Automatic recognition of ligands in electron density by machine learning. - Marcin Kowiel; Dariusz Brzezinski; Przemyslaw J. Porebski; Ivan G. Shabalin; Mariusz Jaskolski; Wladek Minor (Bioinform., 2019)

Command Similarity Measurement Using NLP. - Zafar Hussain; Jukka K. Nurminen; Tommi Mikkonen; Marcin Kowiel (SLATE, 2021)

Recognizing and validating ligands with CheckMyBlob. - Dariusz Brzezinski; Przemyslaw J. Porebski; Marcin Kowiel; Joanna M. Macnar; Wladek Minor (Nucleic Acids Res., 2021)

Combining Rule-Based System and Machine Learning to Classify Semi-natural Language Data. - Zafar Hussain; Jukka K. Nurminen; Tommi Mikkonen; Marcin Kowiel (IntelliSys (1), 2022)

The CausalBench challenge: A machine learning contest for gene network inference from single-cell perturbation data. - Mathieu Chevalley; Jacob Sackett-Sanders; Yusuf H. Roohani; Pascal Notin; Artemy Bakulin; Dariusz Brzezinski; Kaiwen Deng; Yuanfang Guan; Justin Hong; Michael Ibrahim 003; Wojciech Kotlowski; Marcin Kowiel; et al. (CLeaR, 2025)