Maciej Antczak

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2025

  1. P. Hladki, M. Antczak, M. Szachniuk "Prediction of non-canonical interactions in RNA structure" poster, BIT25: Biophysics invites Bioinformatics, 25-28.06.2025, Torun, Poland.
  2. M. Szachniuk, O. Ludwiczak, M. Antczak "Optimizing interface evaluation in molecular domain", XXXIV EURO: 34th European Conference on Operational Research, 22-25.06.2025, Leeds, UK.
  3. M. Antczak "Modeling of proteins and RNA tertiary structure" invited talk, PhD School, Institute of Human Genetics, Polish Academy of Sciences, 20.06.2025, Poznan, Poland.
  4. M. Antczak "Quality assessment of 3D RNA structures" invited talk, PhD School, Institute of Human Genetics, Polish Academy of Sciences, 13.06.2025, Poznan, Poland.
  5. M. Antczak, M. Szachniuk, T. Zok "RNA-Puzzles Round V: Blind predictions of 23 RNA structures", Conference Seminar of the Institute of Computing Science, Poznan University of Technology, 20.05.2025, Poznan, Poland.
  6. P. Hladki, M. Antczak, M. Szachniuk "Prediction of non-canonical interactions in RNA structure", Seminar of the Laboratory of Algorithm Design and Data Structures, Institute of Computing Science, Poznan University of Technology, 13.05.2025, Poznan, Poland.
  7. M. Szachniuk, M. Antczak, M. Justyna "RNA 3D structure inference powered by graphs" ECCO XXXVIII: 38th Conference of the European Chapter on Combinatorial Optimization, 8-10.05.2025, Marrakech, Morocco.
  8. M. Antczak, B. Adamczyk, M. Szachniuk "Are GNN-based models able to reliably recognize native-like 3D RNA structures?" 3D-BioInfo and 3D-SIG Conference in Structural Bioinformatics, 19-21.03.2025, Barcelona, Spain.
  9. J. Pielesiak, M. Antczak, M. Szachniuk, T. Zok "Reference-free ranking method for RNA 3D models" poster, 3D-BioInfo and 3D-SIG Conference in Structural Bioinformatics, 19-21.03.2025, Barcelona, Spain.
  10. M. Justyna, M. Antczak, M. Szachniuk "RNA structure prediction with denoising diffusion model and user-defined constraints", Virtual seminar of NECLab, 21.01.2025.
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2024

  1. M. Justyna, C. Zirbel, M. Antczak, M. Szachniuk "RNAgrail: graph neural network and diffusion model for RNA 3Dstructure prediction" poster, Machine Learning in Structural Biology Workshop, NeurIPS 2024: The Thirty-Eighth Annual Conference on Neural Information Processing Systems, 10-15.12.2024, Vancouver, Canada.
  2. M. Szachniuk, M. Justyna, M. Antczak "RNA structure prediction with denoising diffusion model and user-defined constraints", 8th BIML Workshop „Bioinformatics meets Machine Learning”, 05-06.12.2024, Mittweida, Germany.
  3. M. Justyna, M. Antczak, M. Szachniuk "Graph Neural Networks for RNA 3D Structure Prediction", Seminar of the Laboratory of Algorithm Design and Data Structures, Institute of Computing Science, Poznan University of Technology, 29.10.2024, Poznan, Poland.
  4. O. Ludwiczak, M. Antczak, M. Szachniuk "How to assess prediction of intermolecular interactions", ICOLE’24: Perspectives of Bioinformatics, Operations Research and Machine Learning, 15-21.09.2024, Lessach, Austria.
  5. B. Adamczyk, M. Antczak, M. Szachniuk "Quality assessment of 3D RNA structures using Graph Neural Networks", Symposium of the Polish Bioinformatics Society, 11-13.09.2024, Warsaw, Poland.
  6. T. Zok, J. Pielesiak, M. Antczak, M. Szachniuk "Reference-free ranking method for RNA 3D models" poster, Symposium of the Polish Bioinformatics Society, 11-13.09.2024, Warsaw, Poland.
  7. M. Antczak "RNAsolo in the RNA structure study", RNA Benasque: Computational Approaches to RNA Structure and Function, 21.07-03.08.2024, Benasque, Spain.
  8. M. Antczak "Graph neural networks in assessing the quality of 3D RNA models" invited talk, Seminar of the Systems Research Institute, PAS, 10.07.2024, Warsaw, Poland.
  9. M. Antczak, B. Adamczyk, M. Szachniuk "Quality assessment of 3D RNA structures using graph neural networks", XXXIII EURO: 33rd European Conference on Operational Research, 30.06-03.07.2024, Copenhagen, Denmark.
  10. M. Antczak "RNAsolo in the RNA structure study" invited talk, Seminar of the University of Warsaw Biological and Chemical Research Centre, 18.06.2024, Warsaw, Poland.
  11. T. Zok, S. Swat, M. Antczak, J. Musial "Exact algorithms for the satellite image selection problem", ECCO4: European Chapter on Combinatorial Optimization, 06-08.06.2024, Ghent, Belgium.
  12. T. Zok, J. Pielesiak, M. Antczak, M. Szachniuk "Reference-free ranking method for RNA 3D models" poster, BIT24: Bioinformatics aims Brains – understanding and education, 06-08.06.2024, Torun, Poland.
  13. M. Szachniuk, M. Justyna, M. Antczak "Machine learning for RNA 2D structure prediction benchmarked on experimental data", Reporting session of the Institute of Bioorganic Chemistry, PAS, 23.05.2024, Poznan, Poland.
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2023

  1. T. Zok, J. Pielesiak, M. Antczak, M. Szachniuk "Reference-free ranking method for RNA 3D models" poster, 3D-BioInfo and 3D-SIG Conference in Structural Bioinformatics, 15-17.11.2023, Prague, Czech Republic.
