Data files

data652 pISA351 demo246 pISA-tree54 Enzyme39 isothermal titration calorimetry33 caffeine28 Pharmacokinetics28 Docking25 Binding22 Drug discovery16 Proteomics14 Kinetics12 Data Management8 Induced Fit8 Metabolomics8 Multiple Injection8 Transcriptomics8 UV-Vis Spectrophotometry8 Arabidopsis7 iTRAQ7 Sulfolobus solfataricus7 acetic acid6 chemostat6 KEGG6 Bacillus subtilis5 biomass4 chemical markup language4 deep eutectic solvents4 drug design4 Python4 Selwyn test4 Specific Activity4 Validation4 70mM3 ADMET3 Arrhenius and Vogel–Fulcher–Tammann-Hesse models3 Data Integration3 development3 dynamic light scattering3 enzyme kinetics3 FAIR3 fair data3 Homogeneity of Sample3 KEGG2SBTOOLBOX23 microarray3 Modelling3 Pals3 pulse3 Reactome3 recurrent Single Injection3 sc-SynO3 scRNA-Seq3 SEEK3 Workflow3 acidogenesis2 allosteric regulation2 annotation2 API2 Automated Workflow2 butyric acid2 carbon sources2 clinical studies2 community2 Correlation analysis2 Cytoscape2 data retrieval2 environmental conditions2 Epidemiology2 gene annotation2 in silico2 ISA2 literature2 M. pneumoniae2 Mass spectrometry2 Matlab2 metadata2 mRNA decay2 Protein2 public health studies2 R2 RNAseq2 SBTOOLBOX22 sequencing2 SPINE2 Taverna2 Thermodynamics2 100mM1 50mM1 80mM1 absolute values1 aerobiosis1 Affymetrix1 amino acid1 Amino acid uptake1 anaerobic1 Arabidopsis thailana1 Arrhenius model1 Bioinformatics1 butanol producing strain e.coli1 CAC1 Clock1 Clocks1 Clostridium1 cofactor1 coil length1 combine1 Comparative modeling1 comparison1 continuous culture1 Control Analysis1 COVID-191 Data analysis1 data and model management1 data citation1 Data Dictionary1 Data logger1 DES1 dynamic model1 Enyzme Kinetics1 enzyme activity measurement1 enzymes1 epidemic1 Escherichia coli1 experiment1 fair publishing1 FBA1 feed composition1 feed switch1 figures; Tables1 GC-MS1 gel1 gene co-expression analysis1 gene expression1 Graph Analysis1 hplc thiol analysis1 input1 intera1 interaction partner1 kcat1 Km1 l-fucose1 lactate dehydrogenase1 LC MS1 leaf area1 lepto1 LXX1 Master file1 MCAD1 membrane transport1 metabolic shift1 Metadata table1 mice1 Microbial Ecology1 Microbiology1 mineral1 mitochondrial carrier1 mitochondrial transporter1 model curation1 Molecular Dynamics1 NAD1 NAD+ transporters1 Network Analysis1 networking1 oxygen1 PAINS1 pathway1 PC1 PDB1 PFL1 PGK1 pH-shift1 phosphorylation1 Protocol development1 pyruvate kinase1 quenching temperature1 reactions1 relative measurements1 Report1 repression1 respiration1 RNA1 RobOKoD redesigned1 SBML1 seek tutorial1 SLC25A511 solute carrier family 251 solventogenesis1 space science1 step1 Stickland reactions1 stoichiometric equation1 Stressosome1 Systems Biology1 T. brucei1 TCA1 Template1 transcriptiption regulation1 Transcriptome1 transformer1 transport1 tutorial1 viscosity1 vmax1 Vogel–Fulcher–Tammann-Hesse model1 workshop1 yeast1 More...

