LassoProt: server to analyze biopolymers with lassos. - Pawel Dabrowski-Tumanski; Wanda Niemyska; Pawel Pasznik; Joanna I. Sulkowska (Nucleic Acids Res., 2016)

PyLasso: a PyMOL plugin to identify lassos. - Aleksandra Maria Gierut; Wanda Niemyska; Pawel Dabrowski-Tumanski; Piotr Sulkowski; Joanna I. Sulkowska (Bioinform., 2017)

LinkProt: a database collecting information about biological links. - Pawel Dabrowski-Tumanski; Aleksandra I. Jarmolinska; Wanda Niemyska; Eric J. Rawdon; Kenneth C. Millett; Joanna I. Sulkowska (Nucleic Acids Res., 2017)

GapRepairer: a server to model a structural gap and validate it using topological analysis. - Aleksandra I. Jarmolinska; Michal Kadlof; Pawel Dabrowski-Tumanski; Joanna I. Sulkowska (Bioinform., 2018)

The exclusive effects of chaperonin on the behavior of proteins with 52 knot. - Yani Zhao; Pawel Dabrowski-Tumanski; Szymon Niewieczerzal; Joanna I. Sulkowska (PLoS Comput. Biol., 2018)

PyLink: a PyMOL plugin to identify links. - Aleksandra Maria Gierut; Pawel Dabrowski-Tumanski; Wanda Niemyska; Kenneth C. Millett; Joanna I. Sulkowska (Bioinform., 2019)

KnotProt 2.0: a database of proteins with knots and other entangled structures. - Pawel Dabrowski-Tumanski; Pawel Rubach; Dimos Goundaroulis; Julien Dorier; Piotr Sulkowski; Kenneth C. Millett; Eric J. Rawdon; Andrzej Stasiak; Joanna I. Sulkowska (Nucleic Acids Res., 2019)

Topoly: Python package to analyze topology of polymers. - Pawel Dabrowski-Tumanski; Pawel Rubach; Wanda Niemyska; Bartosz Ambrozy Gren; Joanna I. Sulkowska (Briefings Bioinform., 2021)

Molecule Edit Graph Attention Network: Modeling Chemical Reactions as Sequences of Graph Edits. - Mikolaj Sacha; Mikolaj Blaz; Piotr Byrski; Pawel Dabrowski-Tumanski; Mikolaj Chrominski; Rafal Loska; Pawel Wlodarczyk-Pruszynski; Stanislaw Jastrzebski (J. Chem. Inf. Model., 2021)

A Topological Selection of Folding Pathways from Native States of Knotted Proteins. - Agnese Barbensi; Naya Yerolemou; Oliver Vipond; Barbara I. Mahler; Pawel Dabrowski-Tumanski; Dimos Goundaroulis (Symmetry, 2021)

RapidDock: Unlocking Proteome-scale Molecular Docking. - Rafal Powalski; Bazyli Klockiewicz; Maciej Jaskowski; Bartosz Topolski; Pawel Dabrowski-Tumanski; Maciej Wisniewski; Lukasz Kucinski; Piotr Milos; Dariusz Plewczynski (CoRR, 2024)