  2. M. Szachniuk, M. Antczak, M. Popenda, J. Sarzynska, T. Zok "Unraveling the RNA web: detecting and deciphering entanglements in 3D structures", 3D-BioInfo and 3D-SIG Conference in Structural Bioinformatics, 15-17.11.2023, Prague, Czech Republic.
  3. M. Justyna, M. Antczak, M. Szachniuk "Molecular modeling with machine learning", Seminar of the Institute of Bioorganic Chemistry PAS, 02.10.2023, Poznan, Poland.
  4. M. Antczak, M. Popenda, J. Sarzynska, T. Zok, M. Szachniuk "On entanglements of structure elements in RNA 3D structures", BIT23: Bioinformatics in Torun, 29.06-01.07.2023, Torun, Poland.
  5. M. Justyna, M. Antczak, M. Szachniuk "RNA 3D fold generation with denoising diffusion probabilistic models" poster, BIT23: Bioinformatics in Torun, 29.06-01.07.2023, Torun, Poland.
  6. M. Antczak, J. Wiedemann, J. Kaczor, T. Zok, M. Milostan, J. Blazewicz, M. Szachniuk "RNAloops: a database of RNA multiloops", 2022 Reporting session of the Institute of Bioorganic Chemistry, PAS, 31.05.2023, Poznan, Poland.
  7. M. Justyna, M. Antczak, M. Szachniuk "RNA 3D fold generation with denoising diffusion probabilistic models" poster, 2022 Reporting session of the Institute of Bioorganic Chemistry, PAS, 31.05.2023, Poznan, Poland.
  8. M. Justyna, M. Antczak, M. Szachniuk, "Evaluation of AI-based Approaches for RNA 2D Structure Prediction", Seminar of the Laboratory of Algorithm Design and Data Structures, Institute of Computing Science, Poznan University of Technology, 9.05.2023, Poznan, Poland.
  9. M. Antczak, M. Justyna, M. Szachniuk "RNA 3D Structure Prediction using Generative Adversarial Networks" invited talk, Interplay between AI and mathematical modelling in the post-structural genomics era, International Center for Mathematical Encounters, 20-24.03.2023, Marseille, France.
  10. M. Justyna, M. Antczak, M. Szachniuk "RNA 3D fold generation with denoising diffusion probabilistic models" poster, Interplay between AI and mathematical modelling in the post-structural genomics era, International Center for Mathematical Encounters, 20-24.03.2023, Marseille, France.
  11. M. Antczak, M. Popenda, J. Sarzynska, T. Zok, M. Szachniuk "RNAComposer-based modeling of RNA 3D structures in CASP15", Structure and topology of RNA in living systems, European Centre for Theoretical Studies in Nuclear Physics and Related Areas, 30.01-02.02.2023, Trento, Italy.
  12. M. Borowski, M. Antczak, J. Synak, "The database for GMP Project", Seminar of the Laboratory of Algorithm Design and Data Structures, Institute of Computing Science, Poznan University of Technology, 17.01.2023, Poznan, Poland.
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2022

  1. M. Szachniuk, M. Antczak, M. Popenda, J. Sarzynska, T. Zok, "RNAComposer-based modeling of RNA 3D structures in CASP15", CASP15 Conference: 15th Community Wide Experiment on the Critical Assessment of Techniques for Protein Structure Prediction, 10-13.12.2022, Antalya, Turkey.
  2. M. Antczak, B. Adamczyk, M. Szachniuk, "RNAsolo: a repository of RNA 3D structures enabling efficient structural studies", 3D-Bioinfo Annual Conference, 02-04.11.2022, Hinxton, UK.
  3. M. Szachniuk, J. Szarzynska, M. Antczak, "Snapshots from how we took up the challenge of RNA-Puzzles", Seminar of the Institute of Bioorganic Chemistry PAS, 10.10.2022, Poland.
  4. M. Antczak, M. Szachniuk, "Datasets for benchmarking RNA design algorithms" invited talk, Dagstuhl Seminar 22381 on Rational Design of RiboNucleic Acids, 18-23.09.2022, International Conference and Research Center for Computer Science, Schloss Dagstuhl, Germany.
  5. M. Antczak, J. Morawski, M. Szachniuk, "A cryo-EM map as the target how to evaluate predictions", RNA Benasque: Computational Approaches to RNA Structure and Function, 07-20.08.2022, Benasque, Spain.
  6. M. Antczak, M. Zurkowski, M. Szachniuk, "High quality customizable algorithms for RNA 3D structure alignment", RNA Benasque: Computational Approaches to RNA Structure and Function, 07-20.08.2022, Benasque, Spain.
  7. M. Antczak, J. Wiedemann, M. Milostan, M. Szachniuk, "RNAloops: a database of RNA multi-branched loops", XXXII EURO: 32nd European Conference on Operational Research, 03-06.07.2022, Espoo, Finland.
  8. M. Zurkowski, M. Antczak, M. Szachniuk, "Genetically or geometrically? How to optimally superimpose RNA structures", ECCO 2022: 35th Conference of the European Chapter on Combinatorial Optimization, 09-11.06.2022, online.
  9. B. Adamczyk, M. Antczak, M. Szachniuk, "RNAsolo: a structural study-aimed RNA database", ECCO 2022: 35th Conference of the European Chapter on Combinatorial Optimization, 09-11.06.2022, online.
  10. J. Wiedemann, M. Szachniuk, M. Antczak, "Identification of Common Features of RNA Multi-Branched Loops", Seminar of the Laboratory of Algorithm Design and Data Structures, Institute of Computing Science, Poznan University of Technology, 07.06.2022, Poznan, Poland.
