Publications

Ensieh Aliagha, Najdet Charaf, Nitin Krishna Venkatesan, and Diana Göhringer. DA-CGRA: Domain-Aware Heterogeneous Coarse-Grained Reconfigurable Architecture for the Edge. 2024 27th Euromicro Conference on Digital System Design (DSD), 410-417, August 2024. [PUMA: imported xack]

Melissa Sanabria, Jonas Hirsch, and Anna R. Poetsch. Distinguishing word identity and sequence context in DNA language models. BMC Bioinformatics, (25)1:301, Sep 13, 2024. [PUMA: imported xack] URL

Jiaxin Huang, Bernhard Vogginger, Florian Kelber, Hector Gonzalez, Klaus Knobloch, and Christian Georg Mayr. Fast Switching Serial and Parallel Paradigms of SNN Inference on Multi-core Heterogeneous Neuromorphic Platform SpiNNaker2. 2024. [PUMA: imported xack] URL

Lukas Gerlach, David Carral, and Markus Hecher. Finite Groundings for ASP with Functions: A Journey through Consistency. 2024. [PUMA: imported xack] URL

Brinda Vallat, Benjamin M. Webb, John D. Westbrook, Thomas D. Goddard, Christian A. Hanke, Andrea Graziadei, Ezra Peisach, Arthur Zalevsky, Jared Sagendorf, Hongsuda Tangmunarunkit, Serban Voinea, Monica Sekharan, Jian Yu, Alexander A.M.J.J. Bonvin, Frank DiMaio, Gerhard Hummer, Jens Meiler, Emad Tajkhorshid, Thomas E. Ferrin, Catherine L. Lawson, Alexander Leitner, Juri Rappsilber, Claus A.M. Seidel, Cy M. Jeffries, Stephen K. Burley, Jeffrey C. Hoch, Genji Kurisu, Kyle Morris, Ardan Patwardhan, Sameer Velankar, Torsten Schwede, Jill Trewhella, Carl Kesselman, Helen M. Berman, and Andrej Sali. IHMCIF: An Extension of the PDBx/mmCIF Data Standard for Integrative Structure Determination Methods. Journal of Molecular Biology, 168546, March 2024. [PUMA: imported xack] URL

Nico Domschke, Bruno Schmidt, Thomas Gatter, Richard Golnik, Paul Eisenhuth, Fabian Liessmann, Jens Meiler, and Peter F Stadler. Crossover Operators for Molecular Graphs with an Application to Virtual Drug Screening. American Chemical Society (ACS), September 2024. [PUMA: Crossover Drug Molecular Operators Screening Virtual yaff xack graphs] URL

Marcos E González Laffitte, Klaus Weinbauer, Tieu-Long Phan, Nora Beier, Nico Domschke, Christoph Flamm, Thomas Gatter, Daniel Merkle, and Peter F Stadler. Partial Imaginary Transition State (ITS) Graphs: A Formal Framework for Research and Analysis of Atom-to-Atom Maps of Unbalanced Chemical Reactions and Their Completions. Symmetry, 9:1217, Multidisciplinary Digital Publishing Institute, 2024. [PUMA: RYaff imported xack]

Ameera Vaheeda Shanavas, Manoj Changat, and Peter F Stadler. On the Cut-Vertex and the Interval Transit Functions of Hypergraphs. Graphs and Combinatorics, (41)1:1--26, Springer, 2025. [PUMA: imported xack] URL

Iuliia Ozerova, Jörg Fallmann, Mario Mörl, Matthias Bernt, Sonja J Prohaska, and Peter F Stadler. Aberrant Mitochondrial tRNA Genes Appear Frequently in Animal Evolution. In Selene Fernandez-Valverde (Eds.), Genome Biology and Evolution, (16)11Oxford University Press (OUP), October 2024. [PUMA: Aberrant Animal Appear Evolution Frequently Genes Mitochondrial tRNA xack] URL

Stefan Müller, Christoph Flamm, and Peter F. Stadler. What makes a reaction network “chemical”?. Journal of Cheminformatics, (14)1Springer Science and Business Media LLC, September 2022. [PUMA: network reaction xack] URL

Zachary P Adams, and Sayan Mukherjee. Meta-Posterior Consistency for the Bayesian Inference of Metastable System. 2024. [PUMA: Bayesian_Inference Consistency Meta-Posterior Metastable_System imported xack] URL

Alex Ivliev, Lukas Gerlach, Simon Meusel, Jakob Steinberg, and Markus Krötzsch. Nemo: A Scalable and Versatile Datalog Engine. In Mario Alviano, and Matthias Lanzinger (Eds.), Proceedings of the 5th International Workshop on the Resurgence of Datalog in Academia and Industry (Datalog-2.0 2024), (3801):43-47, CEUR-WS.org, November 2024. [PUMA: Datalog_Engine Nemo Scalable Versatile imported xack]

Maja Schneider, Erik Buchmann, and Erhardt Rahm. Distributed, Privacy-Aware Location Data Aggregation. 2024 IEEE 6th International Conference on Trust, Privacy and Security in Intelligent Systems, and Applications (TPS-ISA), 31–40, 2024. [PUMA: Aggregation Distributed Location Privacy-Aware data xack] URL

Erik Daniel, and Florian Tschorsch. Poster: On Integrating Sphinx in IPFS. Proceedings of the 2024 ACM on Internet Measurement Conference, 753–754, Association for Computing Machinery, New York, NY, USA, Nov 4, 2024. [PUMA: imported xack] URL

Ali Al-Fatlawi, Md. Ballal Hossen, Ferras El-Hendi, and Michael Schroeder. Protein secondary structure and remote homology detection. bioRxiv, Cold Spring Harbor Laboratory, 2024. [PUMA: imported xack] URL

Trina De, Vardan Andriasyan, and Artur Yakimovich. PyPlaque: an Open-source Python Package for Phenotypic Analysis of Virus Plaque Assays. bioRxiv, Cold Spring Harbor Laboratory, 2024. [PUMA: imported xack] URL

Daniil Kosakin, Sergei Obiedkov, Ivan Smirnov, Ekaterina Rakhilina, Anastasia Vyrenkova, and Ekaterina Zalivina. Russian Learner Corpus: Towards Error-Cause Annotation for L2 Russian. In Nicoletta Calzolari, Min-Yen Kan, Veronique Hoste, Alessandro Lenci, Sakriani Sakti, and Nianwen Xue (Eds.), Proceedings of the 2024 Joint International Conference on Computational Linguistics, Language Resources and Evaluation (LREC-COLING 2024), 14240--14258, ELRA and ICCL, Torino, Italia, May 2024. [PUMA: imported xack] URL

Quentin Manière, and Marcin Przybylko. Spectra of Cardinality Queries over Description Logic Knowledge Bases (Extended Abstract). In Laura Giordano, Jean Christoph Jung, and Ana Ozaki (Eds.), Proceedings of the 37th International Workshop on Description Logics (DL 2024), Bergen, Norway, June 18-21, 2024, (3739)CEUR-WS.org, 2024. [PUMA: imported xack] URL

Lorenzo Titone, Nikola Milosevic, and Lars Meyer. The ARC Toolbox: Artificial Languages with Rhythmicity Control. bioRxiv, Cold Spring Harbor Laboratory, 2024. [PUMA: imported xack] URL

Ali Al-Fatlawi, Md. Ballal Hossen, Stella de Paula Lopes, A. Francis Stewart, and Michael Schroeder. The Rad52 superfamily as seen by AlphaFold. bioRxiv, Cold Spring Harbor Laboratory, 2024. [PUMA: imported xack] URL