Marko Petek351 Andrej Blejec303 BioData SynthSys130 Maja Zagorscak92 Gudrun Gygli58 Malte Herold43 Ziva Ramsak42 Dikshant Pradhan39 Ina Poehner33 Sahar Hassani31 Matthias König30 Andrew Millar29 Yi Chen29 Jacky Snoep28 Karina Dale26 Dawie van Niekerk25 Jan-Willem Veening24 Zdenka Bartosova24 Daniel Seaton24 Niels Zondervan23 Maksim Zakhartsev22 Alexey Kolodkin22 Sebastian Curth19 Olga Krebs18 Katy Wolstencroft14 Martijn Bekker13 Natalia Gebara13 Xiaokang Zhang12 Praveen kumar Sappa11 Margrete Solheim11 Jon Olav Vik11 Leif Steil10 Theresa Kouril10 Jacqueline Wolf10 Markus Wolfien10 Pasquale Linciano10 Helge Stark9 Yang Jin9 Marta Eide9 Runyu Liang9 Graceline Tina Kirubakaran8 Anette McLeod7 Paul Heusden6 Holger Janssen6 Dong-Hyun Kim6 Hannah O'Keefe6 Anne-Marie Galow6 Julia Scheel6 Katja Bettenbrock5 Sonja Steinsiek5 Ulf Liebal5 Sandra Maass5 Anna Feldman-Salit5 Jurgen Haanstra5 Thomas Rimpf5 Natalie Stanford5 Fatemeh Zamanzad Ghavidel5 Jennifer Zehner5 Ioannis Metaxas5 Gabriela Loscalzo5 Hans V. Westerhoff4 Jay Moore4 Wolfgang Müller4 Hanna Meyer4 Abeer Fadda4 Franco du Preez4 Maja Rey4 Daniel Hönicke4 Koen van Grinsven4 Stefan Albaum4 Ulrike Wittig4 Martin Golebiewski4 Inga Leena Angell4 Dorothee Houry4 Theresa Bender4 Karel Sedlar4 Michael Kohlstedt3 Antoine Buetti-Dinh3 Fekadu Yadetie3 Evert Bosdriesz3 Hong Yang3 Matthew Rolfe2 Stefan Henrich2 Alejandro Leroux2 Federico Rojas2 Silvio Hering2 Araz Zeyniyev2 Quyen Nguyen2 Eivind Almaas2 Thomas Harvey2 Cornelius Erbelding2 Chloe Spalding2 Harald Kusch2 Xiangcheng Li2 Sofia Doello2 Faiz Khan2 Bas Teusink1 Vitor Martins dos Santos1 Michael Ederer1 Maike Bartholomae1 Fiona Achcar1 Antje Sieg1 John Raedts1 Wayne Aubrey1 Ron Henkel1 Fabian Grammes1 Vasundra Toure1 Magny Sidsel Thomassen1 Roel Van Driel1 Lutz Brusch1 Jasper Koehorst1 Huseyin Tas1 Mohamed El Hajjami1 Ines Heiland1 Baudoin Delépine1 Angeles Hueso-Gil1 DAVID RODRIGUEZ ESPESO1 Hannah Kinmonth-Schultz1 Petra Engele1 PoLiMeR_user Martines_data1 Birger Wolter1 Maria Paola Costi1 Felix Ott1 Chris Wilson1 Sophie Klopfenstein1 More...

TRANSLUCENT716 _p_RNAinVAL351 _p_stRT338 PlaSMo model repository130 DigiSal82 pISA-tree57 Systems toxicology of Atlantic cod55 GenoSysFat54 SysMO-LAB52 Millar group50 Towards Reproducible Enzyme Modeling47 SysMetEx44 BaCell-SysMO43 NMTrypI - New Medicines for Trypanosomatidic Infections43 MOA - Multiomics analysis of potato response to Potato virus Y (PVY) infection42 COSMIC35 SUMO30 Multi-Scale Models for Personalized Liver Function Tests (LiSyM-MM-PLF)30 Consensus Hallmark Annotation29 IMPAcTB27 SysMO DB26 SulfoSys - Biotec26 Noisy-Strep24 MycoSynVac - Engineering Mycoplasma pneumoniae as a broad-spectrum animal vaccine23 SulfoSys22 Molecular characterization and angiogenic properties of extracellular vesicles in healthy and preeclamptic amniotic fluid19 ROS detailed model for MSB manucript18 SilicoTryp17 TiMet17 Whole body modelling of glucose metabolism in malaria patients16 iRhythmics16 FAIRDOM14 ZucAt13 Computational pathway design for biotechnological applications13 MIT SRP12 MOSES10 CML for thermophysical properties of mixtures10 Molecular Systems Biology9 COVID-19 related studies and tools in Germany7 BioZEment 2.05 CEPOPA - Development of sustainable chemoenzymatic processes for optically pure amines from alcohols or alkynes5 Overexpression of microRNAs miR-25-3p, miR-185-5p and miR-132-3p in Late Onset Fetal Growth Restriction, Validation of Results and Study of the Biochemical Pathways Involved5 STREAM4 de.NBI-SysBio4 Kinetics on the move - Workshop 20164 Colosys4 MESI-STRAT4 PoLiMeR - Polymers in the Liver: Metabolism and Regulation4 NAMPT affinity4 Clostridium beijerinckii pan-genome4 IMOMESIC3 EmPowerPutida3 Mechanism based modeling viral disease ( COVID-19 ) dynamics in human population3 nfdi4health - German National Research Data Infrastructure for Personal Health Data3 Scalp Acupuncture and Treadmill Training Inhibits Neuronal Apoptosis Through Activating cIAP1 in Cerebral Ischemia