Assays

PlaSMo model repository128 Millar group71 SUSPHIRE - Sustainable Bioproduction of Pheromones for Insect Pest Control in Agriculture63 _p_RNAinVAL60 Hi-IMPAcTB56 TRANSLUCENT46 Systems toxicology of Atlantic cod34 Whole body modelling of glucose metabolism in malaria patients32 MIT SRP29 SulfoSys28 TiMet26 Towards Reproducible Enzyme Modeling26 BaCell-SysMO23 SUMO23 _p_stRT23 SulfoSys - Biotec21 SysMO-LAB20 Endometriosis20 COSMIC19 Computational pathway design for biotechnological applications19 SysMetEx18 NMTrypI - New Medicines for Trypanosomatidic Infections18 Molecular Systems Biology15 Multi-Scale Models for Personalized Liver Function Tests (LiSyM-MM-PLF)15 SilicoTryp14 MOSES13 SysMO DB13 MycoSynVac - Engineering Mycoplasma pneumoniae as a broad-spectrum animal vaccine13 MOA - Multiomics analysis of potato response to Potato virus Y (PVY) infection11 FAIRDOM10 PoLiMeR - Polymers in the Liver: Metabolism and Regulation10 GenoSysFat9 FAIRDOM user meeting9 EbN1 Systems Biology8 SteaPKMod8 iRhythmics7 Steroid biosynthesis7 MetNet7 DigiSal6 Service to Milano-Bicocca with respect to their ATP-ROS model (Active NOW)6 Make Me My Model6 Service to LCSB (Luxembourg) with respect to ROS management in Parkinson’s disease and cancer model (Active NOW)6 ROS detailed model for MSB manucript6 STREAM5 Noisy-Strep5 SYSTERACT5 BioZEment 2.05 NAMPT affinity5 Working Group Nicole Radde5 COVID-19 related studies and tools in Germany5 Consensus Hallmark Annotation5 NL-Bioimaging FAIR Metadata Templates5 Glucose metabolism in cancer cell lines5 Simulation Foundries4 The nucleus of Prorocentrum cordatum4 Manchester Institute for Biotechnology3 IMOMESIC3 Kinetics on the move - Workshop 20163 Colosys3 pISA-tree2 Yeast glycolytic oscillations2 CML for thermophysical properties of mixtures2 COVID-19 Disease Map2 BioCreative VII2 Heat stress response of the red-tide dinoflagellate Prorocentrum cordatum2 The evolution of Gene Ontology2 WineSys1 ZucAt1 MESI-STRAT1 Regulation of flowering time in natural conditions1 Mechanism based modeling viral disease ( COVID-19 ) dynamics in human population1 FAIR Functional Enrichment1 Adaptation of Salmonella enterica1 ODDITY1 More...

BioData SynthSys127 Marko Petek123 Charles Demurjian84 Jacky Snoep54 Falko Krause46 Dawie van Niekerk40 Gudrun Gygli31 Karina Dale22 Andrew Millar21 Malte Herold18 Dikshant Pradhan18 Katy Wolstencroft15 Matthias König15 Maja Zagorscak14 Daniel Seaton13 Niels Zondervan13 Theresa Kouril12 Ina Poehner12 Andrej Blejec11 Ziva Ramsak11 Maksim Zakhartsev10 Christoff Odendaal10 Jake Schissel10 Martijn Bekker9 Sebastian Curth9 Praveen kumar Sappa8 Jacqueline Wolf8 Alexey Kolodkin7 Mohamed Albadry7 Olga Krebs6 Sara Jabbari6 Sonja Steinsiek6 Ulf Liebal6 Dong-Hyun Kim6 Marta Eide6 Pasquale Linciano6 Jay Moore5 Pawel Sierocinski5 Sandra Maass5 Jurgen Haanstra5 Markus Wolfien5 Jennifer Zehner5 Dorothee Houry5 Lars Wöhlbrand5 Rohola Hosseini5 Walter Glaser4 Matthew Rolfe4 Jan-Willem Veening4 Jon Olav Vik4 Xiaokang Zhang4 Sahar Hassani4 Yi Chen4 Katja Bettenbrock3 Michael Ederer3 Stefan Stagge3 Natalie Stanford3 Graceline Tina Kirubakaran3 Uriel Urquiza Garcia3 Theresa Bender3 Sebastian Höpfl3 Meina Neumann-Schaal3 Mark Musters2 Sebastian Henkel2 Hanna Meyer2 Stefan Henrich2 Abeer Fadda2 Alejandro Leroux2 Federico Rojas2 Araz Zeyniyev2 John Raedts2 Vasundra Toure2 Fekadu Yadetie2 Yang Jin2 Anne-Marie Galow2 Arnau Montagud2 Julia Koblitz2 Patrick Becker2 Jana Kalvelage2 Tomas Fiedler1 Jennifer Levering1 Holger Janssen1 Alison Graham1 Maike Bartholomae1 Finn Bacall1 Anna Feldman-Salit1 Nadine Veith1 Nikolay Zenkin1 Antje Sieg1 Michael Kohlstedt1 Daniel Hönicke1 Botond Cseke1 Ron Henkel1 Eivind Almaas1 Thomas Harvey1 Zdenka Bartosova1 Evert Bosdriesz1 Harald Kusch1 Matthias Löbe1 Vincent Wagner1 Felix Steimle1 Felix Ott1 Sarah Kirstein1 Aaron Laier1 Alejandro Martínez Rey1 More...

