DataFoundry: information management for scientific data. - Terence Critchlow; Krzysztof Fidelis; Madhavan Ganesh; Ron Musick; Tom Slezak (IEEE Trans. Inf. Technol. Biomed., 2000)

Fold Recognition Using Sequence Fingerprints of Protein Local Substructures. - Andriy Kryshtafovych; Torgeir R. Hvidsten; Henryk Jan Komorowski; Krzysztof Fidelis (CSB, 2003)

A rule-based framework for gene regulation pathways discovery. - Bartosz Wilczynski; Torgeir R. Hvidsten; Andriy Kryshtafovych; Lisa Stubbs; Henryk Jan Komorowski; Krzysztof Fidelis (CSB, 2003)

A novel approach to fold recognition using sequence-derived properties from sets of structurally similar local fragments of proteins. - Torgeir R. Hvidsten; Andriy Kryshtafovych; Henryk Jan Komorowski; Krzysztof Fidelis (Bioinform., 2004)

Introducing Dependencies into Alignment Analysis and Its Use for Local Structure Prediction in Proteins. - Szymon Nowakowski; Krzysztof Fidelis; Jerzy Tiuryn (PPAM, 2005)

Using local gene expression similarities to discover regulatory binding site modules. - Bartek Wilczynski; Torgeir R. Hvidsten; Andriy Kryshtafovych; Jerzy Tiuryn; Henryk Jan Komorowski; Krzysztof Fidelis (BMC Bioinform., 2006)

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)

Preliminary statistical analysis of amino acid sequence embeddings of proteins. - Krzysztof Fidelis; Mykhailo Luchkevych; Yaroslav Teplyi (MoMLeT, 2024)