Models

Arabidopsis6 Clock5 Morpheus5 ODE5 Clostridium acetobutylicum4 genome-scale metabolic reconstruction4 pH4 SBML4 annotation3 Flowering3 pH-induced metabolic shift3 Systems Biology3 aromatic compounds2 CellDesigner2 FBA2 Glycolysis2 Matlab2 Metabolic Engineering2 P20112 phosphate-limited continuous culture2 plant growth2 R script2 scSYnO2 arabidopsis thaliana1 Binding energy1 Bioinformatics1 BioNLP1 bustools1 butanol producing strain e.coli1 butanol production1 carbon partitioning1 circadian rhythms1 Class Imbalance1 Clocks1 coil1 continuous culture1 Copasi1 COVID-191 development1 dynamic FBA1 dynamic model1 dynamics1 e.coli with beta oxidation1 Flavonoid1 gene expression1 genome scale1 Glycolytic oscillation1 GPML1 GRID1 GSM1 heat1 Innate immunity and proinflammatory response1 innitial values1 kallisto1 Kinetic modelling1 l-fucose1 Mathematical modeling1 metabolic shift1 metabolism1 metabolites1 Metabolomics1 metano1 MIRIAM1 modifiers1 Molecular Dynamics1 Multi-cellular model1 multi-compartment model1 optical density1 organogenesis1 PAMPs1 Pathways1 pH-shift1 phosphate ion1 phosphate limitation1 photoperiod1 photosynthesis1 Phytochrome1 plasmodium1 population dynamics1 population growth1 Protein degradation1 Proteomics1 Pseudomonas putida1 quenching1 quorum sensing1 R1 RobOKoD redesigned1 Saccharomyces cerevisiae1 SARS-CoV-21 SBO1 scRNA-Seq1 sporulation1 spread in population1 steady state1 stoichiometric model1 Streptomyces coelicolor1 sucrose1 sugar1 Sulfolobus solfataricus1 Systomodel1 temperature1 Ubiquitination1 unix1 wikipathways1 World model1 More...

BioData SynthSys117 Jacky Snoep47 Dawie van Niekerk46 Uriel Urquiza-Garcia28 Marek Ostaszewski27 Franco du Preez17 Andrew Millar12 Ulf Liebal10 Alexey Kolodkin8 Hans V. Westerhoff6 Christoff Odendaal6 Vincent Wagner6 Anna Feldman-Salit5 Markus Wolfien5 Lutz Brusch5 James Wordsworth5 Thomas Millat4 Henning Lindhorst4 Cheewin Kittikunapong4 Jennifer Levering3 Nadine Veith3 Fiona Achcar3 Eduard Kerkhoven3 Daniel Seaton3 Niels Zondervan3 Xiaokang Zhang3 Sebastian Höpfl3 Mark Musters2 Maksim Zakhartsev2 Sebastian Henkel2 David Knies2 Natalie Stanford2 Hannah O'Keefe2 Julia Koblitz2 Peter Ruoff1 Sara Jabbari1 Jay Moore1 Michael Ederer1 Afsaneh Maleki-Dizaji1 Sebastian Curth1 Malgorzata Adamczyk1 domenico bellomo1 Jurgen Haanstra1 Hao Bai1 Guido Sanguinetti1 Botond Cseke1 Ettore Murabito1 Ron Henkel1 Helge Stark1 Jacqueline Wolf1 Jon Olav Vik1 Martin Golebiewski1 Frank Bergmann1 Matthias König1 Snorre Sulheim1 Robert Muetzelfeldt1 Chloe Spalding1 Saptarshi Bej1 Hannah Kinmonth-Schultz1 Ghadeer Mobasher1 Viviane Klingel1 David San León Granado1 Maria Krantz1 Jana Musilova1 More...

