13CFLUX - third-generation high-performance engine for isotopically (non)stationary 13C metabolic flux analysis.

Wolfgang Wiechert https://orcid.org/0000-0001-8501-0694 https://www.wikidata.org/entity/Q2591753 https://d-nb.info/gnd/1213485096

Anton Stratmann Martin Beyß Johann F. Jadebeck Wolfgang Wiechert Katharina Nöh 13CFLUX - third-generation high-performance engine for isotopically (non)stationary 13C metabolic flux analysis. 2025 41 Bioinform. 12 https://doi.org/10.1093/bioinformatics/btaf630 db/journals/bioinformatics/bioinformatics41.html#StratmannBJWN25 streams/journals/bioinformatics

Richard D. Paul Johann F. Jadebeck Anton Stratmann Wolfgang Wiechert Katharina Nöh hopsy - a methods marketplace for convex polytope sampling in Python. 2024 40 Bioinform. 6 https://doi.org/10.1093/bioinformatics/btae430 db/journals/bioinformatics/bioinformatics40.html#PaulJSWN24

Jochen Nießer Michael Osthege Eric von Lieres Wolfgang Wiechert Stephan Noack PeakPerformance - A tool for Bayesian inference-based fitting of LC-MS/MS peaks. 7313 2024 December 9 J. Open Source Softw. 104 https://doi.org/10.21105/joss.07313 db/journals/jossw/jossw9.html#NiesserOLWN24 streams/journals/jossw

M. Shahbaz Memon Johann F. Jadebeck Michael Osthege Anna Wendler David Kerkmann Henrik Zunker Wolfgang Wiechert Katharina Nöh Jens Henrik Göbbert Björn Hagemeier Morris Riedel Martin J. Kühn Automated Processing of Pipelines Managing Now- and Forecasting of Infectious Diseases. 1157-1162 2024 MIPRO https://doi.org/10.1109/MIPRO60963.2024.10569336 conf/mipro/2024 db/conf/mipro/mipro2024.html#MemonJOWKZWNGHR24

Johann F. Jadebeck Wolfgang Wiechert Katharina Nöh Practical sampling of constraint-based models: Optimized thinning boosts CHRR performance. 2023 19 PLoS Comput. Biol. 8 https://doi.org/10.1371/journal.pcbi.1011378 db/journals/ploscb/ploscb19.html#JadebeckWN23

Laura Marie Helleckes Michael Osthege Wolfgang Wiechert Eric von Lieres Marco Oldiges Bayesian calibration, process modeling and uncertainty quantification in biotechnology. 2022 18 PLoS Comput. Biol. 3 https://doi.org/10.1371/journal.pcbi.1009223 https://www.wikidata.org/entity/Q111508034 db/journals/ploscb/ploscb18.html#HelleckesOWLO22

Karina Ruzaeva Kira Küsters Wolfgang Wiechert Benjamin Berkels Marco Oldiges Katharina Nöh Automated Characterization of Catalytically Active Inclusion Body Production in Biotechnological Screening Systems. 3874-3877 2022 EMBC https://doi.org/10.1109/EMBC48229.2022.9871325 conf/embc/2022 db/conf/embc/embc2022.html#RuzaevaKWBON22

Karina Ruzaeva Kira Küsters Wolfgang Wiechert Benjamin Berkels Marco Oldiges Katharina Nöh Automated Characterization of Catalytically Active Inclusion Body Production in Biotechnological Screening Systems. 2022 abs/2209.15584 CoRR https://doi.org/10.48550/arXiv.2209.15584 db/journals/corr/corr2209.html#abs-2209-15584

Laura Marie Helleckes Johannes Hemmerich Wolfgang Wiechert Eric von Lieres Alexander Grünberger Machine learning in bioprocess development: From promise to practice. 2022 abs/2210.02200 CoRR https://doi.org/10.48550/arXiv.2210.02200 db/journals/corr/corr2210.html#abs-2210-02200

Tobias Ploch Eric von Lieres Wolfgang Wiechert Alexander Mitsos Ralf Hannemann-Tamás Simulation of differential-algebraic equation systems with optimization criteria embedded in Modelica. 106920 2020 140 Comput. Chem. Eng. https://doi.org/10.1016/j.compchemeng.2020.106920 https://www.wikidata.org/entity/Q115358458 db/journals/cce/cce140.html#PlochLWMH20

Christian Carsten Sachs Joachim Koepff Wolfgang Wiechert Alexander Grünberger Katharina Nöh mycelyso - high-throughput analysis of Streptomyces mycelium live cell imaging data. 452:1-452:7 2019 20 BMC Bioinform. 1 https://doi.org/10.1186/s12859-019-3004-1 https://www.wikidata.org/entity/Q93103535 db/journals/bmcbi/bmcbi20.html#SachsKWGN19

