Skip to main content

Publications

featured publications

  • Histologic Cell Shape Descriptors for the Retinal Pigment Epithelium in Age-Related Macular Degeneration: A Comparison to Unaffected Eyes.

    Translational vision science & technology

    Authors: Leon von der Emde, Marc Vaisband, Jan Hasenauer, Leonie Bourauel, Katharina Bermond, Marlene Saßmannshausen, Rainer Heintzmann, Frank G Holz, Christine A Curcio, Kenneth R Sloan, Thomas Ach

  • Alveolar macrophages in early stage COPD show functional deviations with properties of impaired immune activation.

    Frontiers in immunology

    Authors: Kevin Baßler, Wataru Fujii, Theodore S Kapellos, Erika Dudkin, Nico Reusch, Ari Horne, Benedikt Reiz, Malte D Luecken, Collins Osei-Sarpong, Stefanie Warnat-Herresthal, Lorenzo Bonaguro, Jonas Schulte-Schrepping, Allon Wagner, Patrick Günther, Carmen Pizarro, Tina Schreiber, Rainer Knoll, Lisa Holsten, Charlotte Kröger, Elena De Domenico, Matthias Becker, Kristian Händler, Christian T Wohnhaas, Florian Baumgartner, Meike Köhler, Heidi Theis, Michael Kraut, Marc H Wadsworth, Travis K Hughes, Humberto J Ferreira, Emily Hinkley, Ines H Kaltheuner, Matthias Geyer, Christoph Thiele, Alex K Shalek, Andreas Feißt, Daniel Thomas, Henning Dickten, Marc Beyer, Patrick Baum, Nir Yosef, Anna C Aschenbrenner, Thomas Ulas, Jan Hasenauer, Fabian J Theis, Dirk Skowasch, Joachim L Schultze

  • BioSimulators: a central registry of simulation engines and services for recommending specific tools.

    Nucleic acids research

    Authors: Bilal Shaikh, Lucian P Smith, Dan Vasilescu, Gnaneswara Marupilla, Michael Wilson, Eran Agmon, Henry Agnew, Steven S Andrews, Azraf Anwar, Moritz E Beber, Frank T Bergmann, David Brooks, Lutz Brusch, Laurence Calzone, Kiri Choi, Joshua Cooper, John Detloff, Brian Drawert, Michel Dumontier, G Bard Ermentrout, James R Faeder, Andrew P Freiburger, Fabian Fröhlich, Akira Funahashi, Alan Garny, John H Gennari, Padraig Gleeson, Anne Goelzer, Zachary Haiman, Jan Hasenauer, Joseph L Hellerstein, Henning Hermjakob, Stefan Hoops, Jon C Ison, Diego Jahn, Henry V Jakubowski, Ryann Jordan, Matúš Kalaš, Matthias König, Wolfram Liebermeister, Rahuman S Malik Sheriff, Synchon Mandal, Robert McDougal, J Kyle Medley, Pedro Mendes, Robert Müller, Chris J Myers, Aurelien Naldi, Tung V N Nguyen, David P Nickerson, Brett G Olivier, Drashti Patoliya, Loïc Paulevé, Linda R Petzold, Ankita Priya, Anand K Rampadarath, Johann M Rohwer, Ali S Saglam, Dilawar Singh, Ankur Sinha, Jacky Snoep, Hugh Sorby, Ryan Spangler, Jörn Starruß, Payton J Thomas, David van Niekerk, Daniel Weindl, Fengkai Zhang, Anna Zhukova, Arthur P Goldberg, James C Schaff, Michael L Blinov, Herbert M Sauro, Ion I Moraru, Jonathan R Karr

  • Identifiability analysis for models of the translation kinetics after mRNA transfection.

    Journal of mathematical biology

    Authors: Susanne Pieschner, Jan Hasenauer, Christiane Fuchs

  • Combining gene expression analysis of gastric cancer cell lines and tumor specimens to identify biomarkers for anti-HER therapies-the role of HAS2, SHB and HBEGF.

    BMC cancer

    Authors: Karolin Ebert, Ivonne Haffner, Gwen Zwingenberger, Simone Keller, Elba Raimúndez, Robert Geffers, Ralph Wirtz, Elena Barbaria, Vanessa Hollerieth, Rouven Arnold, Axel Walch, Jan Hasenauer, Dieter Maier, Florian Lordick, Birgit Luber

  • Top publication

    A protocol for dynamic model calibration.

    Briefings in bioinformatics

    Authors: Alejandro F Villaverde, Dilan Pathirana, Fabian Fröhlich, Jan Hasenauer, Julio R Banga

  • Top publication

    Mini-batch optimization enables training of ODE models on large-scale datasets.

    Nature communications

    Authors: Paul Stapor, Leonard Schmiester, Christoph Wierling, Simon Merkt, Dilan Pathirana, Bodo M H Lange, Daniel Weindl, Jan Hasenauer

  • Efficient gradient-based parameter estimation for dynamic models using qualitative data.

    Bioinformatics (Oxford, England)

    Authors: Leonard Schmiester, Daniel Weindl, Jan Hasenauer

  • The mesoscale organization of syntaxin 1A and SNAP25 is determined by SNARE-SNARE interactions.

    eLife

    Authors: Jasmin Mertins, Jérôme Finke, Ricarda Sies, Kerstin M Rink, Jan Hasenauer, Thorsten Lang

  • SysMod: the ISCB community for data-driven computational modelling and multi-scale analysis of biological systems.

    Bioinformatics (Oxford, England)

    Authors: Andreas Dräger, Tomáš Helikar, Matteo Barberis, Marc Birtwistle, Laurence Calzone, Claudine Chaouiya, Jan Hasenauer, Jonathan R Karr, Anna Niarakis, María Rodríguez Martínez, Julio Saez-Rodriguez, Juilee Thakar