Publications

Michele Caprio, und Sayan Mukherjee. Ergodic Theorems for Dynamic Imprecise Probability Kinematics. 2022. [PUMA: imported] URL

Zhao Yang, René Algesheimer, und Claudio J. Tessone. A Comparative Analysis of Community Detection Algorithms on Artificial Networks. Scientific Reports, (6)1Springer Science and Business Media LLC, August 2016. [PUMA: imported] URL

Lennart Schäpermeier, und Pascal Kerschke. Reinvestigating the R2 Indicator: Achieving Pareto Compliance by Integration. 2024. [PUMA: imported] URL

David Schaller, Tom Hartmann, Manuel Lafond, Peter F. Stadler, Nicolas Wieseke, und Marc Hellmuth. Relative timing information and orthology in evolutionary scenarios. Algorithms for Molecular Biology, (18)1:16, November 2023. [PUMA: imported] URL

Lennart Schäpermeier, Christian Grimme, und Pascal Kerschke. Plotting Impossible? Surveying Visualization Methods for Continuous Multi-Objective Benchmark Problems. IEEE transactions on neural networks / a publication of the IEEE Neural Networks Council, (26):1306--1320, Oktober 2022. [PUMA: imported]

Grover E. C. Guzman, Peter F. Stadler, und Andre Fujita. Cavity approach for the approximation of spectral density of graphs with heterogeneous structures. Phys. Rev. E, (109)3:034303, American Physical Society, März 2024. [PUMA: imported] URL

Shreya Arya, Justin Curry, und Sayan Mukherjee. A Sheaf-Theoretic Construction of Shape Space. Foundations of Computational Mathematics, Mai 2024. [PUMA: imported]

Konstantin Dietrich, Diederick Vermetten, Carola Doerr, und Pascal Kerschke. Impact of Training Instance Selection on Automated Algorithm Selection Models for Numerical Black-box Optimization. 2024. [PUMA: imported] URL

Angel Garcia-Chung, Marisol Bermúdez-Montaña, Peter F. Stadler, Jürgen Jost, und Guillermo Restrepo. Chemically inspired Erd\Hos-Rényi oriented hypergraphs. 2023. [PUMA: imported] URL

Konstantin Dietrich, Raphael Patrick Prager, Carola Doerr, und Heike Trautmann. Hybridizing Target- and SHAP-encoded Features for Algorithm Selection in Mixed-variable Black-box Optimization. 2024. [PUMA: imported] URL

Youngsoo Baek, Wilkins Aquino, und Sayan Mukherjee. Generalized Bayes approach to inverse problems with model misspecification. Inverse Problems, (39)10:105011, IOP Publishing, September 2023. [PUMA: imported] URL

Luc\'ıa Gómez Álvarez, Sebastian Rudolph, und Hannes Straß. How to Agree to Disagree: Managing Ontological Perspectives using Standpoint Logic. In Ulrike Sattler, Aidan Hogan, Maria Keet, Valentina Presutti, João Paulo A. Almeida, Hideaki Takeda, Pierre Monnin, Giuseppe Pirrò, und Claudia d'Amato (Hrsg.), Proceedings of the 21st International Semantic Web Conference (ISWC 22), (13489)Springer, Oktober 2022. [PUMA: imported]

Shima Asaadi, Eugenie Giesbrecht, und Sebastian Rudolph. Compositional matrix-space models of language: Definitions, properties, and learning methods. Natural Language Engineering, (29)1:1--49, Cambridge University Press, Januar 2023. [PUMA: imported]

Luc\'ıa Gómez Álvarez, Sebastian Rudolph, und Hannes Straß. Tractable Diversity: Scalable Multiperspective Ontology Management via Standpoint EL. Proceedings of the 32nd International Joint Conference on Artificial Intelligence, IJCAI 2023, 3258--3267, ijcai.org, 2023. [PUMA: imported]

Brian St. Thomas, Kisung You, Lizhen Lin, Lek-Heng Lim, und Sayan Mukherjee. Learning Subspaces of Different Dimensions. Journal of Computational and Graphical Statistics, (31)2:337--350, ASA Website, 2022. [PUMA: imported] URL

S. Mehrdad, D. Handorf, I. Höschel, K. Karami, J. Quaas, S. Dipu, und C. Jacobi. Arctic Climate Response to European Radiative Forcing: A Deep Learning Approach. EGUsphere, (2024):1--55, 2024. [PUMA: imported] URL

Lukas Silvester Barth, Fatemeh, Fahimi, Parvaneh Joharinad, Jürgen Jost, und Janis Keck. IsUMap: Manifold Learning and Data Visualization leveraging Vietoris-Rips filtrations. 2024. [PUMA: imported] URL

