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Publications

Featured publications

  • Benchmarking of numerical integration methods for ODE models of biological systems.

    Scientific reports

    Authors: Philipp Städter, Yannik Schälte, Leonard Schmiester, Jan Hasenauer, Paul L Stapor

  • PEtab-Interoperable specification of parameter estimation problems in systems biology.

    PLoS computational biology

    Authors: Leonard Schmiester, Yannik Schälte, Frank T Bergmann, Tacio Camba, Erika Dudkin, Janine Egert, Fabian Fröhlich, Lara Fuhrmann, Adrian L Hauber, Svenja Kemmer, Polina Lakrisenko, Carolin Loos, Simon Merkt, Wolfgang Müller, Dilan Pathirana, Elba Raimúndez, Lukas Refisch, Marcus Rosenblatt, Paul L Stapor, Philipp Städter, Dantong Wang, Franz-Georg Wieland, Julio R Banga, Jens Timmer, Alejandro F Villaverde, Sven Sahle, Clemens Kreutz, Jan Hasenauer, Daniel Weindl

  • Closing the gap between formats for storing layout information in systems biology.

    Briefings in bioinformatics

    Authors: David Hoksza, Piotr Gawron, Marek Ostaszewski, Jan Hasenauer, Reinhard Schneider

  • AsthmaMap: An interactive knowledge repository for mechanisms of asthma.

    The Journal of allergy and clinical immunology

    Authors: Alexander Mazein, Olga Ivanova, Irina Balaur, Marek Ostaszewski, Valeriya Berzhitskaya, Tatiana Serebriyskaya, Thomas Ligon, Jan Hasenauer, Bertrand De Meulder, Rupert W Overall, Ludovic Roy, Richard G Knowles, Craig E Wheelock, Sven-Erik Dahlen, Kian Fan Chung, Ian M Adcock, Graham Roberts, Ratko Djukanovic, Johann Pellet, Piotr Gawron, Rudi Balling, Anke H Maitland-van der Zee, Reinhard Schneider, Peter J Sterk, Charles Auffray

  • Correction to: Determining the effects of trastuzumab, cetuximab and afatinib by phosphoprotein, gene expression and phenotypic analysis in gastric cancer cell lines.

    BMC cancer

    Authors: Karolin Ebert, Gwen Zwingenberger, Elena Barbaria, Simone Keller, Corinna Heck, Rouven Arnold, Vanessa Hollerieth, Julian Mattes, Robert Geffers, Elba Raimúndez, Jan Hasenauer, Birgit Luber

  • Determining the effects of trastuzumab, cetuximab and afatinib by phosphoprotein, gene expression and phenotypic analysis in gastric cancer cell lines.

    BMC cancer

    Authors: Karolin Ebert, Gwen Zwingenberger, Elena Barbaria, Simone Keller, Corinna Heck, Rouven Arnold, Vanessa Hollerieth, Julian Mattes, Robert Geffers, Elba Raimúndez, Jan Hasenauer, Birgit Luber

  • Parameterization of mechanistic models from qualitative data using an efficient optimal scaling approach.

    Journal of mathematical biology

    Authors: Leonard Schmiester, Daniel Weindl, Jan Hasenauer

  • Closing the gap between formats for storing layout information in systems biology.

    Briefings in bioinformatics

    Authors: David Hoksza, Piotr Gawron, Marek Ostaszewski, Jan Hasenauer, Reinhard Schneider

  • Efficient exact inference for dynamical systems with noisy measurements using sequential approximate Bayesian computation.

    Bioinformatics (Oxford, England)

    Authors: Yannik Schälte, Jan Hasenauer

  • COVID-19 Disease Map, building a computational repository of SARS-CoV-2 virus-host interaction mechanisms.

    Scientific data

    Authors: Marek Ostaszewski, Alexander Mazein, Marc E Gillespie, Inna Kuperstein, Anna Niarakis, Henning Hermjakob, Alexander R Pico, Egon L Willighagen, Chris T Evelo, Jan Hasenauer, Falk Schreiber, Andreas Dräger, Emek Demir, Olaf Wolkenhauer, Laura I Furlong, Emmanuel Barillot, Joaquin Dopazo, Aurelio Orta-Resendiz, Francesco Messina, Alfonso Valencia, Akira Funahashi, Hiroaki Kitano, Charles Auffray, Rudi Balling, Reinhard Schneider