People with the role 'Member'
By training I am a molecular microbiologist with a particular interest in bacterial stress adaptation reactions. Since the early 90ies we have used functional genomics technologies, particularly proteomics, to investigate the response of Bacillus subtilis to environmental challenges.
I am currently Head of the Functional Genomics Department of the Interfaculty Institute of Genetics and Functional Genomics at the Ernst-Moritz-Arndt-University Greifswald. Within the Department we are applying
I am assistant professor at the Laboratory of Microbiology and my interest is in the area of molecular microbiology. Research focuses on the analysis of the metabolism of anaerobic fermentative bacteria and archaea, especially with respect to biofuel production (hydrogen, butanol). Within SysMo our tasks concern the effect of butanol stress, using metabolomics and transcriptomics.
Professor in biotechnology at the Dept. Chemistry, Biotechnology and Food Science. I am heading "Laboratory of microbial gene technology and food microbiology" that consists of approximately 20 members (staff members, technicians,and students). During the last 20 years my research has been focused on lactica acid bacteria with a focus on bacteriocins of lactic acid bacteria.These studies have included purification and chemical and genetic characterization of such peptides followed by biosynthesis
Martijn Bekker (1979) was born in Amstelveen (The Netherlands). He started his studies in biology in 1997 at the University of Amsterdam, and graduated in 2003 with specializations in molecular microbiology and in immunology. The internships during his undergraduate studies were carried out in the labs of Prof. dr. B. Oudega (VU, Amsterdam, The Netherlands) and Prof. dr. F. Heffron (OHSU, Portland, Oregon, USA).
He continued with his graduate studies in 2003 in the Laboratory for Molecular Microbial
I'm a biologist working in the field of scientific datases as a biocurator.
I've become a SysMO DB PAL for MOSES project in 2007 being a post-doc in lab of Prof. Matthias Reuss at University of Stuttgart. In the MOSES project, our major efforts were in the experimental data acquisition for dynamic model of primary carbon and anaerobic energy metabolism in yeast. The model implements prediction of perturbations of two types: glucose pulse and temperature jump. We implement “stimulus-response” methodology for the unraveling the dynamic structure of the network and to
Institutions: University of Applied Sciences Koblenz, Rhein Ahr Campus
I am working in the mathematical modeling of potassium homeostasis. In addition, we are developing tools and methods for the statistical analysis of biological data.
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
I obtained my PhD in 1989 at the Free University (Amsterdam) on a research project in which microbial physiology, biochemistry, and molecular biology were combined. Subsequently I spent 3 years abroad, 2.5 years of which as EMBO fellow at the EMBL (Heidelberg, Germany) where I worked on protein engineering and protein crystallization. I returned to Amsterdam as KNAW fellow for 3 years, during which I worked on protein analysis and pathway engineering. In 1995 I was appointed as group leader
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),
Software Engineer and Architect working within the FAIRDOM team.
Leading the development of SEEK and RightField.
Projects: SysMO DB, FAIRDOM, ICYSB 2015 - International Practical Course in Systems Biology, ZucAt, SysMO-LAB, Kinetics on the move - Workshop 2016, Example use cases, FAIRDOM user meeting, ErasysApp Funders, Glycon proposal preparation, Service to URV Tarragona, Spain with respect to their Safety Assessment of Endocrine Disrupting Chemicals model (Active NOW)
I am a researcher at the Scientific Databases and Visualization Group at Heidelberg Institute for Theoretical Studies (HITS) , one of the developers of SabioRK - System for the Analysis of Biochemical Pathways - Reaction Kinetics (http://sabiork.h-its.org/) . I am working on design and maintenance of the information systems to store, query and analyse systems biology data; definition and implementation of methods for the integration of data from multiple sources. In SySMO-DB project
I'm interested in the application and development of methods of systems theory in biology (systems biology). In particulary I work on the following topics:
Thermodynamic constraints on biochemical network; Model reduction; Modeling and Analysis of metabolic regulation.
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 SysMO-DB pals for SUMO.
