Decoding the components of dynamics in three-domain proteins. - Mateusz Maciejewski; Paul N. Barlow; Nico Tjandra (J. Comput. Chem., 2014)

Experimental Design Strategy: Weak Reinforcement Leads to Increased Hit Rates and Enhanced Chemical Diversity. - Mateusz Maciejewski; Anne Mai Wassermann; Meir Glick; Eugen Lounkine (J. Chem. Inf. Model., 2015)

A branch hash function as a method of message synchronization in anonymous P2P conversations. - Anna Kobusinska; Jerzy Brzezinski; Michal Boron; Lukasz Inatlewski; Michal Jabczynski; Mateusz Maciejewski (Int. J. Appl. Math. Comput. Sci., 2016)

Public Domain HTS Fingerprints: Design and Evaluation of Compound Bioactivity Profiles from PubChem's Bioassay Repository. - Kazi Yasin Helal; Mateusz Maciejewski; Elisabet Gregori-Puigjané; Meir Glick; Anne Mai Wassermann (J. Chem. Inf. Model., 2016)

Multiple positive solutions of parabolic systems with nonlinear, nonlocal initial conditions. - Gennaro Infante; Mateusz Maciejewski (J. Lond. Math. Soc., 2016)

A probabilistic pathway score (PROPS) for classification with applications to inflammatory bowel disease. - Lichy Han; Mateusz Maciejewski; Christoph Brockel; William Gordon; Scott B. Snapper; Joshua R. Korzenik; Lovisa Afzelius; Russ B. Altman (Bioinform., 2018)

Standard machine learning approaches outperform deep representation learning on phenotype prediction from transcriptomics data. - Aaron M. Smith; Jonathan R. Walsh; John Long; Craig B. Davis; Peter Henstock; Martin R. Hodge; Mateusz Maciejewski; Xinmeng Jasmine Mu; Stephen Ra; Shanrong Zhao; Daniel Ziemek; Charles K. Fisher (BMC Bioinform., 2020)

Joint Denoising and Upscaling via Multi-branch and Multi-scale Feature Network. - Pawel Kazmierczyk; Sungye Kim; Wojciech Uss; Wojciech Kalinski; Tomasz Galaj; Mateusz Maciejewski; Rama Harihara (Proc. ACM Comput. Graph. Interact. Tech., 2025)