Cao, C. G. L., Javot, B., Bhattarai, S., Bierig, K., Oreshnikov, I., Volchkov, V. V. Fiber-Optic Shape Sensing Using Neural Networks Operating on Multispecklegrams IEEE Sensors Journal, 24(17):27532-27540, September 2024 (article)

DOI [BibTex]

Bizeul, A., Schölkopf, B., Allen, C. A Probabilistic Model behind Self-Supervised Learning Transactions on Machine Learning Research, September 2024 (article) To be published

PDF [BibTex]

Chen*, W., Horwood*, J., Heo, J., Hernández-Lobato, J. M. Leveraging Task Structures for Improved Identifiability in Neural Network Representations Transactions on Machine Learning Research, August 2024, *equal contribution (article)

link (url) [BibTex]

Kladny, K., Kügelgen, J. V., Schölkopf, B., Muehlebach, M. Deep Backtracking Counterfactuals for Causally Compliant Explanations Transactions on Machine Learning Research, July 2024 (article)

arXiv link (url) [BibTex]

Schölkopf, B. Grundfragen der künstlichen Intelligenz astronomie - Das Magazin, 42, May 2024 (article)

link (url) [BibTex]

Zabel, S., Hennig, P., Nieselt, K. VIPurPCA: Visualizing and Propagating Uncertainty in Principal Component Analysis IEEE Transactions on Visualization and Computer Graphics, 30(4):2011-2022, April 2024 (article)

DOI [BibTex]

Rahaman, N., Weiss, M., Wüthrich, M., Bengio, Y., Li, E., Pal, C., Schölkopf, B. Language Models Can Reduce Asymmetry in Information Markets arXiv:2403.14443, March 2024, Published as: Redesigning Information Markets in the Era of Language Models, Conference on Language Modeling (COLM) (techreport)

link (url) [BibTex]

Ortu, F. Interpreting How Large Language Models Handle Facts and Counterfactuals through Mechanistic Interpretability University of Trieste, Italy, March 2024 (mastersthesis)

[BibTex]

Mancini, M., Naeem, M. F., Xian, Y., Akata, Z. Learning Graph Embeddings for Open World Compositional Zero-Shot Learning IEEE Transactions on Pattern Analysis and Machine Intelligence, 46(3):1545-1560, IEEE, New York, NY, March 2024 (article)

DOI [BibTex]

Visonà, G., Bouzigon, E., Demenais, F., Schweikert, G. Network propagation for GWAS analysis: a practical guide to leveraging molecular networks for disease gene discovery Briefings in Bioinformatics, 25(2), February 2024 (article)

DOI [BibTex]

Pals, M., Macke, J. H., Barak, O. Trained recurrent neural networks develop phase-locked limit cycles in a working memory task PLOS Computational Biology, 20(2), February 2024 (article)

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Peisen, F., Gerken, A., Dahm, I., Nikolaou, K., Eigentler, T., Amaral, T., Moltz, J. H., Othman, A. E., Gatidis, S. Pre-treatment 18F-FDG-PET/CT parameters as biomarkers for progression free survival, best overall response and overall survival in metastatic melanoma patients undergoing first-line immunotherapy PLOS ONE, 19(1), January 2024 (article)

DOI [BibTex]

Villar, S., Hogg, D. W., Yao, W., Kevrekidis, G. A., Schölkopf, B. Towards fully covariant machine learning Transactions on Machine Learning Research, January 2024 (article)

link (url) [BibTex]

Gebhard, T. D., Angerhausen, D., Konrad, B. S., Alei, E., Quanz, S. P., Schölkopf, B. Parameterizing pressure-temperature profiles of exoplanet atmospheres with neural networks Astronomy & Astrophysics, 681, 2024 (article)

DOI [BibTex]

Tsirtsis, S., Tabibian, B., Khajehnejad, M., Singla, A., Schölkopf, B., Gomez-Rodriguez, M. Optimal Decision Making Under Strategic Behavior Management Science, 2024, Published Online (article) In press

DOI [BibTex]

Mordig, M., Ratsch, G., Kahles, A. SimReadUntil for benchmarking selective sequencing algorithms on ONT devices Bioinformatics, 40, 2024 (article)

[BibTex]