PlaSMo model repository117 Millar group43 Whole body modelling of glucose metabolism in malaria patients34 COVID-19 Disease Map28 Computational pathway design for biotechnological applications22 SysMO-LAB20 SysMO DB17 SulfoSys15 Molecular Systems Biology11 BaCell-SysMO10 SulfoSys - Biotec10 Working Group Nicole Radde10 SUMO9 MOSES8 COSMIC7 PoLiMeR - Polymers in the Liver: Metabolism and Regulation7 SilicoTryp6 iRhythmics6 ROS detailed model for MSB manucript6 SynBio4Flav6 Early Metabolic Injury (LiSyM-EMI - Pillar I)5 Selective Destruction in Ageing5 ROBUSTYEAST4 Steroid biosynthesis4 Systems toxicology of Atlantic cod3 MycoSynVac - Engineering Mycoplasma pneumoniae as a broad-spectrum animal vaccine3 Manchester Institute for Biotechnology2 Service to Milano-Bicocca with respect to their ATP-ROS model (Active NOW)2 Service to LCSB (Luxembourg) with respect to ROS management in Parkinson’s disease and cancer model (Active NOW)2 COMBINE Multicellular Modelling2 TiMet2 Yeast glycolytic oscillations2 SCyCode The Autotrophy-Heterotrophy Switch in Cyanobacteria: Coherent Decision-Making at Multiple Regulatory Layers2 EbN1 Systems Biology2 SteaPKMod2 TRANSLUCENT1 STREAM1 ICYSB 2015 - International Practical Course in Systems Biology1 de.NBI-SysBio1 ZucAt1 DigiSal1 Multi-Scale Models for Personalized Liver Function Tests (LiSyM-MM-PLF)1 Kinetics on the move - Workshop 20161 INBioPharm1 Systo models1 EraCoBiotech 2 nd call proposal preparation1 Mathematical modelling of the antibiotic-induced morphological transition of Pseudomonas aeruginosa1 Regulation of flowering time in natural conditions1 Outreach - Simulation of breast cancer development using an agent based modelling approach1 Outreach - Simulation of cellular senescence using an agent based modelling approach1 Mechanism based modeling viral disease ( COVID-19 ) dynamics in human population1 ERNEST Mapping Group Pilot Study1 Aneurinibacillus thermoaerophilus CCM 8960 metabolic pathways model1 More...

Centre for Engineering Biology (prev. SynthSys)161 SysMO93 SARCHI: Mechanistic modelling of health and epidemiology62 Disease Maps28 Independent Projects20 de.NBI Systems Biology Service Center (de.NBI-SysBio)13 Journals11 e:Bio10 Model repository for M4 (Make Me My Model) clients of ISBE9 LiSyM - Systems Medicine of the Liver6 Systems Biology Programme6 ERASysAPP4 dCod 1.0: decoding systems toxicology of cod3 COMBINE (Computational Modeling in Biology Network)2 DFG founded projects2 Experimental Transplantation Surgery2 The Digital Salmon1 Mathematical modelling of the morphological transition of Pseudomonas aeruginosa1 Newcastle University Systems Modelling of Ageing1 Breast Cancer Simulation1 ERNEST - European Research Network on Signal Transduction1 Aneurinibacillus thermoaerophilus CCM 8960 metabolic pathways model1 More...