Rats3 Electroacupuncture preconditioning reduces oxidative stress in the acute phase of cerebral ischemia-reperfusion in rats by regulating iron metabolism pathways3 WineSys2 FAIRDOM user meeting2 WG Infrastructure for Translational Research2 Mathematical modelling of the antibiotic-induced morphological transition of Pseudomonas aeruginosa2 INCOME2 SCyCode The Autotrophy-Heterotrophy Switch in Cyanobacteria: Coherent Decision-Making at Multiple Regulatory Layers2 Outreach - Breast Cancer RStudio-Shiny application2 Outreach - Senescence RStudio-Shiny application2 Mass spectrometry proteomics for biomarker discovery2 Xenophiles Systems Biology2 Supplemental Data for "Why did the eyewall replacement cycle in Trami terminate rapidly? "2 SASKit: Senescence-Associated Systems diagnostics Kit for cancer and stroke2 The Effect of Nape Acupuncture Combined with Rehabilitation Training on Dysphagia After Stroke: A Meta-analysis2 Manchester Institute for Biotechnology1 ICYSB 2015 - International Practical Course in Systems Biology1 Early Metabolic Injury (LiSyM-EMI - Pillar I)1 Chronic Liver Disease Progression (LiSyM-DP - Pillar II)1 Regeneration and Repair in Acute-on-Chronic Liver Failure (LiSyM-ACLF - Pillar III)1 LiSyM Core Infrastructure and Management (LiSyM-PD)1 Liver Function Diagnostics (LiSyM-LiFuDi - Pillar IV)1 Model Guided Pharmacotherapy In Chronic Liver Disease (LiSyM-MGP)1 The Hedgehog Signalling Pathway (LiSyM-JGMMS)1 Molecular Steatosis - Imaging & Modeling (LiSyM-MSIM)1 HUMET Startup1 SEEK tutorial for DigiSal1 Training Hunfeld1 COMBINE Multicellular Modelling1 POP - the Parameter Optimisation Problem1 Regulation of flowering time in natural conditions1 Thesis1 C1Pro1 NAD phylogeny1 Outreach - Simulation of breast cancer development using an agent based modelling approach1 Outreach - Simulation of cellular senescence using an agent based modelling approach1 Simulation Foundries1 FAIRDOM Community Workers1 MIX-UP1 COVID-19 Disease Map1 Test Project (dummy)1 An overview of systematic reviews of treatment of polycystic ovary syndrome with Chinese medicine1 Non equilibrium thermodynamics1 Book on Thermodynamics, and kinetics1 Coastal Data1 More...

SysMO979 NIBSys788 SynthSys184 The Digital Salmon92 dCod 1.0: decoding systems toxicology of cod55 Independent Projects51 ERASysAPP49 Gygli Group48 Drug development for neglected parasitic diseases43 LiSyM - Systems Medicine of the Liver30 SARCHI: Mechanistic modelling of health and epidemiology29 Hallmarks of cancer 29 IMPAcTB27 e:Bio26 iPlacenta: ​A European Union Horizon 2020 innovative training network (ITN)24 de.NBI Systems Biology Service Center (de.NBI-SysBio)22 Model repository for M4 (Make Me My Model) clients of ISBE22 FAIRDOM16 MIT Superfund Research12 Journals9 nfdi4health - German National Research Data Infrastructure for Personal Health Data9 BioZEment5 Hellenic Foundation for Research and Innovation - Supporting academic Staff and Researchers5 e:med4 Druglogics4 Clostridium beijerinckii4 Newcastle University Systems Modelling of Ageing3 Breast Cancer Simulation3 Combined therapy involving Scalp Acupuncture and Treadmill Training Inhibits Neuronal Apoptosis in Cerebral Ischemia Rats by regulating cIAP13 Electroacupuncture preconditioning reduces oxidative stress in the acute phase of cerebral ischemia-reperfusion in rats by regulating iron metabolism pathways3 Mathematical modelling of the morphological transition of Pseudomonas aeruginosa2 Cancer drug discovery preclinical research2 ISBE.NL service programme2 Thermodynamics and kinetics for Biology2 Supplemental Data for "Why did the eyewall replacement cycle in Trami terminate rapidly? "2 DFG founded projects2 The Effect of Nape Acupuncture Combined with Rehabilitation Training on Dysphagia After Stroke2 HUMET1 COMBINE (Computational Modeling in Biology Network)1 Era CoBioTech1 Thesis AHG 20191 Disease Maps1 An overview of systematic reviews of treatment of polycystic ovary syndrome with Chinese medicine1 More...

