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SysMO6 HUMET1 Model repository for M4 (Make Me My Model) clients of ISBE1 Disease Maps1

BaCell-SysMO4 COSMIC1 Noisy-Strep1 HUMET Startup1 EraCoBiotech 2 nd call proposal preparation1 COVID-19 Disease Map1

University of Groningen4 University of Erlangen-Nuernberg1 University of Nottingham1 geneXplain GmbH1

Netherlands4 Germany2 United Kingdom1

gene regulation9 Molecular Biology134 Systems Biology100 Bioinformatics95 Microbiology83 Biochemistry70 Data Integration64 Mathematical modelling61 Curation58 Data Management55 Transcriptomics43 Genetics39 Computational Systems Biology35 Databases34 Data analysis33 Genomics31 Proteomics29 Metabolic Engineering29 Modeling26 Parameter estimation25 Cell biology24 Modelling24 Metabolomics23 Dynamic modelling23 Molecular microbiology22 Dynamics and Control of Biological Networks21 Software Engineering18 Python18 Bacillus subtilis16 Programming15 Biotechnology15 standards15 R14 Synthetic Biology12 Metabolic Networks12 Computational Biology12 carbon metabolism11 Network Analysis11 Fermentation10 Microarray analysis10 Mathematical and statistical modeling10 protein-protein interactions10 SBML9 Cell physiology9 Image analysis9 dynamics of biological networks8 functional protein expression8 Machine Learning8 Agent-based modelling7 Java7 Escherichia coli7 Mathematics7 stress responses7 regulation of gene expression7 Bacterial Cell Biology7 Kinetic modelling7 Immunology7 metabolism7 Knowledge Management7 Regulatory Networks6 Data analysisMathematical modellingBioinformaticsSystems biology6 Cancer research6 Ecotoxicology6 Single Cell analysis5 dynamics of biological networks.5 Physics5 Mathematical modelling of biosystems and bioprocesses5 Signalling networks5 Stoichiometric modelling5 enzyme kinetics5 computational structural biology5 biocatalysis5 Deep Learning5 Ontology5 Project Management5 Streptococcus pyogenes4 Deterministic modelling of gene regulation networks4 protein secretion4 membrane biology4 Comparative Genomics4 Nonlinear Dynamics4 Statistical Physics4 Mathematical modelling of biological systems4 Anaerobic Microbiology4 Biophysics4 microscopy4 Clostridium4 carbon catabolite regulation in Gram positive bacteria4 Protein-DNA-interaction4 genome-scale modeling4 molecular modeling4 metagenomics4 Glycolysis4 Metabolic Models4 Liver4 quantative biology4 Lipids4 Visualization4 Plant biology4 photobiology4 plant biotechnology4 Text Mining4 Kinetics4 Pathway Analysis4 Saccharomyces cerevisiae3 Information Retrieval3 Reactor models3 coupling metabolome and environome3 rapid sampling experiments3 bioreactor models3 translational control of gene expression3 phenotypic heterogeneity3 bistability3 metal ion homeostasis3 Escherichia coli Membrane protein Biochemistry3 Optimal experimental design3 sensitivity analysis3 Dynamic optimization.3 Mathematical modeling3 Mass spectrometry (LC-MS/MS)3 Time Series Analysis3 Microbiology Biochemistry Molecular biology Genetics Enzymology Synthetic biology Regulatory metabolic networks3 Mathematical modelling; Nonlinear Dynamics; Time Series Analysis; network theory3 Escherichia coli physiology3 bacterial metabolism3 bacterial gene regulation3 Bacterial metabolism | Metabolic engineering3 Metabolic Pathway Analysis and Engineering Microbial Physiology Modeling of Biological Networks Industrial Systems Biotechnology White Biotechnology Strain and Process Optimization with bacteria3 Microarray experiments with prokaryotes3 genetic engineering3 Thermodynamics3 SBGN3 Computational modelling3 semantics3 Image processing3 Organic Synthesis3 in vitro & ex vivo cell culture3 Epigenetics3 