Publications

Arthur Fleig, Florian Fischer, Markus Klar, Patrick Ebel, Miroslav Bachinski, Per Ola Kristensson, Roderick Murray-Smith, and Antti Oulasvirta. Mind & Motion: Opportunities and Applications of Integrating Biomechanics and Cognitive Models in HCI. In Andrea Bianchi, Elena Glassman, Wendy E. Mackay, Shengdong Zhao, Jeeeun Kim, and Ian Oakley (Eds.), Adjunct Proceedings of the 38th Annual ACM Symposium on User Interface Software and Technology, Association for Computing Machinery, New York, NY, USA, 2025. [PUMA: Biomechanical Cognitive Human-Computer Interaction Modeling Simulation User Workshop myown yaff] URL

Arthur Fleig, Florian Fischer, Markus Klar, Patrick Ebel, Miroslav Bachinski, Per Ola Kristensson, Roderick Murray-Smith, and Antti Oulasvirta. Mind & Motion: Opportunities and Applications of Integrating Biomechanics and Cognitive Models in HCI. In Andrea Bianchi, Elena Glassman, Wendy E. Mackay, Shengdong Zhao, Jeeeun Kim, and Ian Oakley (Eds.), Adjunct Proceedings of the 38th Annual ACM Symposium on User Interface Software and Technology, Association for Computing Machinery, New York, NY, USA, 2025. [PUMA: Biomechanical Cognitive Human-Computer Interaction Modeling Simulation User Workshop myown] URL

Tina Schermeng, Fabian Liessmann, Carla Katharina Ambrosius, Jens Meiler, and Annette G. Beck-Sickinger. Binding Mode of Cyclic Chemerin-9 Peptide and ChemerinS157 Protein at CMKLR1. ChemBioChem, (26)1:e202400695, 2025. [PUMA: CMKLR1 Chemerin Computational_Protein Receptor modeling xack yaff] URL

Gustau Camps-Valls, Miguel-Ángel Fernández-Torres, Kai-Hendrik Cohrs, Adrian Höhl, Andrea Castelletti, Aytac Pacal, Claire Robin, Francesco Martinuzzi, Ioannis Papoutsis, Ioannis Prapas, Jorge Pérez-Aracil, Katja Weigel, Maria Gonzalez-Calabuig, Markus Reichstein, Martin Rabel, Matteo Giuliani, Miguel Mahecha, Oana-Iuliana Popescu, Oscar J Pellicer-Valero, Said Ouala, Sancho Salcedo-Sanz, Sebastian Sippel, Spyros Kondylatos, Tamara Happé, and Tristan Williams. AI for Extreme Event Modeling and Understanding: Methodologies and Challenges. 2024. [PUMA: event extreme modeling yaff]

Hope Woods, Dominic L Schiano, Jonathan I Aguirre, Kaitlyn V Ledwitch, Eli F McDonald, Markus Voehler, Jens Meiler, and Clara T Schoeder. Computational modeling and prediction of deletion mutants. Structure, (31)6:713--723.e3, Elsevier BV, June 2023. [PUMA: AlphaFold Deletion Modeling NMR Rosetta SAM domain indel mutation zno]

Oliver Kirsten, Martin Bogdan, and Sophie Adama. Evaluating the DoC-Forest tool for Classifying the State of Consciousness in a Completely Locked-In Syndrome Patient. 2023 7th International Conference on Imaging, Signal Processing and Communications (ICISPC), 37-41, 2023. [PUMA: Complexity Computational Consciousness Information Locked-In Measures Modeling Neuroscience Prediction Predictive Processing Signal Syndrome Theory Training algorithms and data learning modeling models processing zno machine]

Suryanarayana Maddu, Dominik Sturm, Bevan L. Cheeseman, Christian L. Müller, and Ivo F. Sbalzarini. Learning computable models from data. 1--6, 2021. [PUMA: Differential ENO-WENO FIS_scads Surrogate modeling networks neural operators yaff]

Eli Fritz McDonald, Hope Woods, Shannon T Smith, Minsoo Kim, Clara T Schoeder, Lars Plate, and Jens Meiler. Structural comparative modeling of multi-domain F508del CFTR. Biomolecules, (12)3:471, MDPI AG, March 2022. [PUMA: VX-809 chaperones comparative computational cystic discovery disease drug fibrosis folding modeling pharmacological protein structure-based topic_lifescience zno]

Davide Sala, Diego Del Alamo, Hassane S Mchaourab, and Jens Meiler. Modeling of protein conformational changes with Rosetta guided by limited experimental data. Structure, (30)8:1157--1168.e3, Elsevier BV, August 2022. [PUMA: EPR Rosetta biology changes conformational dynamics integrative modeling molecular protein refinement spectroscopy structural structure topic_lifescience zno]

Pranav Kodali, Clara T Schoeder, Samuel Schmitz, James E Crowe, Jr, and Jens Meiler. RosettaCM for antibodies with very long HCDR3s and low template availability. Proteins, (89)11:1458--1472, Wiley, November 2021. [PUMA: Rosetta antibody benchmark homology loop modeling prediction structure topic_lifescience zno]

Alina Mailach, and Norbert Siegmund. Socio-Technical Anti-Patterns in Building ML-Enabled Software: Insights from Leaders on the Forefront. 2023 IEEE/ACM 45th International Conference on Software Engineering (ICSE), 690--702, IEEE, May 2023. [PUMA: Biological Economics Manuals Pipelines Production Software learning machine modeling system systems topic_software xack yaff]

Fabian Liessmann, Georg Künze, and Jens Meiler. Improving the modeling of extracellular ligand binding pockets in RosettaGPCR for conformational selection. Int. J. Mol. Sci., (24)9April 2023. [PUMA: Rosetta RosettaGPCR discovery docking drug homology ligand modeling pocket refinement topic_lifescience xack yaff]