  11. J. Badura, A. Laskowski, M. Antczak, S. Wasik, "Building Hyper-heuristic using crowdsouring", Seminar of the Laboratory of Algorithm Design and Data Structures, Institute of Computing Science, Poznan University of Technology, 24.05.2022, Poznan, Poland.
  12. M. Antczak, M. Zurkowski, M. Szachniuk, "High-quality algorithms for RNA 3D structure alignment", ICOLE’22: Perspectives of Bioinformatics, Operations Research and Machine Learning, 08-14.05.2022, Lessach, Austria.
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2021

  1. M. Szachniuk, M. Antczak, J. Wiedemann, "Multiloops in RNA structures", 5th Workshop Bioinformatics meets Machine Learning, 1-2.12.2021, Mittweida, Germany.
  2. M. Antczak, J. Wiedemann, J. Kaczor, T. Zok, M. Milostan, M. Szachniuk, "RNAloops: a database of multi-branched loops of RNAs", ELIXIR 3D-BioInfo Community in Structural Bioinformatics, AGM, 2-4.11.2021, Cambridge, UK.
  3. M. Zurkowski, M. Antczak, M. Szachniuk, "New algorithms for alignment of RNA 3D structures", ICOLE’21: Perspectives of Bioinformatics, Operations Research and Machine Learning, 29.09-5.10.2021, Lessach, Austria.
  4. B. Adamczyk, M. Antczak, M. Szachniuk, "RNAsolo: a repository of cleaned PDB-derived RNA 3D structures", ICOLE’21: Perspectives of Bioinformatics, Operations Research and Machine Learning, 29.09-5.10.2021, Lessach, Austria.
  5. M. Antczak, T. Zok, J. Badura, S. Swat, M. Popenda, M. Szachniuk, "New algorithms for RNA pseudoknot order assignment", ICOLE’21: Perspectives of Bioinformatics, Operations Research and Machine Learning, 29.09-5.10.2021, Lessach, Austria.
  6. M. Antczak, T. Zok, J. Badura, M. Popenda, M. Szachniuk, "New algorithms for RNA pseudoknot order assignment", EURO XXXI – 31st European Conference on Operational Research, 11-14.07.2021, Athens, Greece.
  7. M. Szachniuk, M. Popenda, T. Zok, M. Antczak, J. Sarzynska, "An algorithm to detect entanglements in 3D RNA models", EURO XXXI – 31st European Conference on Operational Research, 11-14.07.2021, Athens, Greece.
  8. J. Badura, A. Laskowski, S. Wasik, M. Antczak, "Building Hyper-heuristic using crowdsouring", EURO XXXI – 31st European Conference on Operational Research, 11-14.07.2021, Athens, Greece.
  9. J. Badura, A. Laskowski, M. Antczak, S. Wasik, "Building Hyper-heuristic using crowdsouring", ECCO 2021: 34th Conference of the European Chapter on Combinatorial Optimization, 10-11.06.2021, Madrid, Spain.
  10. M. Corley, M. Antczak, T. Zok, S. Elhajjajy, M. Bernetti, J. Adler, "Predicting hnRNPA2/B1 binding sites from fSHAPE data", RBP Footprint Challenge @ RNA Society 2021 Meeting, 04.06.2021.
  11. T. Zok, J. Wiedemann, J. Kaczor, M. Antczak, M. Milostan, M. Szachniuk, "RNAloops: a database of RNA multiloops", poster, RNA 2021: 26th Annual Meeting of the RNA Society, 25.05-05.06.2021. RNA 2021 Poster Award.
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2020

  1. J. Wiedemann, M. Antczak, J. Kaczor, M. Milostan, T. Zok, M. Szachniuk "RNA Junctions from a 3D Structure Perspective", Seminar of the Laboratory of Algorithm Design and Data Structures, Institute of Computing Science, Poznan University of Technology, 01.12.2020, Poznan, Poland.
  2. M. Antczak, T. Zok, M. Zablocki, M. Szachniuk "RNAtive: a tool for reference-free evaluation and ranking of RNA 3D", ELIXIR 3D-BioInfo Community in Structural Bioinformatics, AGM, 24-26.11.2020, Cambridge, UK.
  3. T. Zok, M. Zablocki, M. Antczak, M. Szachniuk, "Best Model Selection Among RNA 3D Structure Predictions", PTBI’20: 13th Symposium of the Polish Bioinformatics Society, 15-17.09.2020, Warsaw, Poland.
  4. T. Zok, M. Antczak, M. Popenda, J. Sarzynska, M. Zablocki, R.W. Adamiak, M. Szachniuk, "SARS-CoV-2 Structure Modeling Within RNA-Puzzles Initiative", Bioinformatics fights SARS-CoV-2 and other viruses, 25.06.2020, Torun, Poland.
  5. T. Zok, M. Antczak, M. Popenda, J. Sarzynska, M. Zablocki, R.W. Adamiak, M. Szachniuk, "Prediction and evaluation of SARS-CoV-2 RNA 3D models", poster, RNA 2020: 25th Annual Meeting of the RNA Society, 26-31.05.2020, Vancouver, Canada.
  6. M. Antczak, "RNAComposer development stimulated by RNA-Puzzles challenges", 3rd RNA-Puzzles Meeting, 18-20.08.2020, Montreal, Canada.
  7. M. Szachniuk, M. Antczak, M. Popenda, "RNA clashes and punctures from an algorithmic perspective", GO'20: XI International Colloquium on Graphs and Optimization, 05-09.07.2020, Spa, Belgium.
  8. M. Antczak, T. Zok, M. Szachniuk, "Combinatorial algorithms for high-resolution reconstruction of RNA 3D structures", ECCO 2020: 33rd Conference of the European Chapter on Combinatorial Optimization, 04-06.06.2020, St. Petersburg, Russia.