Katharina Nöh Sebastian Niedenführ Martin Beyß Wolfgang Wiechert A Pareto approach to resolve the conflict between information gain and experimental costs: Multiple-criteria design of carbon labeling experiments. 2018 14 PLoS Comput. Biol. 10 https://doi.org/10.1371/journal.pcbi.1006533 https://www.wikidata.org/entity/Q58090909 db/journals/ploscb/ploscb14.html#NohNBW18

Victoria Steffen Julia Otten Susann Engelmann Andreas Radek Michael Limberg Bernd W. Koenig Stephan Noack Wolfgang Wiechert Martina Pohl A Toolbox of Genetically Encoded FRET-Based Biosensors for Rapid l-Lysine Analysis. 1604 2016 16 Sensors 10 https://doi.org/10.3390/s16101604 https://www.wikidata.org/entity/Q39334445 db/journals/sensors/sensors16.html#SteffenOERLKNWP16

Katharina Nöh Peter Droste Wolfgang Wiechert Visual workflows for 13C-metabolic flux analysis. 346-354 2015 31 Bioinform. 3 https://doi.org/10.1093/bioinformatics/btu585 https://www.wikidata.org/entity/Q47720874 db/journals/bioinformatics/bioinformatics31.html#NohDW15

Stefan Helfrich Charaf E. Azzouzi Christopher Probst Johannes Seiffarth Alexander Grünberger Wolfgang Wiechert Dietrich Kohlheyer Katharina Nöh Vizardous: interactive analysis of microbial populations with single cell resolution. 3875-3877 2015 31 Bioinform. 23 https://doi.org/10.1093/bioinformatics/btv468 https://www.wikidata.org/entity/Q35742154 db/journals/bioinformatics/bioinformatics31.html#HelfrichAPSGWKN15

Michael Weitzel Katharina Nöh Tolga Dalman Sebastian Niedenführ Birgit Stute Wolfgang Wiechert 13CFLUX2 - high-performance software suite for 13C-metabolic flux analysis. 143-145 2013 29 Bioinform. 1 https://doi.org/10.1093/bioinformatics/bts646 https://www.wikidata.org/entity/Q34461785 db/journals/bioinformatics/bioinformatics29.html#WeitzelNDNSW13

Tolga Dalman Tim Dörnemann Ernst Juhnke Michael Weitzel Wolfgang Wiechert Katharina Nöh Bernd Freisleben Cloud MapReduce for Monte Carlo bootstrap applied to Metabolic Flux Analysis. 582-590 2013 29 Future Gener. Comput. Syst. 2 https://doi.org/10.1016/j.future.2011.10.007 https://www.wikidata.org/entity/Q61758336 db/journals/fgcs/fgcs29.html#DalmanDJWWNF13

Christopher Probst Alexander Grünberger Wolfgang Wiechert Dietrich Kohlheyer Polydimethylsiloxane (PDMS) Sub-Micron Traps for Single-Cell Analysis of Bacteria. 357-369 2013 4 Micromachines 4 https://doi.org/10.3390/mi4040357 db/journals/micromachines/micromachines4.html#ProbstGWK13

Peter Droste Wolfgang Wiechert Katharina Nöh Semi-automatic drawing of metabolic networks. 171-187 2012 11 Inf. Vis. 3 https://doi.org/10.1177/1473871611413565 https://www.wikidata.org/entity/Q61758348 db/journals/ivs/ivs11.html#DrosteWN12

Jana Tillack Stephan Noack Katharina Nöh Atya Elsheikh Wolfgang Wiechert A Software Framework for Modeling and Simulation of Dynamic Metabolic and Isotopic Systems. 147-156 2012 22 Simul. Notes Eur. 3-4 https://doi.org/10.11128/sne.22.tn.10147 db/journals/simeuro/simeuro22.html#TillackNNEW12

Peter Droste Stephan Miebach Sebastian Niedenführ Wolfgang Wiechert Katharina Nöh Visualizing multi-omics data in metabolic networks with the software Omix - A case study. 154-161 2011 105 Biosyst. 2 https://doi.org/10.1016/j.biosystems.2011.04.003 https://www.wikidata.org/entity/Q33901804 db/journals/biosystems/biosystems105.html#DrosteMNWN11