Visonà, G., Spiller, L. M., Hahn, S., Hattingen, E., Vogl, T. J., Schweikert, G., Bankov, K., Demes, M., Reis, H., Wild, P., Zeiner, P. S., Acker, F., Sebastian, M., Wenger, K. J. Machine-Learning-Aided Prediction of Brain Metastases Development in Non-Small-Cell Lung Cancers Clinical lung cancer, 24(8):e311-e322, December 2023 (article)

DOI [BibTex]

Visonà, G., Duroux, D., Miranda, L., Sükei, E., Li, Y., Borgwardt, K., Oliver, C. Multimodal learning in clinical proteomics: enhancing antimicrobial resistance prediction models with chemical information Bioinformatics, 39(12), December 2023 (article)

DOI [BibTex]

Sakenyte, U. Denoising Representation Learning for Causal Discovery Université de Genèva, Switzerland, December 2023, external supervision (mastersthesis)

[BibTex]

Laumann, F., von Kügelgen, J., Park, J., Schölkopf, B., Barahona, M. Kernel-Based Independence Tests for Causal Structure Learning on Functional Data Entropy, 25(12), November 2023 (article)

DOI [BibTex]

Kerber, B., Hepp, T., Küstner, T., Gatidis, S. Deep learning-based age estimation from clinical Computed Tomography image data of the thorax and abdomen in the adult population PLOS ONE, 18(11), November 2023 (article)

DOI [BibTex]

Lei, A., Schölkopf, B., Posner, I. Variational Causal Dynamics: Discovering Modular World Models from Interventions Transactions on Machine Learning Research, November 2023 (article)

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Cao, X., Liu, W., Tsang, I. W. Data-Efficient Learning via Minimizing Hyperspherical Energy IEEE transactions on pattern analysis and machine intelligence, 45(11):13422-13437, November 2023 (article)

DOI [BibTex]

Feuerecker, B., Heimer, M. M., Geyer, T., Fabritius, M. P., Gu, S., Schachtner, B., Beyer, L., Ricke, J., Gatidis, S., Ingrisch, M., Cyran, C. C. Artificial Intelligence in Oncological Hybrid Imaging Nuklearmedizin, 62(5):296-305, October 2023 (article)

DOI [BibTex]

Hayoz, J., Cugno, G., Quanz, S. P., Patapis, P., Alei, E., Bonse, M. J., Dannert, F. A., Garvin, E. O., Gebhard, T. D., Konrad, B. S., Sartori, L. F. CROCODILE - Incorporating medium-resolution spectroscopy of close-in directly imaged exoplanets into atmospheric retrievals via cross-correlation Astronomy & Astrophysics, 678, October 2023 (article)

DOI [BibTex]

Hupkes, D., Giulianelli, M., Dankers, V., Artetxe, M., Elazar, Y., Pimentel, T., Christodoulopoulos, C., Lasri, K., Saphra, N., Sinclair, A., Ulmer, D., Schottmann, F., Batsuren, K., Sun, K., Sinha, K., Khalatbari, L., Ryskina, M., Frieske, R., Cotterell, R., Jin, Z. A taxonomy and review of generalization research in NLP Nature Machine Intelligence, 5(10):1161-1174, October 2023 (article)

DOI [BibTex]

Peisen, F., Gerken, A., Dahm, I., Nikolaou, K., Eigentler, T., Amaral, T., Moltz, J. H., Othman, A. E., Gatidis, S., Dondi, F. Can Whole-Body Baseline CT Radiomics Add Information to the Prediction of Best Response, Progression-Free Survival, and Overall Survival of Stage IV Melanoma Patients Receiving First-Line Targeted Therapy: A Retrospective Register Study Diagnostics (Basel), 13(20), October 2023 (article)

DOI [BibTex]

Kofler, A. Efficient Sampling from Differentiable Matrix Elements Technical University of Munich, Germany, September 2023 (mastersthesis)

[BibTex]

Ke*, N. R., Bilaniuk*, O., Goyal, A., Bauer, S., Larochelle, H., Schölkopf, B., Mozer, M. C., Pal, C., Bengio, Y. Neural Causal Structure Discovery from Interventions Transactions on Machine Learning Research, September 2023, *equal contribution (article)

link (url) [BibTex]