  9. J. Badura, T. Zok, S. Swat, M. Szachniuk, M. Antczak, "Graph model and algorithms for RNA pseudoknot order assignment", poster, AlCoB 2020: 7th International Conference on Algorithms for Computational Biology, 13-15.04.2020, Missoula, Montana, USA.
  10. J. Badura, S. Swat, T. Zok, M. Szachniuk, M. Antczak "New model and algorithms for RNA pseudoknot order assignment", Seminar of the Laboratory of Algorithm Design and Data Structures, Institute of Computing Science, Poznan University of Technology, 21.01.2020, Poznan, Poland.
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2019

  1. M. Antczak, M. Popenda, T. Zok, M. Zurkowski, M. Szachniuk, "New algorithms to encode complex pseudoknotted RNA structures in extended dot-bracket notation", ICOLE’19: Perspectives of Bioinformatics, Operations Research and Machine Learning, 22.09-29.09.2019, Lessach, Austria.
  2. J. Badura, S. Swat, T. Zok, M. Szachniuk, M. Antczak "New model and algorithms for RNA pseudoknot order assignment", ICOLE’19: Perspectives of Bioinformatics, Operations Research and Machine Learning, 22.09-29.09.2019, Lessach, Austria.
  3. M. Zablocki, M. Szachniuk, M. Antczak, "Machine learning approach for general quality assessment of tertiary RNA structures", PTBI’19: 12th Symposium of the Polish Bioinformatics Society, 19-21.09.2019, Cracow, Poland.
  4. J. Badura, T. Zok, S. Swat, K. Figurski, M. Popenda, M. Szachniuk, M. Antczak, "New model and algorithms for RNA pseudoknot order assignment", poster, PTBI’19: 12th Symposium of the Polish Bioinformatics Society, 19-21.09.2019, Cracow, Poland.
  5. M. Zablocki, M. Szachniuk, M. Antczak, "General quality assessment of 3D RNA structures using machine learning techniques", BIT’19: Bioinformatics in Torun, 27-29.06.2019, Torun, Poland.
  6. M. Antczak, "Recognizing native-like RNA 3D folds: new machine learning-based strategies solving general quality assessment of RNA 3D structures", ERC Ideas Workshop, 26.06.2018, Warsaw, Poland.
  7. M. Antczak, T. Zok, M. Zurkowski, M. Popenda, J. Blazewicz, R.W. Adamiak, M. Szachniuk, "RNApdbee 2.0: a web platform for comprehensive RNA structure annotation", poster, RNA 2019: 24th Annual Meeting of the RNA Society, 11-16.06.2019, Cracow, Poland.
  8. T. Zok, M. Zablocki, M. Antczak, M. Szachniuk, "Reference-free evaluation of RNA 3D models quality", poster, RNA 2019: 24th Annual Meeting of the RNA Society, 11-16.06.2019, Cracow, Poland.
  9. M. Antczak, M. Kasprzak, P. Lukasiak, J. Blazewicz, "Polynomial-time algorithms for structural alignment of short- and long-range contact-based 3D substructures", ECCO 2019: 32nd Conference of the European Chapter on Combinatorial Optimization, 30.05-01.06.2019, St. Julian's, Malta.
  10. M. Szachniuk, T. Zok, M. Antczak, "Consensus-based approach to ranking similar objects", ECCO 2019: 32nd Conference of the European Chapter on Combinatorial Optimization, 30.05-01.06.2019, St. Julian's, Malta.
  11. M. Zablocki, M. Antczak, T. Zok, M. Szachniuk "RNAtive - a consensus-based approach to rank RNA 3D models", Seminar of the Laboratory of Algorithm Design and Data Structures, Institute of Computing Science, Poznan University of Technology, 28.05.2019, Poznan, Poland.
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2018

  1. M. Antczak, "RNAQUA - a tool supporting quality assessment of RNA 3D structures", 2nd RNA-Puzzles Meeting, 06-08.12.2018, Warsaw, Poland.
  2. M. Antczak, "Comparative analysis of unknown Rfam family predictions", 2nd RNA-Puzzles Meeting, 06-08.12.2018, Warsaw, Poland.
  3. M. Antczak, "Computational methods supporting 3D modelling of complex RNAs", Seminar of the Institute of Computing Science, Poznan University of Technology, 30.10.2018, Poznan, Poland.
  4. M. Szachniuk, M. Antczak, M. Popenda, T. Zok, "RNAComposer - prototyping and tuning of RNA 3D structures", poster, Grand BIMSB Opening Symposium – 11th Berlin (Late) Summer Meeting "Computational and experimental biology meet", 25-27.10.2018, Berlin, Germany.
  5. T. Zok, M. Antczak, M. Szachniuk, "Recognizing native-like structure in the set of RNA 3D models", poster, Grand BIMSB Opening Symposium – 11th Berlin (Late) Summer Meeting "Computational and experimental biology meet", 25-27.10.2018, Berlin, Germany.
  6. T. Zok, M. Antczak, M. Szachniuk, "RNAtive - a consensus-based approach to rank RNA 3D models", ICOLE2018 – German - Polish Workshop on Computational Biology, Perspectives of Bioinformatics, Operations Research and Machine Learning, 23-29.09.2018, Lessach, Austria.
  7. M. Szachniuk, M. Antczak, T. Zok, "Graph-based method for RNA structure remodeling", ICOLE2018 – German - Polish Workshop on Computational Biology, Perspectives of Bioinformatics, Operations Research and Machine Learning, 23-29.09.2018, Lessach, Austria.