Marko Petek127 BioData SynthSys127 Jacky Snoep61 Andrew Millar57 Charles Demurjian48 Gudrun Gygli31 Karina Dale23 Maja Zagorscak23 Felix Ott20 Lu Shen18 Daniel Seaton17 Dawie van Niekerk16 Theresa Kouril15 Matthias König15 Yin Hoon Chew15 Malte Herold14 Niels Zondervan13 Rebecca Wade12 Ina Poehner12 Ziva Ramsak12 Tomasz Zielinski11 Andrej Blejec11 Barbara Bakker10 Jacqueline Wolf10 Christoff Odendaal10 Dikshant Pradhan10 Emmalie Jager10 Jake Schissel10 Marta Eide9 Terry G.J. Derks9 Dietmar Schomburg7 Alexey Kolodkin7 Meina Neumann-Schaal7 Hans V. Westerhoff6 Markus Wolfien6 Uriel Urquiza Garcia6 Sahar Hassani6 Pål A. Olsvik6 Yi Chen6 Pasquale Linciano6 Olga Krebs5 Jon Olav Vik5 Raju Prasad Sharma5 Virginie Mengin5 Jennifer Zehner5 Dorothee Houry5 Rohola Hosseini5 Katy Wolstencroft4 Thomas Harvey4 Graceline Tina Kirubakaran4 Inge Jonassen4 Anders Goksøyr4 Xiaokang Zhang4 Anne-Marie Galow4 Joanna Panecka-Hofman4 Lars Wöhlbrand4 Mohamed Albadry4 Uta Dahmen4 Jurgen Haanstra3 Helge Stark3 Christian Bauer3 Fekadu Yadetie3 Odd André Karlsen3 Theresa Bender3 Sebastian Höpfl3 Patrick Becker3 Phil Wright2 Trong Khoa Pham2 Sandve Simen2 Vasundra Toure2 Per Bruheim2 Zdenka Bartosova2 Eva Yus2 Yang Jin2 Juergen Pleiss2 Ligia Akemi Kiyuna2 Xinmeng Xu2 Ghadeer Mobasher2 Lukrécia Mertová2 Julia Koblitz2 Sarah Kirstein2 Jana Kalvelage2 Maksim Zakhartsev1 Bettina Siebers1 Finn Bacall1 Jan-Willem Veening1 Ron Henkel1 Katharina Kruse1 Eivind Almaas1 Antoine Buetti-Dinh1 Soeren Bellenberg1 Dagmar Waltemath1 Gareth Gillard1 Fabian Grammes1 Inga Leena Angell1 Paulo Borges1 Andreas Albersmeier1 Luis Serrano1 Maria Lluch1 Shirin Fallahi1 Evert Bosdriesz1 Fentaw Abegaz1 Sofie Söderström1 Karen van Eunen1 Eileen Marie Hanna1 Harald Kusch1 Saptarshi Bej1 Matthias Löbe1 Heiko Lemcke1 Sophie Kussauer1 Paula Müller1 Maximilian Hillemanns1 Soo-Hyung Kim1 Hannah Kinmonth-Schultz1 Vincent Wagner1 Alejandra Gilabert1 Arnau Montagud1 Felix Steimle1 Vincent Noël1 Aaron Laier1 Alejandro Martínez Rey1 More...

