Modern Hopfield Networks and Attention for Immune Repertoire Classification. - Michael Widrich; Bernhard Schäfl; Milena Pavlovic; Hubert Ramsauer; Lukas Gruber; Markus Holzleitner; Johannes Brandstetter; Geir Kjetil Sandve; Victor Greiff; Sepp Hochreiter; Günter Klambauer (NeurIPS, 2020)

immuneSIM: tunable multi-feature simulation of B- and T-cell receptor repertoires for immunoinformatics benchmarking. - Cédric R. Weber; Rahmad Akbar; Alexander Yermanos; Milena Pavlovic; Igor Snapkov; Geir Kjetil Sandve; Sai T. Reddy; Victor Greiff (Bioinform., 2020)

Hopfield Networks is All You Need. - Hubert Ramsauer; Bernhard Schäfl; Johannes Lehner; Philipp Seidl; Michael Widrich; Lukas Gruber; Markus Holzleitner; Milena Pavlovic; Geir Kjetil Sandve; Victor Greiff; David P. Kreil; Michael Kopp 001; et al. (CoRR, 2020)

The immuneML ecosystem for machine learning analysis of adaptive immune receptor repertoires. - Milena Pavlovic; Lonneke Scheffer; Keshav Motwani; Chakravarthi Kanduri; Radmila Kompova; Nikolay Vazov; Knut Waagan; Fabian L. M. Bernal; Alexandre Almeida Costa; Brian Corrie; Rahmad Akbar; Ghadi S. Al Hajj; et al. (Nat. Mach. Intell., 2021)

Improving generalization of machine learning-identified biomarkers with causal modeling: an investigation into immune receptor diagnostics. - Milena Pavlovic; Ghadi S. Al Hajj; Johan Pensar; Mollie Wood; Ludvig Magne Sollid; Victor Greiff; Geir Kjetil Sandve (CoRR, 2022)

Unconstrained generation of synthetic antibody-antigen structures to guide machine learning methodology for antibody specificity prediction. - Philippe A. Robert; Rahmad Akbar; Robert Frank 006; Milena Pavlovic; Michael Widrich; Igor Snapkov; Andrei Slabodkin; Maria Chernigovskaya; Lonneke Scheffer; Eva Smorodina; Puneet Rawat; Brij Bhushan Mehta; et al. (Nat. Comput. Sci., 2022)

Incorporating probabilistic domain knowledge into deep multiple instance learning. - Ghadi S. Al Hajj; Aliaksandr Hubin; Chakravarthi Kanduri; Milena Pavlovic; Knut Dagestad Rand; Michael Widrich; Anne H. Schistad Solberg; Victor Greiff; Johan Pensar; Günter Klambauer; Geir Kjetil Sandve (ICML, 2024)

Predictability of antigen binding based on short motifs in the antibody CDRH3. - Lonneke Scheffer; Eric Emanuel Reber; Brij Bhushan Mehta; Milena Pavlovic; Maria Chernigovskaya; Eve Richardson; Rahmad Akbar; Fridtjof Lund-Johansen; Victor Greiff; Ingrid Hobæk Haff; Geir Kjetil Sandve (Briefings Bioinform., 2024)

Improving generalization of machine learning-identified biomarkers using causal modelling with examples from immune receptor diagnostics. - Milena Pavlovic; Ghadi S. Al Hajj; Chakravarthi Kanduri; Johan Pensar; Mollie Wood; Ludvig Magne Sollid; Victor Greiff; Geir Kjetil Sandve (Nat. Mac. Intell., 2024)