Scientific Computing3 microbiomics3 SBGN standard3 Automation3 Systems Biology Graphical Notation3 Metabolic Control Analaysis3 Nutrition3 mouse studies3 Network Visualization3 Analytical chemistry3 Liver Zonation3 Toxicology3 arabidopsis thaliana3 circadian rhythms3 Neuroscience3 AI3 antibiotic resistance3 Biocuration3 Data mining3 Knowledge integration3 Constraint-based Modelling3 Mechanistic Modelling3 Distributed Systems3 Computer Science3 Cheminformatics2 Virology2 Sulfolobus solfataricus2 Statistically and biologically inspired optimization algorithms2 Gram positive bacteria (Bacillus2 Lactococcus2 sporulation2 pathogens2 Signal transduction in Gram-negative bacteria; Synthetic Microbiology; Single cell gene expression; Regulatory networks; biochemistry; histidine kinase/response regulator systems2 Phylogenetics2 pH dependent dynamic shift experiments of continuous cultures2 Clostridial Genetics2 protein-RNA interactions2 Fluxomics2 localisation studies2 E. coli2 Cellular biology of metals2 HPLC2 Microbiology/ Protein chemistry/ Molecular biology2 bacterial physiology2 X-ray crystallography Structural biology2 Streptomyces2 Carbohydrate Metabolism of Archaea2 Reconstruction of metabolic pathways2 chemical engineering2 Fish2 Biology2 molecular simulation2 Medical microbiology2 Streptococcus pneumoniae2 Food Microbiology2 network inference2 yeast2 enzymes2 Methode Development2 ODE modelling of biological interaction network2 c++2 High-throughput data analysis2 diabetes2 Identifiability2 Cell Cycle2 Genetic interaction2 Bioleaching2 Biomedical Engineering2 metabolic systems biology2 High Performance Computing2 Statistics2 marine2 fungi2 Next Generation Sequencing2 Microbial Genomics2 molecular genetic systems2 RNA-Seq2 Cancer2 Stem cell2 DNA repair2 Systems Medicine2 nuclear receptors2 human energy metabolism2 signal transduction2 Innate immunity2 chronobiology2 Graphical Editors2 Data curation2 Medical informatics2 PBPK modeling2 Pharmacology2 Pharmacokinetics2 Natural Products2 Simulation2 plant metabolism2 secondary metabolites2 Metabolic modelling2 plant pathways2 alternative splicing2 enzyme technology2 transcriptional regulation2 exposure studies2 genome engineering2 Environmental toxicology2 Biorefinery2 Enzymatic reactions2 Provenance2 regenerative medicine2 GMP2 biochemical enzyme characterization2 outreach2 Mycoremediation2 clinical chemistry2 Diatoms2 Phaeodactylum tricornutum2 Visualisation2 Network biology2 Editorial Committee2 Publication platform2 Curation of molecular interactions2 Disease Maps2 Physical Chemistry2 Pathway Curation2 Data Quality2 Multicellular Modelling2 Knowledge representation and reasoning2 Public Health2 Perl1 Chip-chip1 Enterococcus faecalis1 Streptomyces coelicolor1 Data analysis Mathematical modelling Bioinformatics Systems biology1 translatome1 folding pathways1 Streptococcus)1 competence1 germination1 antimicrobial peptides1 C- and N- metabolism1 virulence factors1 protein-lipid interactions1 physicochemical properties of membranes1 Recombineering1 Phylogentics1 Database and data warehouse design1 High-throughput sequence analysis1 Pathogenesis1 Bacterial metabolism | Metabolic engineering | Quorum sensing (bacterial cell-cell communication) | Developmental processes in prokaryotes |1 Mycoplasma pneumoniae1 Mathemical Modeling (in particular: Thermodynamic-Kinetic Modeling)1 model reduction1 reduced-order modeling1 fluorescence protein fusions (transcriptional and translational)1 Microarray Data Analysis1 Microbiology Biochemistry Molecular biology Genetics Regulatory networks Bacterial Cell Biology1 fluorescence protein fusions1 Genetics)1 computational