  8. S. Wasik, M. Antczak, J. Badura, A. Laskowski, T. Sternal, K. Wedrowicz, "Optil.io: Evaluation Platform for Metaheuristics", MESS 2018: Metaheuristics Summer School, 21-25.07.2018, Acireale, Italy.
  9. M. Szachniuk, M. Antczak, T. Zok, "RNA 2D/3D structure in RNApolis. There and Back Again", RNA Benasque: Computational Approaches to RNA Structure and Function, 15-27.07.2018, Benasque, Spain.
  10. S. Wasik, M. Antczak, J. Badura, A. Laskowski, "Evaluation as a Service architecture and crowdsourced problems solving implemented in Optil.io platform", Data Science meets Optimization Workshop at Federated Artificial Intelligence meeting (DSO@FAIM), 14.07.2018, Stockholm, Sweden.
  11. M. Antczak, J. Badura, A. Laskowski, J. Blazewicz, S. Wasik, "Brilliant Challenges: lessons learned from evaluation data collected in optimization problems submission contest", EURO XXIX – 29th European Conference on Operational Research, 08-11.07.2018, Valencia, Spain.
  12. S. Wasik, M. Antczak, J. Badura, A. Laskowski, "Optil.io: Platform supporting Evaluation as a Service architecture", EURO XXIX – 29th European Conference on Operational Research, 08-11.07.2018, Valencia, Spain.
  13. J. Badura, M. Antczak, A. Laskowski, S. Wasik, "Supporting evaluation of algorithms during PACE Challenges", EURO XXIX – 29th European Conference on Operational Research, 08-11.07.2018, Valencia, Spain.
  14. A. Laskowski, M. Antczak, J. Badura, S. Wasik, "Review of online platforms supporting evaluation of algorithms", EURO XXIX – 29th European Conference on Operational Research, 08-11.07.2018, Valencia, Spain.
  15. J. Miskiewicz, M. Popenda, J. Sarzynska, M. Antczak, M. Szachniuk, "Computational Analysis and Visualization of G-quadruplex Structures", EURO XXIX – 29th European Conference on Operational Research, 08-11.07.2018, Valencia, Spain.
  16. T. Zok, M. Antczak, M. Zurkowski, M. Popenda, J. Blazewicz, R.W. Adamiak, M. Szachniuk, "RNApdbee 2.0: a multifunctional tool for RNA structure annotation", poster, EMBO Workshop. RNA: Structure meets function, 01-04.07.2018, Stockholm Archipelago, Sweden.
  17. T. Zok, M. Antczak, M. Zurkowski, M. Popenda, J. Blazewicz, R.W. Adamiak, M. Szachniuk, "RNA Structure Annotation and Visualization with RNApdbee 2.0", poster, BIT'18: Bioinformatics in Torun, 28-30.06.2018, Torun, Poland.
  18. M. Zurkowski, M. Antczak, T. Zok, M. Popenda, R.W. Adamiak, M. Szachniuk, "Hierarchy of RNA folding via pseudoknot classification", poster, BIT'18: Bioinformatics in Torun, 28-30.06.2018, Torun, Poland.
  19. M. Szachniuk, M. Antczak, T. Zok, "RNA structure reparation with combinatorial algorithms", ECCO 2018: 31st Conference of the European Chapter on Combinatorial Optimization, 14-16.06.2018, Fribourg, Switzerland.
  20. S. Wasik, M. Antczak, J. Badura, A. Laskowski, K. Wedrowicz, "Optil.io: Crowdsourcing Platform for Solving Optimization Problems", ECCO 2018: 31st Conference of the European Chapter on Combinatorial Optimization, 14-16.06.2018, Fribourg, Switzerland.
  21. T. Zok, M. Antczak, M. Zurkowski, M. Popenda, J. Blazewicz, R.W. Adamiak, M. Szachniuk, "RNA Pseudoknot Analysis: A Graph-Coloring Approach", ECCO 2018: 31st Conference of the European Chapter on Combinatorial Optimization, 14-16.06.2018, Fribourg, Switzerland.
  22. J. Miskiewicz, M. Popenda, J. Sarzynska, M. Antczak, M. Szachniuk, "Computational Modeling and Analysis of G-quadruplex Structures", ECCO 2018: 31st Conference of the European Chapter on Combinatorial Optimization, 14-16.06.2018, Fribourg, Switzerland.
  23. M. Antczak, "New algorithms for pseudoknot classification", 1st Seminar on RNA & Computing, 17-18.05.2018, Biedrusko, Poland.
  24. S. Wasik, M. Antczak, J. Badura, A. Laskowski, T. Sternal, "Evaluation as a Service architecture for meta- and hyper-heuristics implemented in Optil.io platform", Seminar of the Operation Research Group, Queen Mary University, 8-11.05.2018, London, United Kingdom.
  25. M. Antczak, "How to recognize native-like RNA 3D models" (invited talk), RSBI 2018: 2nd Romanian Bioinformatics Seminars, 18-20.04.2018, Bucharest, Romania.
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2017

  1. S. Wasik, M.Antczak, J. Badura, A. Laskowski, T. Sternal, "Optil.io platform: past, present, and future", ICOLE2017 – German - Polish Workshop on Computational Biology, Perspectives of Bioinformatics, Operations Research and Machine Learning, 02-06.10.2017, Lessach, Austria.
  2. M. Szachniuk, M. Antczak, "Snapshots from RNApolis", EMBL-EBI seminar, 18-20.09.2017, European Bioinformatics Institute, Cambridge, UK.
  3. T. Zok, M. Antczak, M. Popenda, M. Zurkowski, R.W. Adamiak, M. Szachniuk, "New approaches to determine RNA pseudoknot order", PTBI'17: 10th Symposium of the Polish Bioinformatics Society, 27-29.09.2016, Uniejów, Poland.
