Interaction Model Based on Local Protein Substructures Generalizes to the Entire Structural Enzyme-Ligand Space. - Helena Strömbergsson; Pawel Daniluk; Andriy Kryshtafovych; Krzysztof Fidelis; Jarl E. S. Wikberg; Gerard J. Kleywegt; Torgeir R. Hvidsten (J. Chem. Inf. Model., 2008)

Using multi-data hidden Markov models trained on local neighborhoods of protein structure to predict residue-residue contacts. - Patrik Björkholm; Pawel Daniluk; Andriy Kryshtafovych; Krzysztof Fidelis; Robin Andersson; Torgeir R. Hvidsten (Bioinform., 2009)

A novel method to compare protein structures using local descriptors. - Pawel Daniluk; Bogdan Lesyng (BMC Bioinform., 2011)

ResiCon: a method for the identification of dynamic domains, hinges and interfacial regions in proteins. - Maciej Dziubinski; Pawel Daniluk; Bogdan Lesyng (Bioinform., 2016)

Implementation of a maximum clique search procedure on CUDA. - Pawel Daniluk; Grzegorz Firlik; Bogdan Lesyng (J. Heuristics, 2019)

DAMA: a method for computing multiple alignments of protein structures using local structure descriptors. - Pawel Daniluk; Tymoteusz Oleniecki; Bogdan Lesyng (Bioinform., 2021)

Short-Term Memory Convolutions. - Grzegorz Stefanski; Krzysztof Arendt; Pawel Daniluk; Bartlomiej Jasik; Artur Szumaczuk (ICLR, 2023)

SOI: Scaling Down Computational Complexity by Estimating Partial States of the Model. - Grzegorz Stefanski; Pawel Daniluk; Artur Szumaczuk; Jakub Tkaczuk (NeurIPS, 2024)