RNApdbee - a webserver to derive secondary structures from pdb files of knotted and unknotted RNAs. - Maciej Antczak; Tomasz Zok; Mariusz Popenda; Piotr Lukasiak; Ryszard W. Adamiak; Jacek Blazewicz; Marta Szachniuk (Nucleic Acids Res., 2014)

SphereGrinder - reference structure-based tool for quality assessment of protein structural models. - Piotr Lukasiak; Maciej Antczak; Tomasz Ratajczak; Jacek Blazewicz (BIBM, 2015)

Building the Library of Rna 3D Nucleotide Conformations Using the Clustering Approach. - Tomasz Zok; Maciej Antczak; Martin Riedel; David Nebel; Thomas Villmann; Piotr Lukasiak; Jacek Blazewicz; Marta Szachniuk (Int. J. Appl. Math. Comput. Sci., 2015)

New in silico approach to assessing RNA secondary structures with non-canonical base pairs. - Agnieszka Rybarczyk; Natalia Szostak; Maciej Antczak; Tomasz Zok; Mariusz Popenda; Ryszard W. Adamiak; Jacek Blazewicz; Marta Szachniuk (BMC Bioinform., 2015)

RNAssess - a web server for quality assessment of RNA 3D structures. - Piotr Lukasiak; Maciej Antczak; Tomasz Ratajczak; Marta Szachniuk; Mariusz Popenda; Ryszard W. Adamiak; Jacek Blazewicz (Nucleic Acids Res., 2015)

Optil.io: Cloud Based Platform For Solving Optimization Problems Using Crowdsourcing Approach. - Szymon Wasik; Maciej Antczak; Jan Badura; Artur Laskowski; Tomasz Sternal (CSCW Companion, 2016)

Structural alignment of protein descriptors - a combinatorial model. - Maciej Antczak; Marta Kasprzak; Piotr Lukasiak; Jacek Blazewicz (BMC Bioinform., 2016)

High-order statistical compressor for long-term storage of DNA sequencing data. - Marek Chlopkowski; Maciej Antczak; Michal Slusarczyk; Aleksander Wdowinski; Michal Zajaczkowski; Marta Kasprzak (RAIRO Oper. Res., 2016)

New algorithms to represent complex pseudoknotted RNA structures in dot-bracket notation. - Maciej Antczak; Mariusz Popenda; Tomasz Zok; Michal Zurkowski; Ryszard W. Adamiak; Marta Szachniuk (Bioinform., 2018)

RNAfitme: a webserver for modeling nucleobase and nucleoside residue conformation in fixed-backbone RNA structures. - Maciej Antczak; Tomasz Zok; Maciej Osowiecki; Mariusz Popenda; Ryszard W. Adamiak; Marta Szachniuk (BMC Bioinform., 2018)

Evaluation as a Service architecture and crowdsourced problems solving implemented in Optil.io platform. - Szymon Wasik; Maciej Antczak; Jan Badura; Artur Laskowski (CoRR, 2018)

A Survey on Online Judge Systems and Their Applications. - Szymon Wasik; Maciej Antczak; Jan Badura; Artur Laskowski; Tomasz Sternal (ACM Comput. Surv., 2018)

RNApdbee 2.0: multifunctional tool for RNA structure annotation. - Tomasz Zok; Maciej Antczak; Michal Zurkowski; Mariusz Popenda; Jacek Blazewicz; Ryszard W. Adamiak; Marta Szachniuk (Nucleic Acids Res., 2018)

RNAvista: a webserver to assess RNA secondary structures with non-canonical base pairs. - Maciej Antczak; Marcin Zablocki; Tomasz Zok; Agnieszka Rybarczyk; Jacek Blazewicz; Marta Szachniuk (Bioinform., 2019)

New models and algorithms for RNA pseudoknot order assignment. - Tomasz Zok; Jan Badura; Sylwester Swat; Kacper Figurski; Mariusz Popenda; Maciej Antczak (Int. J. Appl. Math. Comput. Sci., 2020)

Brilliant Challenges Optimization Problem Submission Contest Final Report. - Jan Badura; Artur Laskowski; Maciej Antczak; Jacek Blazewicz; Grzegorz Pawlak; Erwin Pesch; Thomas Villmann; Szymon Wasik (CoRR, 2021)

RNAsolo: a repository of cleaned PDB-derived RNA 3D structures. - Bartosz Adamczyk; Maciej Antczak; Marta Szachniuk (Bioinform., 2022)

RNAloops: a database of RNA multiloops. - Jakub Wiedemann; Jacek Kaczor; Maciej Milostan; Tomasz Zok; Jacek Blazewicz; Marta Szachniuk; Maciej Antczak (Bioinform., 2022)

RNAspider: a webserver to analyze entanglements in RNA 3D structures. - Kamil Luwanski; Vladyslav Hlushchenko; Mariusz Popenda; Tomasz Zok; Joanna Sarzynska; Daniil Martsich; Marta Szachniuk; Maciej Antczak (Nucleic Acids Res., 2022)

Machine learning for RNA 2D structure prediction benchmarked on experimental data. - Marek Justyna; Maciej Antczak; Marta Szachniuk (Briefings Bioinform., 2023)

High-quality, customizable heuristics for RNA 3D structure alignment. - Michal Zurkowski; Maciej Antczak; Marta Szachniuk (Bioinform., 2023)

Knotted artifacts in predicted 3D RNA structures. - Bartosz Ambrozy Gren; Maciej Antczak; Tomasz Zok; Joanna I. Sulkowska; Marta Szachniuk (PLoS Comput. Biol., 2024)