economics. Biology: molecular biology1 tissue biology1 social insects.1 staphylococcus aureus1 stress responses Structural biology1 Salmonella1 Chemostats1 Flux analysis Bioenergetics of growth1 Modelling of genetic and signalling networks1 biomechanics1 homogenisation.1 RNA1 Microarray printing1 Database design1 Microbiology/Anaerobic Bacteria/Clostridia Molecular Physiology Stress responses1 stress adaptation of Gram-positiv bacteria1 application of functional genomics technologies in microbiology1 interaction analyses of transcriptional regulators1 analysis and preparation of diagnostic markers for Helicobacter pylori infections Yersiniosis and collagenoses1 Microbiology/ Protein chemistry/ Molecular Biology1 expression systems for pro- and eukayotes1 screening systems for nuclear transport and alternative splicing1 inducible mammalian cell death.1 Software Architecture1 biochemical1 Pseudomonas1 Prokaryotic genetics1 Regulation of carbohydrate metabolism1 Genome based Taxonomy1 Culture Collection1 Extremophiles1 reverse engineering1 protein interactions1 Molecular Interactions1 biophysical chemistry1 genetics of archaea1 cultivation of extremophiles1 REST1 Ma1 Limit cycle oscillations1 mRNA1 overflow metabolism in Bacillus1 Genetic regulation1 protein purification1 Listeria monocytogenes1 gene expression1 motif detection1 Trypanosoma brucei1 Streptococcus pneumoniae Molecular microbiology, Bacterial Cell Biology, Genetics1 in vivo1 model management1 linked data1 Carbohydrate Metabolism of Archaea carbon metabolism, Biochemistry1 enzyme classification1 Downstream Processing1 Automatization1 NK Cells1 Excemplify1 technology transfer1 quality control1 stochastic modelling1 Epigenomics1 Biomolecular Computing1 NGS analysis1 insulin signaling1 adiponectin1 Model selection1 Cellular Senescence1 Dynamic Systems1 Gastric cancer1 EGFR signalling1 apoptosis1 Phenome1 Prostate Cancer1 Bone Biomechanics1 in vivo animal models1 Solanum tuberosum1 sequencing1 VREs1 Cloud computing1 Phytopathology1 de novo genome assembly1 genome annotation1 computational genomics1 gene networks1 Biofilms1 (Bio)Process Design1 evolution1 protein structure1 chemoinformatics1 drug design1 Calcium signalling1 learning1 memory1 cooperativity1 Corynebacterium glutamicum1 optimization1 chromatin1 nuclear organisation1 Human-Computer Interaction1 Hepatology1 Non-alcoholic fatty liver disease1 energy expenditure1 type 2 diabetes1 human translational research1 energy turnover1 muscle1 promoters and anhancers1 drug targets1 experiments1 lipdomics1 lipidomics1 Gut microbiota1 Akkermansia muciniphila1 Obesity1 Endocannabinoid system1 Cell specific KO1 Prebiotics1 Probiotics1 Insulin resistance1 Inflammation1 Skeletal muscle physiology and metabolism1 Integrative Human Phsyoiology and Metabolism1 Confocal Immunofluoresence Microscopy visualising Muscle Metabolism1 Endothelial arteriolar and capillary metabolism1 Substrate fluxes across organs measured with stable Isotope Tracers1 Generating in vivo human data to feed metabolic models1 Interface between physiologists and modellers1 neuroanatomy1 endocrinology1 pathology of type 2 diabetes and cardiovascualr disease1 metabolic homeostasis1 Molecular neurobiologist1 single cell transcriptomics1 viral vectors1 neurobiology of energy balance1 Computational Statistics1 nitrogen metabolism1 Actinobacteria1 antibiotic production1 Hedgehog Pathway1 Wnt Pathways1 morhogenic signalling1 plant1 Astronomy1 MAP-kinase1 Bioreactor cultivation1 Liver injury and regeneration1 Metabolim1 pathogen host interaction1 sediment ecology1 Flowcytometery1 Cyanobacteria1 Dinoflagellates1 terpenes1 aromatic compounds1 