Frieder Hadlich Katharina Nöh Wolfgang Wiechert Determination of flux directions by thermodynamic network analysis: Computing informative metabolite pools. 460-470 2011 82 Math. Comput. Simul. 3 https://doi.org/10.1016/j.matcom.2010.10.025 https://www.wikidata.org/entity/Q61758354 db/journals/mcs/mcs82.html#HadlichNW11

Tolga Dalman Michael Weitzel Wolfgang Wiechert Bernd Freisleben Katharina Nöh An Online Provenance Service for Distributed Metabolic Flux Analysis Workflows. 91-98 2011 ECOWS https://doi.org/10.1109/ECOWS.2011.20 https://doi.ieeecomputersociety.org/10.1109/ECOWS.2011.20 https://www.wikidata.org/entity/Q61758351 conf/ecows/2011 db/conf/ecows/ecows2011.html#DalmanWWFN11 Peter Droste Eric von Lieres Wolfgang Wiechert Katharina Nöh Customizable Visualization on Demand for Hierarchically Organized Information in Biochemical Networks. 163-174 2010 CompIMAGE https://doi.org/10.1007/978-3-642-12712-0_15 https://www.wikidata.org/entity/Q61758360 conf/compimage/2010 db/conf/compimage/compimage2010.html#DrosteLWN10 Tolga Dalman Tim Dörnemann Ernst Juhnke Michael Weitzel Matthew Smith 0001 Wolfgang Wiechert Katharina Nöh Bernd Freisleben Metabolic Flux Analysis in the Cloud. 57-64 2010 eScience https://doi.org/10.1109/eScience.2010.20 https://doi.ieeecomputersociety.org/10.1109/eScience.2010.20 https://www.wikidata.org/entity/Q61758363 conf/eScience/2010 db/conf/eScience/eScience2010.html#DalmanDJWSWNFN10 Tolga Dalman Peter Droste Michael Weitzel Wolfgang Wiechert Katharina Nöh Workflows for Metabolic Flux Analysis: Data Integration and Human Interaction. 261-275 2010 ISoLA (1) https://doi.org/10.1007/978-3-642-16558-0_23 https://www.wikidata.org/entity/Q61758366 conf/isola/2010-1 db/conf/isola/isola2010-1.html#DalmanDWWN10

Sebastian Aljoscha Wahl Katharina Nöh Wolfgang Wiechert 13C labeling experiments at metabolic nonstationary conditions: An exploratory study. 2008 9 BMC Bioinform. https://doi.org/10.1186/1471-2105-9-152 https://www.wikidata.org/entity/Q33325667 db/journals/bmcbi/bmcbi9.html#WahlNW08

Stephan Noack Aljoscha Wahl Marc Daniel Haunschild Ermir Qeli Bernd Freisleben Wolfgang Wiechert Visualizing regulatory interdependencies and parameter sensitivities in biochemical network models. 991-998 2008 79 Math. Comput. Simul. 4 https://doi.org/10.1016/j.matcom.2008.02.008 db/journals/mcs/mcs79.html#NoackWHQFW08

Michael Weitzel Wolfgang Wiechert Katharina Nöh The topology of metabolic isotope labeling networks. 2007 8 BMC Bioinform. https://doi.org/10.1186/1471-2105-8-315 https://www.wikidata.org/entity/Q33295450 db/journals/bmcbi/bmcbi8.html#WeitzelWN07

Stephan Noack Aljoscha Wahl Marco Oldiges Wolfgang Wiechert Visualizing regulatory interactions in metabolic networks. P5 2007 1 BMC Syst. Biol. S-1 https://doi.org/10.1186/1752-0509-1-S1-P5 db/journals/bmcsb/bmcsb1S.html#NoackWOW07

Marc Kalkuhl Peter Droste Wolfgang Wiechert Holger Nies Otmar Loffeld Martin Lambers Parallel computation of synthetic SAR raw data. 536-539 2007 IGARSS https://doi.org/10.1109/IGARSS.2007.4422849 conf/igarss/2007 db/conf/igarss/igarss2007.html#KalkuhlDWNLL07

Marc Daniel Haunschild Sebastian Aljoscha Wahl Bernd Freisleben Wolfgang Wiechert A general framework for large-scale model selection. 901-917 2006 21 Optim. Methods Softw. 6 https://doi.org/10.1080/10556780600872208 db/journals/oms/oms21.html#HaunschildWFW06