bash16 Blood sampling14 human14 Pharmacokinetics14 Bioinformatics13 Systems Biology13 Sequence12 Python10 Data analysis9 Transcriptome9 Liver8 alkyladenine DNA glycosylase7 Cancer7 DNA damage7 DNA strand break7 mutation7 nitrosamine7 replication-blocking lesion7 tumor7 Docking6 NDMA5 Transcriptomics5 Arabidopsis4 Clock4 RNA-Seq4 Sulfolobus solfataricus4 carbon sources3 central carbon metabolism3 Clocks3 Data Integration3 FBA3 gene expression3 Gromacs3 Machine Learning3 Modelling3 Molecular Dynamics3 Proteomics3 pulse3 R3 RaDR3 acetic acid2 allosteric regulation2 clustering2 Comparative modeling2 Correlation analysis2 DES2 Enzyme2 genome2 Genomics2 Induced Fit2 isothermal titration calorimetry2 l-fucose2 Latex2 LC-MS/MS2 Liquid chromatography tandem mass spectrometry2 Mass spectrometry2 Metabolomics2 model comparison2 model reproducibility2 Molecular Modelling2 ODE2 Phosphoproteomics2 photosynthesis2 Protein2 sensitivity analysis2 starch2 steady state2 Thermophiles2 Aag1 AagTg1 ADMET1 anaerobic1 Arabidopsis thailana1 archaea1 Arrhenius1 ATP1 Binding1 biological pathways1 biomass1 boolean1 Boolean model1 butyric acid1 caspase1 cation homeostasis1 CellProfiler1 central carbon metabolism l-fucose1 chemostat1 chlorophyll fluorescence1 circadian rhythms1 CML1 co-regulation1 CoA1 data retrieval1 development1 Docker1 drug design1 Drug discovery1 dynamic FBA1 electrostatics1 ENA1 Enzymatic activity1 enzyme activity measurement1 Escherichia coli1 Estradiol1 extremum seeking control1 FLISE1 Flowering1 flux1 fluxes1 Gene ontology1 Genome Scale Metabolic Model1 genome-scale metabolic reconstruction1 glucose pulse1 gpt delta1 GRACE1 GSM1 heat1 high content screen1 Homology modeling1 HPLC1 image1 Image analysis1 imaging1 Input Signal Step Function1 iTRAQ1 K12 strain1 Kinetics1 Km1 LC/MS1 leaf development1 light emitting diode1 literature1 LoRAS1 lysate1 M. hyopneumoniae1 MaBoSS1 Mathematical modeling1 metabolic cotrol analysis1 Metabolic Engineering1 Metabolic Redesign1 metabolic shift1 metabolites1 metadata1 Microbiology1 MIFE1 minimal information model1 model curation1 mRNA decay1 Multiple Injection1 mus musculus1 Neurospora1 optimal lighting1 Oversampling1 P20111 PAINS1 PCA1 PFL1 PGK1 phenotype1 PIPSA1 plant1 plant growth1 plant health1 plant stress detection1 Posterior1 Potassium1 protein interaction1 protein networks1 pyruvate kinase1 quenching1 Results1 RNA1 RNAseq1 RNAvelocity1 RobOKoD1 SBML1 sc-SynO1 scRNA-Seq1 Sequence alignment1 Seurat1 snRNA-seq1 solventogenesis1 staining1 sucrose transport1 sugars1 summary1 T. brucei1 temperature1 Template1 Thermal time1 Triose phosphate isomerase1 Validation1 VFT1 VFTH1 viscosity1 Workflow1 yaml file1 yeast1 γH2AX1 More...

Saccharomyces cerevisiae32 Arabidopsis thaliana32 Sulfolobus solfataricus29 Solanum tuberosum23 Homo sapiens22 Bacillus subtilis21 Gadus morhua19 Clostridium acetobutylicum16 Trypanosoma brucei16 Escherichia coli14 Potato virus Y13 Plasmodium falciparum10 Streptococcus pyogenes9 Acidithiobacillus caldus8 Sulfobacillus thermosulfidooxidans7 Leptospirillum ferriphilum7 Salmo salar7 Enterococcus faecalis6 Lactococcus lactis6 Streptomyces coelicolor5 Leishmania major5 Leishmania donovani4 Leishmania infantum4 Trypanosoma cruzi4 Aromatoleum aromaticum4 Lactic Acid Bacteria3 Streptococcus pneumoniae2 Lactobacillus plantarum2 Mus musculus1 Ostreococcus tauri1 More...

Experimental assay613 Modelling analysis367

Experimental Assay Type456 Model Analysis Type203 Gene Regulatory Network132 Transcriptomics27 Metabolomics21 Metabolite Profiling18 Proteomics17 http://www.mygrid.org.uk/ontology/JERMOntology#metabolomics14 Metabolic Network13 Gene Expression9 Gene Expression Profiling7 Metabolite Concentration7 Enzymatic Assay6 Organism or Strain Characteristics6 Cultivation Experiment5 Enzymology5 Protein Expression Profiling4 Transcriptional Profiling4 Genomics3 Discontinuous Enzymatic2 Extracellular Metabolite Concentration2 Intracellular Metabolite Concentration2 Metabolism2 Protein Identification2 Protein Quantification2 RNA-seq Profiling2 Cell Count1 Cell Cycle1 Genome Scale1 Glucose Pulse1 Interactomics1 MicroRNA Profiling1 Protein-protein Interaction1 Reactomics1 Signal Induction1 More...

Technology Type467 Mass Spectrometry15 Microarray15 http://www.mygrid.org.uk/ontology/JERMOntology#metabolomics14 Gas Chromatography Mass Spectrometry10 Next generation sequencing9 Enzymatic Activity Measurements8 Imaging8 HPLC6 Initial Rate Experiment6 Rna-seq6 Liquid Chromatography Mass Spectrometry5 Liquid Chromatography-tandom Mass Spectrometry5 Custom Array4 Isotope Ratio Mass Spectrometry4 Microscopy4 qRT-PCR4 NMR3 qPCR3 ChIP-on-chip2 Chromatography2 Tandem Mass Spectrometry2 2D Gel Electrophoresis1 Chemostat Measurement1 Electrophoresis1 Gas Chromatography1 Gel Electrophoresis1 Inductively Coupled Plasma Mass Spectrometry1 Ion Mobility Spectrometry Mass Spectrometry1 Orbitrap Velos1 Progressive Curve Experiment1 SDS-PAGE1 Surface Plasmon Resonance1 More...