ETH Zurich, Manchester Centre for Integrative Systems Biology, University of Manchester
Disciplines: Bioinformatician
Roles: Not specified
Expertise: Bioinformatics, Proteomics, Genomics
Tools: Perl, Python, Matlab, Microarray analysis, Data Management, Computational Systems Biology
I hold a Medical Doctor Diploma (Lviv, Ukraine) with the specialization in General Medicine. After the graduation from the Post Graduate Program in Bioinformatics at the Seneca College/York University (Toronto, Canada), I successfully participated in the number of scientific projects conducted at the University of Toronto (Canada) and the Toronto East General Hospital (Canada).
I obtained the PhD in Bioinformatics at the Swiss Institute of Bioinformatics (Geneva, Switzerland). As a PhD student,
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Disciplines: Not specified
Roles: Not specified
Expertise: sensitivity analysis, Dynamic optimization., Systems Biology, Optimal experimental design, Mathematical modelling of biosystems and bioprocesses, dynamics and control of biological networks, parameter estimation
Tools: Dynamic modelling, Computational Systems Biology, Deterministic models, Stochastic models, parameter estimation, differential algebraic equations, Matlab, Partial differential equations, ODE
I am a postdoctoral researcher in the group of Julio Banga. My research is focused on computational systems biology with particular attention to the mathematical modelling of biosystems and bioprocesses. Some of the topics we address are:
- Parameter estimation
- Model identifiability
- Global sensitivity analysis
- Optimal experimental design
- Dynamic optimization
- Robust control of diffusion-reaction systems
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: COSMIC, BaCell-SysMO
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: BaCell-SysMO
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: fed-batch 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: PSYSMO, MOSES, COSMIC, BaCell-SysMO
Institutions: University of Stuttgart
Disciplines: Not specified
Roles: Not specified
Expertise: Regulatory Networks, Mathematical modeling, Systems Biology, dynamics and control of biological networks, Reactor models, rapid sampling experiments
Tools: fed-batch cultivation, In silico Metabolic Network Analysis, Dynamic modelling, including:- Dynamic modelling- Parameter estimation- Optimal experimental design- Dynamic optimization, Computational Systems Biology, evaluation of process dynamics, continuous cultivation, stimulus response experiments, Fermentation
Professor for Biochemcial Engineering, University Stuttgart
Projects: SulfoSys, SulfoSys - Biotec
Institutions: University of Sheffield
Disciplines: Experimentalist, Bioinformatician
Roles: Not specified
Expertise: biochemical, bioreactor models, Proteomics, Bioinformatics
Tools: shotgun proteomics, Proteomics (Glycoproteins), Computational Systems Biology, Proteomics (2D-PAGE), Protein chemical methods (protein overproduction, Biochemistry and protein analysis
I am the foundation Professor of Systems Biology and Engineering within the Department of Chemical and Process Engineering (CPE), at The University of Sheffield. My research philosophy is centred on a mechanistic systems biology approach to solve biochemical reaction engineered processes. I wish to pursue issues involved in the effective utilisation of biological resources. The approach is specifically targeted at the conjunction of chemical engineering (metabolic engineering and synthetic biology),
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Projects: PSYSMO, DigiSal, GenoSysFat, HUMET Startup, EmPowerPutida, MycoSynVac - Engineering Mycoplasma pneumoniae as a broad-spectrum animal vaccine, SAFE-Aqua
Institutions: Helmholtz Centre for Infection Research Braunscheig, Wageningen University & Research
Disciplines: Not specified
Roles: Project Coordinator
Expertise: Biotechnology, Systems Biology, Optimal experimental design, Mathematical modelling of biosystems and bioprocesses, Microbiology
Tools: reverse engineering, computational platform development, metabolic netwlrk visualization, microbiology techniques, Metabolic Engineering, Computational Systems Biology, Microarray analysis, Fermentation, Proteomics, Genetic modification, Bioinformatics
My research activities has been to use mathematical models and Computational Biology to answer biological questions, intertwining in silico and experimental methods at all stages. I have a strong interest in exploring the interfaces between Fundamental Biology and bona fide Engineering, specifically in the realm of environmental and industrial problems. The research goals of my group are to contribute to the elucidation of mechanisms underlying basic cellular processes, evolution and ecological
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Projects: SysMO-LAB
Institutions: University of Heidelberg
Disciplines: Modeller
Roles: Not specified
Expertise: Mathematical modeling, Streptococcus pyogenes, Bioinformatics
Tools: SYCAMORE, SABIO-RK http://sabio.villa-bosch.de/, Dynamic modelling, Computational Systems Biology, Matlab, Mathematica, Copasi, JWS Online, SBML, ODE
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
Institutions: Heidelberg Institute for Theoretical Studies (HITS gGmbH)
Disciplines: Modeller
Roles: Postdoc
Expertise: computational structural biology, X-ray crystallography Structural biology, Cheminformatics
Tools: Computational Systems Biology, parameter estimation, Computational and theoretical biology
Projects: STREAM, SilicoTryp
Institutions: University of Groningen
Disciplines: Modeller
Roles: Project Coordinator
Expertise: Systems Biology, Metabolomics, Transcriptomics
Tools: constraint-based modeling, Computational Systems Biology, Bioinformatics
I am currently Professor of Systems Biology at the University of Manchester. My research interests focus on the development of innovative computational approaches for post-genomic systems biology, statistical methods for high-throughput biological experimentation and the dynamic modelling of cellular systems. This work is highly interdisciplinary and usually involves close collaboration with experimental biologists and clinicians. A recurrently theme is the study of complex cellular networks at
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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. model-based 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