Marko Petek354 Falko Krause327 Andrej Blejec302 Dani Valverde219 BioData SynthSys130 Maja Zagorscak92 Jost Ludwig83 Jacky Snoep63 Lina Patricia Barreto Parra58 Gudrun Gygli57 Andrew Millar50 Felix Ott44 Malte Herold43 Yang Jin38 Fabian Grammes37 Jon Olav Vik34 Dikshant Pradhan34 Ina Poehner33 Rebecca Wade31 Matthias König30 Yi Chen29 Yin Hoon Chew28 Daniel Seaton27 Per Bruheim26 Zdenka Bartosova26 Dawie van Niekerk25 Joanna Panecka-Hofman25 Jan-Willem Veening24 Theresa Kouril23 Hans V. Westerhoff22 Maksim Zakhartsev22 Alexey Kolodkin22 Sebastian Curth19 Thomas Harvey19 Karina Dale18 Katy Wolstencroft16 Raju Prasad Sharma16 Sahar Hassani16 Olga Krebs15 Praveen kumar Sappa15 Matthew Rolfe14 Niels Zondervan13 Lu Shen13 Natalia Gebara13 Martijn Bekker12 Graceline Tina Kirubakaran12 Xiaokang Zhang12 Silvia Petrezselyova11 Margrete Solheim11 Markus Wolfien11 Jacqueline Wolf10 Anne-Marie Galow10 Xinmeng Xu10 Pasquale Linciano10 Paul Heusden9 Helge Stark9 Juergen Pleiss9 Runyu Liang9 Joerg Stuelke8 Phil Wright7 Holger Janssen7 Trong Khoa Pham7 Anette McLeod7 Ulrike Wittig7 Tomas Fiedler6 Sonja Steinsiek6 Wolfgang Müller6 Sandra Maass6 Dong-Hyun Kim6 Gareth Gillard6 Virginie Mengin6 Hannah O'Keefe6 Julia Scheel6 Katja Bettenbrock5 Ulf Liebal5 Anna Feldman-Salit5 Jurgen Haanstra5 Thomas Rimpf5 Natalie Stanford5 Antoine Buetti-Dinh5 Inga Leena Angell5 Fatemeh Zamanzad Ghavidel5 Christian Bauer5 Ziva Ramsak5 Jennifer Zehner5 Pål A. Olsvik5 Dorothee Houry5 Theresa Bender5 Eleni Konia5 Gabriela Loscalzo5 Jaromir Zahrádka4 Hanna Meyer4 Abeer Fadda4 Alejandro Leroux4 Franco du Preez4 Michael Kohlstedt4 Daniel Hönicke4 Koen van Grinsven4 Stefan Albaum4 Magny Sidsel Thomassen4 Mohamed El Hajjami4 Marta Eide4 Karel Sedlar4 Dietmar Schomburg3 David Hodgson3 Jay Moore3 Guido Hasenbrink3 Alexander Ter Beek3 Maja Rey3 Inge Jonassen3 Fekadu Yadetie3 Anders Goksøyr3 Evert Bosdriesz3 Odd André Karlsen3 Saptarshi Bej3 Michael Hecker2 Uwe Voelker2 Trond Ellingsen2 Stuart Owen2 Sara Jabbari2 Øyvind Jakobsen2 Per Bruheim2 Håvard Sletta2 Anders Øverby2 Sunniva Hoel2 Sven Even Borgos2 Michael Ederer2 Stefan Stagge2 Rick Lewis2 Alexander Wentzel2 Stefan Henrich2 Federico Rojas2 Silvio Hering2 Araz Zeyniyev2 Quyen Nguyen2 Ulrike Mäder2 Eivind Almaas2 Ansgar Poetsch2 Soeren Bellenberg2 Arne Gjuvsland2 Martin Golebiewski2 Sandve Simen2 Jacob Seilø Torgersen2 Cornelius Erbelding2 Luis Serrano2 Maria Lluch2 Eva Yus2 Alexander Graf2 Katja Baerenfaller2 Chloe Spalding2 Uriel Urquiza Garcia2 Ines Heiland2 Harald Kusch2 Matthias Löbe2 Carsten Oliver Schmidt2 Moritz Lehne2 Aliaksandra Shutsko2 Maria Paola Costi2 Xiangcheng Li2 Sofia Doello2 Faiz Khan2 Joost Aerts2 Oscar Kuipers1 Bas Teusink1 Maria Jonsson1 Vitor Martins dos Santos1 David