  4. M. Antczak, M. Kasprzak, P. Lukasiak, S. Wasik, J. Blazewicz, "Structural alignment of contact-based 3D protein substructures: the problem and its implementation on Optil.io platform", IFORS 2017: 21st Conference of the International Federation of Operational Research Societies, 17-21.07.2017, Quebec, Canada.
  5. S. Wasik, M. Antczak, J. Badura, A. Laskowski, T. Sternal, "Optil.io: Evaluation Platform for Data Science and Optimization Algorithms", IFORS 2017: 21st Conference of the International Federation of Operational Research Societies, 17-21.07.2017, Quebec, Canada.
  6. S. Wasik, M. Antczak, J. Badura, A. Laskowski, M. Olszowy, T. Sternal, K. Wedrowicz, "Optil.io Platform: Evaluation as a Service for Metaheuristics", MIC'2017: 12nd Metaheuristics International Conference, 04-07.07.2017, Barcelona, Spain.
  7. M. Antczak, T. Zok, M. Popenda, M. Szachniuk, "New approaches for determination of RNA pseudoknot order", BIT'17: Bioinformatics in Torun, 22-24.06.2016, Torun, Poland.
  8. T. Zok, M. Antczak, M. Popenda, J. Sarzynska, T. Ratajczak, K. Tomczyk, R.W. Adamiak and M. Szachniuk, "RNAComposer allows the user to improve accuracy of predicted RNA 3D structures", poster, BIT'17: Bioinformatics in Torun, 22-24.06.2016, Torun, Poland.
  9. T. Zok, M. Antczak, M. Popenda, M. Zurkowski, R.W. Adamiak, M. Szachniuk, "New approaches to determine RNA pseudoknot order", poster, RNA 2017: The 22nd Annual Meeting of the RNA Society, 30.05-03.06.2017, Prague, Czech Republic.
  10. M. Antczak, M. Popenda, T. Zok, M. Zurkowski, M. Szachniuk, "New algorithms to encode complex pseudoknotted RNA structures in extended dot-bracket notation", ECCO 2017: 30th Conference of the European Chapter on Combinatorial Optimization, 03-06.05.2017, Koper, Slovenia.
  11. M. Szachniuk, T. Zok, M. Popenda, M. Antczak, "Pseudoknot order determination as graph coloring problem", ECCO 2017: 30th Conference of the European Chapter on Combinatorial Optimization, 03-06.05.2017, Koper, Slovenia.
  12. S. Wasik, M. Antczak, J. Badura, A. Laskowski, M. Olszowy, T. Sternal, K. Wedrowicz, "Solving Selective TSP Problem Using Crowdsourced Programming Challenge", ECCO 2017: 30th Conference of the European Chapter on Combinatorial Optimization, 03-06.05.2017, Koper, Slovenia.
  13. P. Lukasiak, T. Ratajczak, M. Antczak, "Novel methods for atoms alignment score in 3D space", ECCO 2017: 30th Conference of the European Chapter on Combinatorial Optimization, 03-06.05.2017, Koper, Slovenia.
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2016

  1. S. Wasik, M.Antczak, J. Badura, A. Laskowski, T. Sternal, "Optil.io: platform for automatic evaluation of optimization problems", Seminar of the Institute of Computing Science, Poznan University of Technology, 08.11.2016, Poznan, Poland.
  2. R.W. Adamiak, M. Antczak, M. Biesiada, K. Pachulska-Wieczorek, M. Popenda, K.J. Purzycka, T. Ratajczak, J. Sarzynska, M. Szachniuk, K. Tomczyk, T. Zok, "RNA 3D structure prediction using RNAComposer", 1st RNA-Puzzles meeting, 15-16.10.2016, Strasbourg, France.
  3. R.W. Adamiak, M. Antczak, P. Lukasiak, M. Popenda, T. Ratajczak, M. Szachniuk, T. Zok, "Quality assessment of RNA 3D structures", 1st RNA-Puzzles meeting, 15-16.10.2016, Strasbourg, France.
  4. M. Antczak, T. Zok, P. Lukasiak, M. Szachniuk, "RNApdbeeQA - a consensus-based method for quality assessment of RNA 3D models", poster, PTBI'16: 9th Symposium of the Polish Bioinformatics Society, 28-30.09.2016, Białystok, Poland.
  5. T. Zok, M. Antczak, M. Popenda, J. Sarzynska, T. Ratajczak, R.W. Adamiak, M. Szachniuk, "Application of new functionalities of RNAComposer in order to improve prediction accuracy", PTBI'16: 9th Symposium of the Polish Bioinformatics Society, 28-30.09.2016, Białystok, Poland.
  6. S. Wasik, M. Antczak, J. Badura, A. Laskowski, T. Sternal, "Optil.io: Solving Biological Optimization Problems by Organizing Programming Challenges", PTBI'16: 9th Symposium of the Polish Bioinformatics Society, 28-30.09.2016, Białystok, Poland.
  7. M. Antczak, M. Kasprzak, P. Lukasiak, J. Blazewicz, "Accurate and efficient structural comparison of protein descriptors", ICOLE2016 – German - Polish Workshop on Computational Biology, Perspectives of Bioinformatics, Operations Research and Machine Learning, 18-24.09.2016, Lessach, Austria.
  8. M. Szachniuk, M. Antczak, M. Popenda, T. Zok, J. Sarzynska, R.W. Adamiak, "RNAComposer and RNA 3D structure prediction with fragment substitutions", ICOLE2016 – German - Polish Workshop on Computational Biology, Perspectives of Bioinformatics, Operations Research and Machine Learning, 18-24.09.2016, Lessach, Austria.