Marc Kalkuhl Peter Droste Wolfgang Wiechert Holger Nies Otmar Loffeld Modular SAR Simulator for Bi- and Multistatic Constellations. 1212-1215 2006 IGARSS https://doi.org/10.1109/IGARSS.2006.313 conf/igarss/2006 db/conf/igarss/igarss2006.html#KalkuhlDWNL06 Joachim H. G. Ender Jens Klare Ingo Walterscheid Andreas R. Brenner Matthias Weiss C. Kirchner Helmut Wilden Otmar Loffeld Andreas Kolb 0001 Wolfgang Wiechert Marc Kalkuhl Stefan Knedlik Ulrich Gebhardt Holger Nies Koba Natroshvili S. Ige Amaya Medrano Ortiz A. Amankwah Bistatic Exploration using Spaceborne and Airborne SAR Sensors: A Close Collaboration Between FGAN, ZESS, and FOMAAS. 1828-1831 2006 IGARSS https://doi.org/10.1109/IGARSS.2006.472 conf/igarss/2006 db/conf/igarss/igarss2006.html#EnderKWBWKWLKWKKGNNIOA06

Marc Daniel Haunschild Bernd Freisleben Ralf Takors Wolfgang Wiechert Investigating the dynamic behavior of biochemical networks using model families. 1617-1625 2005 21 Bioinform. 8 https://doi.org/10.1093/bioinformatics/bti225 https://www.wikidata.org/entity/Q38448331 db/journals/bioinformatics/bioinformatics21.html#HaunschildFTW05

Ermir Qeli Wolfgang Wiechert Bernd Freisleben Visual Exploration of Time-Varying Matrices. 889-895 2005 conf/iv/2005 IV https://doi.org/10.1109/IV.2005.136 https://doi.ieeecomputersociety.org/10.1109/IV.2005.136 db/conf/iv/iv2005.html#QeliWF05 Ermir Qeli Wolfgang Wiechert Bernd Freisleben The time-dependent reorderable matrix method for visualizing evolving tabular data. 199-207 2005 Visualization and Data Analysis https://doi.org/10.1117/12.587005 conf/vda/2005 db/conf/vda/vda2005.html#QeliWF05

Eric von Lieres Sören Petersen Wolfgang Wiechert A Multi-Scale Modeling Concept and Computational Tools for the Integrative Analysis of Stationary Metabolic Data. 2004 1 J. Integr. Bioinform. 1 https://doi.org/10.2390/biecoll-jib-2004-4 db/journals/jib/jib1.html#LieresPW04

Nicole Isermann Michael Weitzel Wolfgang Wiechert Kleene's Theorem and the Solution of Metabolic Carbon Labeling Systems. 75-84 2004 conf/gcb/2004 German Conference on Bioinformatics db/conf/gcb/gcb2004.html#IsermannWW04 https://dl.gi.de/handle/20.500.12116/28678 http://subs.emis.de/LNI/Proceedings/Proceedings53/article3396.html Marc Kalkuhl Katharina Nöh Otmar Loffeld Wolfgang Wiechert High Precision Simulation of Near Earth Satellite Orbits for SAR-Applications. 228-235 https://doi.org/10.1007/978-3-540-24687-9_29 2004 conf/iccS/2004-2 International Conference on Computational Science db/conf/iccS/iccS2004-2.html#KalkuhlNLW04 Katharina Nöh Wolfgang Wiechert Parallel Solution of Cascaded ODE Systems Applied to 13C-Labeling Experiments. 594-597 https://doi.org/10.1007/978-3-540-24687-9_80 2004 conf/iccS/2004-2 International Conference on Computational Science db/conf/iccS/iccS2004-2.html#NohW04 Wolfgang Wiechert CSE without Math? A First Course in Modeling and Simulation. 1249-1256 https://doi.org/10.1007/978-3-540-25944-2_162 2004 conf/iccS/2004-4 International Conference on Computational Science db/conf/iccS/iccS2004-4.html#Wiechert04 Holger Nies Otmar Loffeld Stefan Knedlik Ulrich Gebhardt Wolfgang Wiechert A data fusion approach for distributed orbit estimation. 3736-3739 2004 IGARSS https://doi.org/10.1109/IGARSS.2004.1369934 conf/igarss/2004 db/conf/igarss/igarss2004.html#NiesLKGW04 Ermir Qeli Wolfgang Wiechert Bernd Freisleben Visualizing Time-Varying Matrices Using Multidimensional Scaling and Reorderable Matrices. 561-567 2004 conf/iv/2004 IV https://doi.org/10.1109/IV.2004.1320200 https://doi.ieeecomputersociety.org/10.1109/IV.2004.1320200 db/conf/iv/iv2004.html#QeliWF04

Wolfgang Wiechert The role of modeling in computational science education. 1363-1374 2003 19 Future Gener. Comput. Syst. 8 https://doi.org/10.1016/S0167-739X(03)00093-1 db/journals/fgcs/fgcs19.html#Wiechert03