Rand1 David Wild1 Elizabeth Wellington1 Eriko Takano1 Gregory Challis1 Juan-Francisco Martin1 Kay Nieselt1 Lubbert Dijkhuizen1 Maggie Smith1 Nigel Burroughs1 Preben Krabben1 Rainer Breitling1 Wolfgang Wohlleben1 Bettina Siebers1 Walid Omara1 Carole Goble1 M. Tauqeer Alam1 William Gaze1 Brent Kiernan1 Roxane Legaie1 Anthony Palathingal1 R Jansen1 Jens Reuther1 Antonio Rodríguez-García1 Louise Thomas1 Leif Steil1 Sebastian Henkel1 Ibrahim Mehmeti1 Susanne Gerber1 Clara Navarrete1 Jan Maarten van Dijl1 Morris Swertz1 Maria Elena Merlo1 Colin Harwood1 Maike Bartholomae1 joseph newman1 Priyanka Nannapaneni1 Wouter Kuit1 Barbara Bakker1 Fiona Achcar1 Antje Sieg1 Ruben Mars1 Eduard Kerkhoven1 John Raedts1 Wayne Aubrey1 Klaas Hellingwerf1 Ron Henkel1 Katharina Kruse1 Rostyslav Kuzyakiv1 Dagmar Waltemath1 Irina Medvedeva1 Lars Snipen1 Dominic Nanton1 Vasundra Toure1 Andreas Albersmeier1 Roel Van Driel1 Jan Boren1 Adil Mardinoglu1 Jasper Koehorst1 Huseyin Tas1 Jan Hasenauer1 Vânia Pobre1 Peter Schaap1 Kathrin Thedieck1 Tobias Anzeneder1 Mathias Ziegler1 Baudoin Delépine1 Janina Leyk1 Terry G.J. Derks1 Eileen Marie Hanna1 Angeles Hueso-Gil1 DAVID RODRIGUEZ ESPESO1 Hannah Kinmonth-Schultz1 Petra Engele1 PoLiMeR_user Martines_data1 Alejandra Gilabert1 Hong Yang1 Birger Wolter1 Leonard Schmiester1 Johannes Darms1 Chris Wilson1 Sophie Klopfenstein1 More...

Experimental Assay Type727 Model Analysis Type573 Gene Regulatory Network132 Transcriptomics47 Metabolic Network30 Proteomics29 http://www.mygrid.org.uk/ontology/JERMOntology#metabolomics28 Metabolite Profiling25 Metabolomics17 Gene Expression Profiling13 Enzymology12 Cultivation Experiment11 MicroRNA Profiling11 Organism or Strain Characteristics11 Protein Quantification11 Metabolism9 Enzymatic Assay8 Metabolite Concentration7 Transcriptional Profiling7 Gene Expression5 RNA-seq Profiling5 Genome Scale4 Protein Expression Profiling4 Discontinuous Enzymatic3 Extracellular Metabolite Concentration3 Genomics3 Glucose Pulse3 Interactomics2 Intracellular Metabolite Concentration2 Cell Count1 Cell Cycle1 Signal Induction1 More...

Technology Type725 Next generation sequencing42 Mass Spectrometry33 http://www.mygrid.org.uk/ontology/JERMOntology#metabolomics28 Liquid Chromatography Mass Spectrometry19 Microarray19 Gas Chromatography Mass Spectrometry11 Custom Array10 Enzymatic Activity Measurements10 Rna-seq10 Tandem Mass Spectrometry8 HPLC7 NMR7 Orbitrap Velos7 qPCR7 Imaging6 Liquid Chromatography-tandom Mass Spectrometry6 qRT-PCR5 Initial Rate Experiment4 Isotope Ratio Mass Spectrometry3 ChIP-on-chip2 Electrophoresis2 Microscopy2 2D Gel Electrophoresis1 Chemostat Measurement1 Chromatography1 Gas Chromatography1 Gel Electrophoresis1 Molecule Labelling1 UPLC1 More...