| Hopfield networks is all you need H Ramsauer, B Schäfl, J Lehner, P Seidl, M Widrich, T Adler, L Gruber, ... arXiv preprint arXiv:2008.02217, 2020 | 423 | 2020 |
| A compact vocabulary of paratope-epitope interactions enables predictability of antibody-antigen binding R Akbar, PA Robert, M Pavlović, JR Jeliazkov, I Snapkov, A Slabodkin, ... Cell Reports 34 (11), 2021 | 150 | 2021 |
| Modern hopfield networks and attention for immune repertoire classification M Widrich, B Schäfl, M Pavlović, H Ramsauer, L Gruber, M Holzleitner, ... Advances in neural information processing systems 33, 18832-18845, 2020 | 125* | 2020 |
| In silico proof of principle of machine learning-based antibody design at unconstrained scale R Akbar, PA Robert, CR Weber, M Widrich, R Frank, M Pavlović, ... MAbs 14 (1), 2031482, 2022 | 84 | 2022 |
| Augmenting adaptive immunity: progress and challenges in the quantitative engineering and analysis of adaptive immune receptor repertoires AJ Brown, I Snapkov, R Akbar, M Pavlović, E Miho, GK Sandve, V Greiff Molecular Systems Design & Engineering 4 (4), 701-736, 2019 | 65 | 2019 |
| immuneSIM: tunable multi-feature simulation of B-and T-cell receptor repertoires for immunoinformatics benchmarking CR Weber, R Akbar, A Yermanos, M Pavlović, I Snapkov, GK Sandve, ... Bioinformatics 36 (11), 3594-3596, 2020 | 63 | 2020 |
| The immuneML ecosystem for machine learning analysis of adaptive immune receptor repertoires M Pavlović, L Scheffer, K Motwani, C Kanduri, R Kompova, N Vazov, ... Nature Machine Intelligence 3, 936–944, 2021 | 59 | 2021 |
| Unconstrained generation of synthetic antibody–antigen structures to guide machine learning methodology for antibody specificity prediction PA Robert, R Akbar, R Frank, M Pavlović, M Widrich, I Snapkov, ... Nature Computational Science 2 (12), 845-865, 2022 | 53* | 2022 |
| The future of blood testing is the immunome RA Arnaout, ETL Prak, N Schwab, F Rubelt, ... Frontiers in Immunology 12, 626793, 2021 | 31 | 2021 |
| Individualized VDJ recombination predisposes the available Ig sequence space A Slabodkin, M Chernigovskaya, I Mikocziova, R Akbar, L Scheffer, ... Genome Research 31 (12), 2209-2224, 2021 | 30 | 2021 |
| Profiling the baseline performance and limits of machine learning models for adaptive immune receptor repertoire classification C Kanduri, M Pavlović, L Scheffer, K Motwani, M Chernigovskaya, V Greiff, ... GigaScience 11, giac046, 2022 | 23 | 2022 |
| T cell receptor repertoire as a potential diagnostic marker for celiac disease Y Yao, A Zia, RS Neumann, M Pavlovic, G Balaban, KEA Lundin, ... Clinical Immunology 222, 108621, 2021 | 16 | 2021 |
| Improving generalization of machine learning-identified biomarkers using causal modelling with examples from immune receptor diagnostics M Pavlović, GS Al Hajj, C Kanduri, J Pensar, ME Wood, LM Sollid, V Greiff, ... Nature Machine Intelligence 6 (1), 15-24, 2024 | 5* | 2024 |
| Artificial intelligence-driven prediction of COVID-19-related hospitalization and death: a systematic review S Shakibfar, F Nyberg, H Li, J Zhao, HME Nordeng, GKF Sandve, ... Frontiers in Public Health 11, 1183725, 2023 | 5 | 2023 |
| BioNumPy: Fast and easy analysis of biological data with Python K Rand, I Grytten, M Pavlovic, C Kanduri, GK Sandve BioRxiv, 2022.12. 21.521373, 2022 | 3 | 2022 |
| simAIRR: simulation of adaptive immune repertoires with realistic receptor sequence sharing for benchmarking of immune state prediction methods C Kanduri, L Scheffer, M Pavlović, KD Rand, M Chernigovskaya, ... GigaScience 12, giad074, 2023 | 2 | 2023 |
| Using causal modeling to analyze generalization of biomarkers in high-dimensional domains: a case study of adaptive immune repertoires M Pavlovic, GS Al Hajj, V Greiff, J Pensar, GK Sandve ICML 2022: Workshop on Spurious Correlations, Invariance and Stability, 2022 | 2 | 2022 |
| Simulation of adaptive immune receptors and repertoires with complex immune information to guide the development and benchmarking of AIRR machine learning M Chernigovskaya, M Pavlović, C Kanduri, S Gielis, PA Robert, L Scheffer, ... bioRxiv, 2023.10. 20.562936, 2023 | 1 | 2023 |
| Machine learning-driven development of a disease risk score for COVID-19 hospitalization and mortality: a Swedish and Norwegian register-based study S Shakibfar, J Zhao, H Li, H Nordeng, A Lupattelli, M Pavlovic, GK Sandve, ... Frontiers in Public Health 11, 1258840, 2023 | | 2023 |
| A compact vocabulary of paratope-epitope interactions enables predictability of antibody-antigen binding E Miho, R Akbar, M Pavlovic, I Snapkov, A Slabodkin, L Scheffer, IH Haff, ... Cell Reports, 2021 | | 2021 |