Projects: SulfoSys, FAIRDOM user meeting, Service to Milano-Bicocca with respect to their ATP-ROS model (Active NOW), Delete, Service to University of Lisbon (Portugal) with respect to their CFTR maturation model (Active NOW), Service to LCSB (Luxembourg) with respect to ROS management in Parkinson’s disease and cancer model (Active NOW), Service to URV Tarragona, Spain with respect to their Safety Assessment of Endocrine Disrupting Chemicals model (Active NOW), Service to Universidade Católica Portugues with respect to their Molecular Insight into Autism Spectrum Disorder (ASD) model (Active NOW), Service to Slovenia with respect to their Protease signaling network in neurodegeneration model (Active NOW), Service to University of Duisburg- Essen (Germany): with respect to their The Yin-Yang of Metabolism; Endometatoxicity (YYME) model (Active NOW), Service to Sheffield University (UK): with respect to Mitochondrial perfect adaptation model (Active NOW), Service to Sanquin (Amsterdam): with respect to Modelling of acute and chronic inflammation (Prospective), Service to Munich (Germany): with respect toCharged peptide to charged membrane binding model (Prospective), Training Hunfeld, Glycon proposal preparation
Executive director of ISBE.NL
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.
I am an Associate Professor in Systems Biology and the University Medical Centre Groningen. My research aims at understanding how energy metabolism is integrated and regulated. My work includes experimental, modelling as well as theoretical research. Recently I studied how metabolic regulation and gene-expression regulation work together towards in integrated response, e.g. when parasites are confronted with chemical inhibitors. Much of my work has been about the regulation of glycolysis and its
With a background in the statistical mechanics of disordered systems, my research
focusses on the interface between statistical physics and molecular biology. At the centre is the relationship
between fluctuations and noise in biological systems, the corresponding statistical ensembles, and biological
function. This connection emerges at very different levels and timescales, from stochastic modeling of
gene expression to the population dynamics of regulatory DNA.
Started out in the field of environmental analytical chemistry and after a few years working in that field, switched to process analysis and chemometrics. Next during my PhD work I came into Life Sciences doing data analysis on microbial batch fermentations (Escherichia coli). During my PhD work my main task was to integrate prior knowledge into data analysis, so called grey modeling. Now my focus lies on white models (based on ordinary differential equations), more specifically building a detailed
Within the de.NBI project my functions in the NBI-SysBio node comprise content curation, requirements elicitation, and community engagement for the users of biochemical reaction kinetics database SABIO-RK as well as of the data management platform SEEK.
Software developer for FAIRDOM
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
Interested in systems + synthetic biology, biotechnology, mountaineering, swimming, running, and the occasional cup of tea. Once diagnosed as an ENFP.
My group investigates dynamic regulation and control mechanisms of cellular signal transduction networks by a combination of theoretical, experimental and computational methods. We seek to make sense of our biological data with the help of mathematical models, which ideally enable us to make valid predictions for new experiments, thereby generating novel biological insights.
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,
I am staff scientist in the lab of molecular-genetic systems at the Department of Systems Biology, Institute of Cytology and Genetics SB RAS and Postdoc Research Fellow at San Diego State University.
My research focus is dynamical modeling of gene network functioining.
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
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
Professor of Systems Medicine/Biology at the Academic Medical Center, Amsterdam and University Medical Center Groningen, Groningen, The Netherlands
My major projects focus on understanding the etiology of metabolic syndrome and its comorbidities type2 diabetes and cardiovascular disease. To get grip on the sequence of events in disease progression we make use of longitidunal models and apply multiscal systems biology approaches.
My published work can be found at:
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
Alexander Kel received his Ph.D. in Bioinformatics, Molecular Biology and Genetics in 1990. He studied biology and mathematics at Novosibirsk State University and obtained his M.S. in biology with special focus on mathematical biology in 1985. He worked for 15 years at the Institute of Cytology and Genetics, Russia (ICG) holding positions as a programmer, scientist, senior scientist and Vice-Head of the Laboratory of Theoretical Molecular Genetics. In 1995, he won the Academician Belaev Award.
Assistant professor at Wageningen University & Research
I am the Data and Model Manager for the Digital Salmon and the GenoSysFat projects. We are building a knowledge base of salmon physiology in the form of mathematical models interlinked with omics data, for applications in aquaculture, ecology and management. My duties entail managing and standardizing the data formats, protocols, and annotations generated related to these data; serving as our point of contact with the FAIRDOM initiative for findable, accessible, interoperable and reusable data,