protein expression1 Agile development1 Docker1 caenorhabditis elegans1 splicing1 plant architecture1 leaf development1 NeuroML1 Chemistry1 computational chemistry1 Compucell3D1 gene clusters1 Biochemical analysis1 protein extraction1 ELISA1 Immunoblots1 Immunoassays1 oral food challenge1 food allergy1 peanut and treenut allergy1 recombinant protein production1 Epidemiology1 Structural biology by NMR1 Carbohydrate modifying proteins1 protein NMR1 lytic polysaccharide monooxygenases1 Metabolic Signaling1 immune signaling1 ex vivo1 genome mining1 Alga1 Organic residues1 Protein and Enzyme structure and mechanism1 Thermophilic proteins in industrial biocatalysis1 plant growth1 Mathematical Economics1 Game Theory1 Ligninolytic enzymes1 Biorremediation1 Ligninolytic fungi1 bio-mineralization1 geochemistry1 process engineering1 process design1 reaction engineering1 Semantic Enrichment1 Health Informatics1 reprogramming1 electrophysiology1 GLP1 Catalysed chemical modification of monomeric1 oligomeric & polymer compounds1 reaction monitoring1 analytical characterisation by 1HNMR1 13C-NMR1 2D-NMR(HSQC)1 31P-NMR1 SEC1 EA (CHONS)1 FT-IR etc.1 Depolymerisation techniques in high pressure plug flow reactors and batch reactors1 biological wastewater treatment1 Sulfolobus acidocaldarius1 expression systems1 cloning and expression analysis1 Archaeal physiology1 Hyperthermophiles1 Thermoacidohiles1 NanoLUC1 LUC1 Pathways1 industrial biotechnology1 plant molecular physiological ecology1 phylogenomics1 scientific workflows1 neglected tropical diseases1 medical diagnostics1 healthcare1 biomarkers1 Enzyme Discovery1 HT-Cloning1 Enzyme Production1 Assay Development1 Micobiology1 sepsis1 protease inhibitors1 Gene editiing1 CRISPR/Cas91 fatty acid1 COVID-191 Biological knowledge managament1 ODE modeling1 Human physiology1 Immersive Analytics1 Literature mining1 Molecular Maps1 Complex human disease1 Boolean Models1 Executable disease networks1 Medicine1 Drug Curation1 Dissemination1 Funding1 Integration1 General support1 Simulation of protein-protein interactions1 Knowledge modelling1 Quantitative Biology1 Validation1 Analysis1 Data Modelling1 Reaction Networks1 Rule-based Models1 Tracer Kinetics1 Collective Behaviour1 pest management1 semiochemicals1 pheromones1 chemical ecology1 plant protection1 Cohort Studies1 materials science1 interoperability1 ETL1 DataScience1 Clinical Information System1 scholarly communications1 discourse analysis1 Cancer Biology1 multi-omics1 Dynamic qualitative modelling1 SARS-CoV 21 Democracy Theory1 Science and Technology Studies1 Practice Theory1 Actor-Network Theory1 rare diseases1 GCP1 Genome-scale Metabolic Models1 Computer-aided drug design1 drought1 plant ecophysiology1 quantitative genetics1 models1 phenotyping1 Table Curation1 N-terminomics1 TAILS1 degradomics1 proteases1 protease substrate discovery1 MALT1 paracaspase in NFkB activtaion1 Interferon inactivation by proteases1 viral proteases1 catalysis1 Physiological-based pharmacokinetics model1 Bayesian statistics1 Uncertainty quantification1 structural biology1 parassite research1 drug development1 drug resistance1 antibacterial drugs1 neurodegenerative diseases1 metalloproteins1 protein production1 Plant sciences1 Biological Simulation1 Virtual Tissues1 Model Sharing1 Language Standards1 Developmental Biology1 Framework Development1 Community Building1 Chemical synthesis1 crude oil1 Fisheries1 Freshwater1 Ecosystem services1 Reservoir1 pharmaceutical1 life sciences1 Artificial Intelligence1 Economics1 Information Technologies1 Working with rating agencies1 Wastewater microbiology1 Environmental microbiology1 More...

gene regulation8