BioData SynthSys117 Jacky Snoep103 Andrew Millar74 Dawie van Niekerk47 Uriel Urquiza-Garcia34 Hans V. Westerhoff14 Franco du Preez11 Ulf Liebal10 Sara Jabbari9 Alexey Kolodkin9 Barbara Bakker7 Raju Prasad Sharma7 Anna Feldman-Salit6 Yin Hoon Chew6 Christoff Odendaal6 Vincent Wagner6 Sylvia Haus5 Fiona Achcar5 Lutz Brusch5 Daniel Seaton5 James Wordsworth5 Thomas Millat4 Jennifer Levering4 Eduard Kerkhoven4 Markus Wolfien4 Henning Lindhorst4 Terry G.J. Derks4 Cheewin Kittikunapong4 Anna Niarakis4 Emmalie Jager4 John King3 Mark Musters3 Maksim Zakhartsev3 Nadine Veith3 Inge Jonassen3 Fekadu Yadetie3 Anders Goksøyr3 Niels Zondervan3 Xiaokang Zhang3 Shirin Fallahi3 Marta Eide3 Hannah O'Keefe3 Eileen Marie Hanna3 Julia Somers3 Sebastian Höpfl3 Dietmar Schomburg2 Sebastian Henkel2 Malgorzata Adamczyk2 Guido Sanguinetti2 Samantha Nolan2 Natalie Stanford2 Helge Stark2 Saptarshi Bej2 Alina Renz2 Andreas Dräger2 Francesco Messina2 Vidisha Singh2 Sara Sadat AGHAMIRI2 Corinna Montrone2 Gisela Fobo2 Gökçe Yağmur Summak2 Ebru Kocakaya2 Julia Koblitz2 Olaf Wolkenhauer1 Bas Teusink1 Ingolf Nes1 Jeroen Hugenholtz1 Rebecca Wade1 Ursula Kummer1 Vitor Martins dos Santos1 Peter Ruoff1 Paul Heusden1 David Hodgson1 Rainer Breitling1 Olga Krebs1 John Heap1 Jay Moore1 Michael Ederer1 Helge Holo1 Afsaneh Maleki-Dizaji1 Sebastian Curth1 Stefan Henrich1 Mike Barrett1 Alejandro Leroux1 domenico bellomo1 Fei He1 Graeme Thorn1 Jurgen Haanstra1 David Knies1 Hao Bai1 Botond Cseke1 Koen van Grinsven1 Margrete Solheim1 Ettore Murabito1 Ron Henkel1 Jacqueline Wolf1 Steffen Waldherr1 Jon Olav Vik1 Arne Gjuvsland1 Dagmar Waltemath1 Yuriy Orlov1 Ilya Akberdin1 Irina Medvedeva1 Sandve Simen1 Frank Bergmann1 Fabian Grammes1 Alexandra-M. Reimers1 Jesse van Dam1 Matthias König1 Alexander Mazein1 Chris Evelo1 Jasper Koehorst1 Snorre Sulheim1 Jan Hasenauer1 Robert Muetzelfeldt1 Maria Suarez Diez1 Liv Torunn Mydland1 Wout van Helvoirt1 Peter Schaap1 Tjasa Kumelj1 Filip Rotnes1 Yang Jin1 Chloe Spalding1 Daryl Shanley1 Thomas Hankemeier1 Juan Nogales1 Jörn Starruß1 Ligia Akemi Kiyuna1 Marie Gulla1 Hannah Kinmonth-Schultz1 Amy HARMS1 Madhulika Singh1 Ove Oyas1 Ghadeer Mobasher1 Viviane Klingel1 David San León Granado1 Marcio Acencio1 Matti van Welzen1 Alexander Pico1 Marc Gillespie1 Falk Schreiber1 Noriko Hiroi1 Miguel Ponce-de-Leon1 Arnau Montagud1 Rex D A B1 Muhammad Naveez1 Inna Kuperstein1 Tobias Czauderna1 Akira Funahashi1 Cristobal Monraz1 Daniela Börnigen1 Emek Demir1 Hanna Borlinghaus1 Liam Fergusson1 Luana Licata1 Robin Haw1 Takahiro G. Yamada1 Tom Freeman1 Yusuke Hiki1 Zsolt Bocskei1 Franck Augé1 Enrico Glaab1 Julia Scheel1 Peter D'Eustachio1 Andreas Ruepp1 Barbara Brauner1 Goar Frischmann1 Maria Krantz1 Leonard Schmiester1 Vanessa Nakonecnij1 Marius Rameil1 Marta Conti1 Jana Musilova1 Meina Neumann-Schaal1 More...

Arabidopsis thaliana52 Homo sapiens33 Saccharomyces cerevisiae18 Sulfolobus solfataricus12 Clostridium acetobutylicum10 Escherichia coli10 Bacillus subtilis10 Mus musculus9 Lactococcus lactis6 Trypanosoma brucei6 Plasmodium falciparum6 Lactic Acid Bacteria5 Gadus morhua3 Severe acute respiratory syndrome coronavirus 23 Streptococcus pyogenes2 Streptomyces coelicolor2 Pseudomonas putida2 Mycoplasma pneumoniae2 Streptomyces albus2 Aromatoleum aromaticum2 Enterococcus faecalis1 Rattus norvegicus1 Salmo salar1 Caulobacter1 Synechocystis sp. PCC 68031 More...

Ordinary differential equations (ODE)186 Graphical model24 Algebraic equations22 Metabolic network16 Agent based modelling11 Stoichiometric model11 Partial differential equations (PDE)5 Linear equations2 Boolean network1 More...

SBML214 Mathematica62 Simile XML v327 Matlab code17 Copasi17 SBGN-ML PD7 Morpheus3 PDF (Model description)2 Python code2 R code1 BioPAX1 More...

JWS Online61 Copasi45 Mathematica35 Matlab27 Morpheus3 FLAME2

Model Analysis Type150 Gene Regulatory Network143 Metabolic Network18 Gene Expression6 Metabolism6 Enzymology5 Genome Scale4 Signal Induction2 Cell Cycle1 More...