  9. T. Zok, M. Antczak, M. Popenda, J. Sarzynska, T. Ratajczak, R.W. Adamiak, M. Szachniuk, "RNAComposer: new developments to increase accuracy of 3D RNA structure prediction", poster, BIO 2016: the 2nd Congress of Polish Biochemistry, Cell biology, Biotechnology and Bioinformatics, 13-16.09.2016, Wrocław, Poland.
  10. N. Szostak, A.Rybarczyk, M. Antczak, T. Zok, M. Popenda, R.W. Adamiak, J. Blazewicz, M. Szachniuk, "New in silico approach to assessing RNA secondary structures with non-canonical base pairs", poster, ECCB'16: XV European Conference on Computational Biology, 03-07.09.2016, Hague, Netherlands.
  11. M. Antczak, M. Kasprzak, P. Lukasiak, J. Blazewicz, "A combinatorial model for protein desriptors' structural alignment", EURO XXVIII – 28th European Conference on Operational Research, 03-06.07.2016, Poznan, Poland.
  12. M. Szachniuk, M. Antczak, M. Popenda, T. Zok, J. Sarzynska, "RNAComposer and 3D Structure Prediction with Module Substitutions", EURO XXVIII – 28th European Conference on Operational Research, 03-06.07.2016, Poznan, Poland.
  13. S. Wasik, M. Antczak, J. Badura, A. Laskowski, T. Sternal, "Optil.io: a Platform for Organizing Challenges to Solve Optimization Problems", EURO XXVIII – 28th European Conference on Operational Research, 03-06.07.2016, Poznan, Poland.
  14. P. Lukasiak, T. Ratajczak, M. Antczak, T. Villmann, "Computational Strategy for Consensus-based Ranking of 3D Models of Biomolecules", EURO XXVIII – 28th European Conference on Operational Research, 03-06.07.2016, Poznan, Poland.
  15. J. Badura, A. Laskowski, M. Antczak, S. Wasik, "Methodology for Evaluation of Optimization Algorithms Executing on GPU", EURO XXVIII – 28th European Conference on Operational Research, 03-06.07.2016, Poznan, Poland.
  16. T. Zok, M. Antczak, P. Lukasiak, M. Szachniuk, "A consensus approach to evaluate RNA 3D models quality", poster, RNA 2016: The 21st Annual Meeting of the RNA Society, 28.06-02.07.2016, Kyoto, Japan.
  17. M. Antczak, M. Popenda, T. Zok, J. Sarzynska, T. Ratajczak, R.W. Adamiak, M. Szachniuk, "Application of new functionalities of RNAComposer in order to improve prediction accuracy", poster, BIT'16: Bioinformatics in Torun, 16-18.06.2016, Torun, Poland.
  18. T. Zok, M. Antczak, P. Lukasiak, M. Szachniuk, "A new method to evaluate quality of RNA 3D models", poster, BIT'16: Bioinformatics in Torun, 16-18.06.2016, Torun, Poland.
  19. P. Lukasiak, M. Antczak, M. Kasprzak, "Efficient alignment strategies for structures of biomolecules", ECCO 2016: 29th Conference of the European Chapter on Combinatorial Optimization, 26-28.05.2016, Budapest, Hungary.
  20. S. Wasik, M. Antczak, J. Badura, A. Laskowski, T. Sternal, "Optil.io: Solving Optimization Problems by Organizing Programming Challenges", ECCO 2016: 29th Conference of the European Chapter on Combinatorial Optimization, 26-28.05.2016, Budapest, Hungary.
  21. S. Wasik, M. Antczak, J. Badura, A. Laskowski, T. Sternal, "Optil.io: Cloud Based Platform For Solving Optimization Problems Using Crowdsourcing Approach", poster, CSCW 2016: The 19th ACM conference on Computer-Supported Cooperative Work and Social Computing, 27.02-02.03.2016, San Francisco, USA.
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2015

  1. P. Lukasiak, M. Antczak, T. Ratajczak, J. Blazewicz, "SphereGrinder - reference structure-based tool for quality assessment of protein structural models", IEEE BIBM 2015: IEEE International Conference on Bioinformatics and Biomedicine, 9-12.11.2015, Washington D.C., USA.
  2. T. Zok, M. Antczak, M. Riedel, D. Nebel, T. Villmann, P. Lukasiak, J. Blazewicz, M. Szachniuk, "Clustering approach to create libraries of representative RNA conformers", ICOLE2015 – German - Polish Workshop on Computational Biology, Perspectives of Bioinformatics, Operations Research and Machine Learning, 28.9-3.10.2015, Lessach, Austria.
  3. P. Lukasiak, T. Ratajczak, M. Antczak, "Computational approaches for quality analysis of RNA structures", ICOLE2015 – German - Polish Workshop on Computational Biology, Perspectives of Bioinformatics, Operations Research and Machine Learning, 28.9-3.10.2015, Lessach, Austria.
  4. P. Ceranek, T. Zok, M. Antczak, M. Szachniuk, "RNAsprite - a concept of tool to calculate RNA structural data", ICOLE2015 – German - Polish Workshop on Computational Biology, Perspectives of Bioinformatics, Operations Research and Machine Learning, 28.9-3.10.2015, Lessach, Austria.
  5. N. Szostak, A. Rybarczyk, M. Antczak, T. Zok, M. Popenda, R.W. Adamiak, J. Blazewicz, M. Szachniuk, "New in silico approach to assess RNA secondary structures with non-canonical base pairs", ICOLE2015 – German - Polish Workshop on Computational Biology, Perspectives of Bioinformatics, Operations Research and Machine Learning, 28.9-3.10.2015, Lessach, Austria.