Malinverno, L., Barros, V., Ghisoni, F., Visonà, G., Kern, R., Nickel, P. J., Ventura, B. E., Šimić, I., Stryeck, S., Manni, F., Ferri, C., Jean-Quartier, C., Genga, L., Schweikert, G., Lovrić, M., Rosen-Zvi, M. A historical perspective of biomedical explainable AI research Patterns, 4(9), September 2023 (article)

DOI [BibTex]

Buchholz, S. Some Remarks on Identifiability of Independent Component Analysis in Restricted Function Classes Transactions on Machine Learning Research, September 2023 (article)

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Boelts, J., Harth, P., Gao, R., Udvary, D., Yáñez, F., Baum, D., Hege, H., Oberlaender, M., Macke, J. H. Simulation-based inference for efficient identification of generative models in computational connectomics PLOS Computational Biology, 19(9):1-28, September 2023 (article)

DOI [BibTex]

Hawkins-Hooker, A., Visonà, G., Narendra, T., Rojas-Carulla, M., Schölkopf, B., Schweikert, G. Getting personal with epigenetics: towards individual-specific epigenomic imputation with machine learning Nature Communications, 14(1), August 2023 (article)

DOI [BibTex]

Vaughan, S. R., Gebhard, T. D., Bott, K., Casewell, S. L., Cowan, N. B., Doelman, D. S., Kenworthy, M., Mazoyer, J., Millar-Blanchaer, M. A., Trees, V. J. H., Stam, D. M., Absil, O., Altinier, L., Baudoz, P., Belikov, R., Bidot, A., Birkby, J. L., Bonse, M. J., Brandl, B., Carlotti, A., Choquet, E., van Dam, D., Desai, N., Fogarty, K., Fowler, J., van Gorkom, K., Gutierrez, Y., Guyon, O., Haffert, S. Y., Herscovici-Schiller, O., Hours, A., Juanola-Parramon, R., Kleisioti, E., König, L., van Kooten, M., Krasteva, M., Laginja, I., Landman, R., Leboulleux, L., Mouillet, D., N’Diaye, M., Por, E. H., Pueyo, L., Snik, F. Chasing rainbows and ocean glints: Inner working angle constraints for the Habitable Worlds Observatory Monthly Notices of the Royal Astronomical Society, 524(4):5477-5485, August 2023 (article)

DOI [BibTex]

Bonse, M. J., Garvin, E. O., Gebhard, T. D., Dannert, F. A., Cantalloube, F., Cugno, G., Absil, O., Hayoz, J., Milli, J., Kasper, M., Quanz, S. P. Comparing Apples with Apples: Robust Detection Limits for Exoplanet High-contrast Imaging in the Presence of Non-Gaussian Noise The American Astronomical Society, 166(2), July 2023 (article)

DOI [BibTex]

Wellnitz, D., Kekić, A., Heiss, J., Gertz, M., Weidemüller, M., Spitz, A. A network approach to atomic spectra Journal of Physics: Complexity, 4(3), July 2023 (article)

DOI [BibTex]

Ortiz-Jimenez*, G., de Jorge*, P., Sanyal, A., Bibi, A., Dokania, P. K., Frossard, P., Rogez, G., Torr, P. Catastrophic overfitting can be induced with discriminative non-robust features Transactions on Machine Learning Research , July 2023, *equal contribution (article)

PDF Code link (url) [BibTex]

Wang, Q., Sanchez, F. R., McCarthy, R., Bulens, D. C., McGuinness, K., O’Connor, N., Wüthrich, M., Widmaier, F., Bauer, S., Redmond, S. J. Dexterous robotic manipulation using deep reinforcement learning and knowledge transfer for complex sparse reward-based tasks Expert Systems, 40(6), July 2023 (article)

link (url) DOI [BibTex]

Kekić, A., Dehning, J., Gresele, L., von Kügelgen, J., Priesemann, V., Schölkopf, B. Evaluating vaccine allocation strategies using simulation-assisted causal modeling Patterns, 4(6), June 2023 (article)

link (url) DOI [BibTex]

Katiyar, P., Schwenck, J., Frauenfeld, L., Divine, M. R., Agrawal, V., Kohlhofer, U., Gatidis, S., Kontermann, R., Königsrainer, A., Quintanilla-Martinez, L., la Fougère, C., Schölkopf, B., Pichler, B. J., Disselhorst, J. A. Quantification of intratumoural heterogeneity in mice and patients via machine-learning models trained on PET–MRI data Nature Biomedical Engineering, 7(8):1014-1027, June 2023 (article)