Jochen Hurlebaus Arne Buchholz Wolfgang Alt Wolfgang Wiechert Ralf Takors MMT - A pathway modeling tool for data from rapid sampling experiments. 467-484 2002 2 Silico Biol. 4 http://content.iospress.com/articles/in-silico-biology/isb00065 http://www.bioinfo.de/isb/abstracts/02/0042.html db/journals/isb/isb2.html#HurlebausBAWT02

Marc Daniel Haunschild Bernd Freisleben Wolfgang Wiechert Ralf Takors Distributed Simulation of Metabolic Networks with Model Variants. 436-440 2002 conf/esm/2002 ESM db/conf/esm/esm2002.html#HaunschildFWT02 Wolfgang Wiechert Teaching Mathematical Modeling: Art or Science? 858-862 2002 conf/iccS/2002-3 International Conference on Computational Science (3) https://doi.org/10.1007/3-540-47789-6_89 db/conf/iccS/iccS2002-3.html#Wiechert02 Jochen Hurlebaus Wolfgang Wiechert Ralf Takors MMT - A Metabolic Modeling Tool for Metabolic Engineering. 178-182 2001 conf/gcb/2001 German Conference on Bioinformatics db/conf/gcb/gcb2001.html#HurlebausWT01 Nicole Isermann Wolfgang Wiechert Efficient Computer algebraic Methods to analyze carbon labeling experiments. 1998 conf/gcb/1998 German Conference on Bioinformatics db/conf/gcb/gcb1998.html#IsermannW98

Wolfgang Wiechert B. Joksch R. Wittig A. Hartbrich T. Höner Michael Möllney Object-oriented programming for the biosciences. 517-534 1995 11 Comput. Appl. Biosci. 5 db/journals/bioinformatics/bioinformatics11.html#WiechertJWHHM95 https://doi.org/10.1093/bioinformatics/11.5.517 https://www.wikidata.org/entity/Q40969994

Wolfgang Wiechert R. Wittig T. Höner M. Möllney C. Hausmann Probleme der Software-Entwicklung für die Steuerung und Auswertung biologischer Experimente. 157-168 1993 conf/biow/1993 Informatik in den Biowissenschaften db/conf/biow/biow1993.html#WiechertWHMH93 https://doi.org/10.1007/978-3-642-78072-1_16 Wolfgang Wiechert Interaktive Datenanalyse bei biotechnischen Prozessdaten. 1990 1-408 University of Bonn, Germany https://d-nb.info/910936528 https://d-nb.info/911023720 Wolfgang Alt A. Amankwah Charaf E. Azzouzi Benjamin Berkels Martin Beyß Andreas R. Brenner Arne Buchholz Tolga Dalman Tim Dörnemann Peter Droste Atya Elsheikh Joachim H. G. Ender Susann Engelmann Bernd Freisleben Ulrich Gebhardt Jens Henrik Göbbert Alexander Grünberger Frieder Hadlich Björn Hagemeier Ralf Hannemann-Tamás A. Hartbrich Marc Daniel Haunschild C. Hausmann Stefan Helfrich Laura Marie Helleckes Johannes Hemmerich T. Höner Jochen Hurlebaus S. Ige Nicole Isermann Johann F. Jadebeck B. Joksch Ernst Juhnke Marc Kalkuhl David Kerkmann C. Kirchner Jens Klare Stefan Knedlik Bernd W. Koenig Joachim Koepff Dietrich Kohlheyer Andreas Kolb 0001 Martin Joachim KühnMartin J. Kühn Kira Küsters Martin Lambers Eric von Lieres Michael Limberg Otmar Loffeld M. Shahbaz Memon Stephan Miebach Alexander Mitsos M. Möllney Michael Möllney Koba Natroshvili Sebastian Niedenführ Holger Nies Jochen Nießer Stephan Noack Katharina Nöh Marco Oldiges Amaya Medrano Ortiz Michael Osthege Julia Otten Richard D. Paul Sören Petersen Tobias Ploch Martina Pohl Christopher Probst Ermir Qeli Andreas Radek Morris Riedel Karina Ruzaeva Christian Carsten Sachs Johannes Seiffarth Matthew Smith 0001 Victoria Steffen Anton Stratmann Birgit Stute Ralf Takors Jana Tillack Aljoscha WahlSebastian Aljoscha Wahl Ingo Walterscheid Matthias Weiss Michael Weitzel Anna Wendler Helmut Wilden R. Wittig Henrik Zunker