Henry Kirveslahti, und Sayan Mukherjee. Representing fields without correspondences: the lifted Euler characteristic transform. Journal of Applied and Computational Topology, (8):1--34, August 2023. [PUMA: imported]

Florian Emmrich, Luc\'ıa Gómez Álvarez, und Hannes Straß. Automated Reasoning Support for Standpoint-OWL 2. In Sergio de Cesare, und Tiago Prince Sales (Hrsg.), Proceedings of th 13th International Conference on Formal Ontology in Information Systems (FOIS 2023), Ontology Showcase and Demonstrations Track, 2023. [PUMA: imported]

Mikael Vejdemo-Johansson, und Sayan Mukherjee. Multiple hypothesis testing with persistent homology. Foundations of Data Science, (4)4:667--705, 2022. [PUMA: Persistent_homology false_discovery_rate family-wise_error_rate hypothesis_testing multiple_hypothesis_control] URL

Maria C Novitasari, Johannes Quaas, und Miguel Rodrigues. Unleashing the Autoconversion Rates Forecasting: Evidential Regression from Satellite Data. NeurIPS 2023 Workshop on Tackling Climate Change with Machine Learning, 2023. [PUMA: imported] URL

Christoph Flamm, Stefan Müller, und Peter F. Stadler. Every atom-atom map can be explained by electron pushing diagrams. 2023. [PUMA: imported] URL

Yun Wei, Sayan Mukherjee, und XuanLong Nguyen. Minimum $\Phi$-distance estimators for finite mixing measures. April 2023. [PUMA: imported]

Michelle Pistner Nixon, Kyle C. McGovern, Jeffrey Letourneau, Lawrence A. David, Nicole A. Lazar, Sayan Mukherjee, und Justin D. Silverman. Scale Reliant Inference. 2024. [PUMA: imported] URL

Justin D. Silverman, Kimberly Roche, Zachary C. Holmes, Lawrence A. David, und Sayan Mukherjee. Bayesian Multinomial Logistic Normal Models through Marginally Latent Matrix-T Processes. Journal of Machine Learning Research, (23)7:1--42, 2022. [PUMA: imported] URL

Samuel I. Berchuck, Mark Janko, Felipe A. Medeiros, William Pan, und Sayan Mukherjee. Bayesian Non-Parametric Factor Analysis for Longitudinal Spatial Surfaces. 2019. [PUMA: imported] URL

Jonas Karge. Second-order Confidence in Supervaluationism. Journal for General Philosophy of Science, Springer, Juli 2023. [PUMA: imported]

Brandon Bennett, und Luc\'ıa Gómez Álvarez. Vagueness in Predicates and Objects. Proceedings of the 13th International Conference on Formal Ontology in Information Systems, FOIS 2023, 2023. [PUMA: imported]

Maria C Novitasari, Johannes Quaas, und Miguel Rodrigues. Leveraging Machine Learning to Predict the Autoconversion Rates from Satellite Data. NeurIPS 2021 Workshop on Tackling Climate Change with Machine Learning, 2021. [PUMA: imported] URL

Vanessa Volz, Boris Naujoks, Pascal Kerschke, und Tea Tušar. Tools for Landscape Analysis of Optimisation Problems in Procedural Content Generation for Games. Applied Soft Computing, (136):110121, 2023. [PUMA: Exploratory_Landscape_Analysis Mario_level_generation Optimisation Search-based_procedural_content_generation] URL

David Schaller, Marc Hellmuth, und Peter F. Stadler. Orientation of Fitch Graphs and Detection of Horizontal Gene Transfer in Gene Trees. 2021. [PUMA: imported] URL

Grover E C Guzman, Peter F Stadler, und André Fujita. Efficient eigenvalue counts for tree-like networks. Journal of Complex Networks, (10)5:cnac040, August 2022. [PUMA: imported] URL

Justin Curry, Sayan Mukherjee, und Katharine Turner. How Many Directions Determine a Shape and other Sufficiency Results for Two Topological Transforms. 2021. [PUMA: imported] URL

Nicola Vassena, und Peter F. Stadler. Unstable cores are the source of instability in chemical reaction networks. Proceedings of the Royal Society A: Mathematical, Physical and Engineering Sciences, (480)2285:20230694, 2024. [PUMA: imported] URL

Dörthe Arndt, und Stephan Mennicke. Notation3 as an Existential Rule Language. Rules and Reasoning - 7th International Joint Conference on Rules and Reasoning, RuleML+RR 2023, Proceedings, Springer, Oktober 2023. [PUMA: imported]

Francesco Di Giovanni, Lorenzo Giusti, Federico Barbero, Giulia Luise, Pietro Lio', und Michael Bronstein. On Over-Squashing in Message Passing Neural Networks: The Impact of Width, Depth, and Topology. 2023. [PUMA: imported] URL