DOI [BibTex]

Badirli, S., Picard, C. J., Mohler, G., Richert, F., Akata, Z., Dundar, M. Classifying the unknown: Insect identification with deep hierarchical Bayesian learning Methods in Ecology and Evolution, 14(6):1515-1530, June 2023 (article)

DOI [BibTex]

Mineeva*, O., Danciu*, D., Schölkopf, B., Ley, R. E., Rätsch, G., Youngblut, N. D. ResMiCo: Increasing the quality of metagenome-assembled genomes with deep learning PLOS Computational Biology, 19(5), Public Library of Science, San Francisco, CA, May 2023, *equal contribution (article)

DOI [BibTex]

Gatidis, S., Kart, T., Fischer, M., Winzeck, S., Glocker, B., Bai, W., Bülow, R., Emmel, C., Friedrich, L., Kauczor, H., Keil, T., Kröncke, T., Mayer, P., Niendorf, T., Peters, A., Pischon, T., Schaarschmidt, B., Schmidt, B., Schulze, M., Umutle, L., Völzke, H., Küstner, T., Bamberg, F., Schölkopf, B., Rueckert, D. Better Together: Data Harmonization and Cross-StudAnalysis of Abdominal MRI Data From UK Biobank and the German National Cohort Investigative Radiology, 58(5):346-354, May 2023 (article)

DOI [BibTex]

Kanagawa, H., Jitkrittum, W., Mackey, L., Fukumizu, K., Gretton, A. A Kernel Stein Test for Comparing Latent Variable Models Journal of the Royal Statistical Society Series B: Statistical Methodology, 85(3):986-1011, May 2023 (article)

arXiv DOI [BibTex]

Blum, D., Hepp, T., Belov, V., Goya-Maldonado, R., la Fougère, C., Reimold, M. Estimating uncertainty in read-out patterns: Application to controls-based denoising and voxel-based morphometry patterns in neurodegenerative and neuropsychiatric diseases Human Brain Mapping, 44(7):2802-2814, May 2023 (article)

DOI [BibTex]

Kim, J., Singh, S., Vales, C., Keebler, E., Fisher, A. V., Thiessen, E. D. Staying and Returning dynamics of young children’s attention Developmental Science, 26(6), May 2023 (article)

DOI [BibTex]

Safavi, S., Panagiotaropoulos, T. I., Kapoor, V., Ramirez-Villegas, J. F., Logothetis, N., Besserve, M. Uncovering the Organization of Neural Circuits with Generalized Phase Locking Analysis PLOS Computational Biology, 19(4):45, Public Library of Science, April 2023 (article)

bioRxiv DOI Project Page [BibTex]

Reizinger, P., Sharma, Y., Bethge, M., Schölkopf, B., Huszár, F., Brendel, W. Jacobian-based Causal Discovery with Nonlinear ICA Transactions on Machine Learning Research, April 2023 (article)

link (url) [BibTex]

Schreiber*, J., Boix*, C., Lee, J. W., Li, H., Guan, Y., Chang, C., Chang, J., Hawkins-Hooker, A., Schölkopf, B., Schweikert, G., Carulla, M. R., Canakoglu, A., Guzzo, F., Nanni, L., Masseroli, M., Carman, M. J., Pinoli, P., Hong, C., Yip, K. Y., Spence, J. P., Batra, S. S., Song, Y. S., Mahony, S., Zhang, Z., Tan, W., Shen, Y., Sun, Y., Shi, M., Adrian, J., Sandstrom, R., Farrell, N., Halow, J., Lee, K., Jiang, L., Yang, X., Epstein, C., Strattan, J. S., Bernstein, B., Snyder, M., Kellis, M., Stafford, W., Kundaje, A., ENCODE Imputation Challenge Participants, The ENCODE Imputation Challenge: a critical assessment of methods for cross-cell type imputation of epigenomic profiles Genome Biology, 24, April 2023, *co‑first authors (article)

DOI [BibTex]

Wildberger, J., Dax, M., Green, S. R., Gair, J., Pürrer, M., Macke, J. H., Buonanno, A., Schölkopf, B. Adapting to noise distribution shifts in flow-based gravitational-wave inference Physical Review D, 107(8), April 2023 (article)

DOI [BibTex]