Raphael Patrick Prager, Konstantin Dietrich, Lennart Schneider, Lennart Schäpermeier, Bernd Bischl, Pascal Kerschke, Heike Trautmann, und Olaf Mersmann. Neural Networks as Black-Box Benchmark Functions Optimized for Exploratory Landscape Features. FOGA 2023, 129--139, Association for Computing Machinery, United States, 30.08.2023. [PUMA: 2024_OA_procedure Benchmarking Black-box_continuous_optimization Exploratory_landscape_analysis Instance_generator Neural_networks] URL

Moritz Vinzent Seiler, Pascal Kerschke, und Heike Trautmann. Deep-ELA: Deep Exploratory Landscape Analysis with Self-Supervised Pretrained Transformers for Single- and Multi-Objective Continuous Optimization Problems. 2024. [PUMA: imported] URL

Parvaneh Joharinad, und Jürgen Jost. Geometry of Data. 2022. [PUMA: imported] URL

Jonathan Heins, Lennart Schäpermeier, Pascal Kerschke, und Darrell Whitley. Dancing to the State of the Art? How Candidate Lists Influence LKH for Solving the Traveling Salesperson Problem. 2024. [PUMA: imported] URL

Lukas Silvester Barth, Fatemeh, Fahimi, Parvaneh Joharinad, Jürgen Jost, Janis Keck, und Thomas Jan Mikhail. Fuzzy simplicial sets and their application to geometric data analysis. 2024. [PUMA: imported] URL

J. Lenhardt, J. Quaas, und D. Sejdinovic. Marine cloud base height retrieval from MODIS cloud properties using machine learning. Atmospheric Measurement Techniques, to appear, 2024. [PUMA: imported] URL

Kevin A Murgas, Yanlin Ma, Lidea K Shahidi, Sayan Mukherjee, Andrew S Allen, Darryl Shibata, und Marc D Ryser. A Bayesian hierarchical model to estimate DNA methylation conservation in colorectal tumors. Bioinformatics, (38)1:22--29, September 2021. [PUMA: imported] URL

Faiq Miftakhul Falakh, Sebastian Rudolph, und Kai Sauerwald. Semantic Characterizations of AGM Revision for Tarskian Logics. In Guido Governatori, und Anni-Yasmin Turhan (Hrsg.), Proceedings of the 6th International Joint Conference on Rules and Reasoning (RuleML+RR 2022), (13752):95--110, Springer, September 2022. [PUMA: imported]

Maurice Funk, Simon Hosemann, Jean Christoph Jung, und Carsten Lutz. Towards Ontology Construction with Language Models. 2023. [PUMA: imported] URL

Youngsoo Baek, Samuel Berchuck, und Sayan Mukherjee. Asymptotics of Bayesian Uncertainty Estimation in Random Features Regression. In A. Oh, T. Naumann, A. Globerson, K. Saenko, M. Hardt, und S. Levine (Hrsg.), Advances in Neural Information Processing Systems, (36):40140--40153, Curran Associates, Inc., 2023. [PUMA: imported] URL

Chien-Chun Ni, Yu-Yao Lin, Feng Luo, und Jie Gao. Community Detection on Networks with Ricci Flow. 2019. [PUMA: imported] URL

Johannes R. Björk, Mauna R. Dasari, Kim Roche, Laura Grieneisen, Trevor J. Gould, Jean Christophe Grenier, Vania Yotova, Neil Gottel, David Jansen, Laurence R. Gesquiere, Jacob B. Gordon, Niki H. Learn, Tim L. Wango, Raphael S. Mututua, J. Kinyua Warutere, Long’ida Siodi, Sayan Mukherjee, Luis B. Barreiro, Susan C. Alberts, Jack A. Gilbert, Jenny Tung, Ran Blekhman, und Elizabeth A. Archie. Synchrony and idiosyncrasy in the gut microbiome of wild baboons. Nature Ecology and Evolution, (6)7:955--964, Nature Publishing Group, Juli 2022. [PUMA: imported]

Christopher Klapproth, Siegfried Zöztsche, Felix Kühnl, Jörg Fallmann, Peter F. Stadler, und Sven Findeiß. Tailored machine learning models for functional RNA detection in genome-wide screens (Version 1). Zenodo, Juli 2023. [PUMA: imported]

Marc Hellmuth, Annachiara Korchmaros, José Antonio Ram\'ırez-Rafael, Bruno Schmidt, Peter F. Stadler, und Sandhya Thekkumpadan Puthiyaveedu. Partial Fitch Graphs: Characterization, Satisfiability and Complexity*. bioRxiv, Cold Spring Harbor Laboratory, 2024. [PUMA: imported] URL