  6. M. Popenda, M. Szachniuk, M. Antczak, T. Zok, T. Ratajczak, P. Lukasiak, K.J. Purzycka, K. Pachulska-Wieczorek, M. Biesiada, L. Blaszczyk, J. Blazewicz, R.W. Adamiak, "Wyzwania w procesie wysokoprzepustowego modelowania istotnych funkcjonalnie i terapeutycznie struktur 3D RNA", Konferencja użytkowników KDM 2015, Poland.
  7. N. Szostak, A. Rybarczyk, M. Antczak, T. Zok, M. Popenda, R.W. Adamiak, J. Blazewicz, M. Szachniuk, "New in silico approach to assess RNA secondary structures with non-canonical base pairs", VIII Convention of the Polish Bioinformatics Society, 17-19.09.2015, Lublin, Poland.
  8. T. Zok, M. Antczak, M. Riedel, D. Nebel, T. Villmann, P. Lukasiak, J. Blazewicz, M. Szachniuk, "Constructing a library of 3D RNA conformations", poster, VIII Convention of the Polish Bioinformatics Society, 17-19.09.2015, Lublin, Poland.
  9. T. Ratajczak, M. Antczak, P. Lukasiak, "Robust 3D RNA models comparison with RNAssess", poster, VIII Convention of the Polish Bioinformatics Society, 17-19.09.2015, Lublin, Poland.
  10. P. Lukasiak, M. Antczak, M. Kasprzak, "Combinatorial models of the protein substructures alignment", ECCO 2015: 28th Conference of the European Chapter on Combinatorial Optimization, 28-30.05.2015, Catania, Italy.
  11. M. Szachniuk, T. Zok, M. Antczak, "Applications of RNA trigonometric model", ECCO 2015: 28th Conference of the European Chapter on Combinatorial Optimization, 28-30.05.2015, Catania, Italy.
  12. N. Szostak, A. Rybarczyk, M. Antczak, T. Zok, M. Popenda, R.W. Adamiak, J. Blazewicz, M. Szachniuk, "New in silico approach to assess RNA secondary structures with non-canonical base pairs", ECCO 2015: 28th Conference of the European Chapter on Combinatorial Optimization, 28-30.05.2015, Catania, Italy.
  13. M. Szachniuk, T. Zok, A. Rybarczyk, M. Antczak, N. Szostak, M. Popenda, P. Lukasiak, R.W. Adamiak, J. Blazewicz, "RNApdbee and assessing the RNA secondary structure", MultiPole-2: Multi-Pole Approach to Structural Science, 10-13.05.2015, Warsaw, Poland.
  14. T. Zok, M. Antczak, M. Szachniuk, "Selected aspects of RNA structure processing in trigonometric space", poster, BIT'15: Bioinformatics in Torun, 16-18.04.2015, Torun, Poland.
  15. A. Wdowinski, M. Slusarczyk, M. Zajaczkowski, M. Chlopkowski, M. Antczak, M. Kasprzak, "Efficient compressor for long-term 
storage of DNA sequencing data", poster, BIT'15: Bioinformatics in Torun, 16-18.04.2015, Torun, Poland.
  16. M. Antczak, T. Zok, M. Riedel, D. Nebel, P. Lukasiak, M. Szachniuk, T. Villmann, J. Blazewicz "Accurate prediction of nucleotide conformations", poster, RECOMB'15: The 19th Annual International Conference on Research in Computational Molecular Biology, 12-15.04.2015, Warsaw, Poland.
  17. T. Zok, M. Antczak, M. Popenda, P. Lukasiak, R.W. Adamiak, J. Blazewicz, M. Szachniuk "RNApdbee - secondary structure retrieval from knotted and unknotted RNA structures", poster, RECOMB'15: The 19th Annual International Conference on Research in Computational Molecular Biology, 12-15.04.2015, Warsaw, Poland.
  18. P. Lukasiak, L. Chojnacki, M. Antczak, G. Felici, J. Blazewicz "Analysis of different strategies for identification of subset of atoms in quality assessment of RNA structures problem", AIRO Winter 2015 Conference: Modelling the Externalities, 25-30.01.2015, Champoluc, Aosta, Italy.
  19. M. Szachniuk, T. Zok, M. Antczak "On trigonometric representation of RNA 3D structure and its applications", AIRO Winter 2015 Conference: Modelling the Externalities, 25-30.01.2015, Champoluc, Aosta, Italy.
  20. M. Chlopkowski, M. Antczak, M. Slusarczyk, A. Wdowinski, M. Zajaczkowski, M. Kasprzak "High-order statistical compressor for long-term storage of DNA sequencing reads", Seminar of the Laboratory of Algorithm Design and Data Structures, Institute of Computing Science, Poznan University of Technology, 13.01.2015, Poznan, Poland.
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2014

  1. T. Zok, M. Antczak, P. Lukasiak, M. Szachniuk, "A database of RNA rotamers and its applications", Seminar of the Laboratory of Algorithm Design and Data Structures, Institute of Computing Science, Poznan University of Technology, 21.10.2014, Poznan, Poland.
  2. M. Antczak, T. Zok, M. Riedel, D. Nebel, P. Lukasiak, M. Szachniuk, T. Villmann, J. Blazewicz, "Accurate approach for nucleotide conformation prediction of RNAs", poster, ECCB'14, the 13th European Conference on Computational Biology, 07-10.09.2014, Strasbourg, France.
  3. K.J. Purzycka, M. Popenda, M. Szachniuk, P. Lukasiak, M. Antczak, T. Zok, T. Ratajczak, J. Blazewicz, R.W. Adamiak, "New Web-Server Based Tools for Studying RNA Structure", poster, XXI Round Table on Nucleosides, Nucleotides and Nucleic Acids, Chemical Biology of Nucleic Acids, 24-28.08.2014, Poznan, Poland.
  4. T. Zok, M. Antczak, "An Algorithm to Extract RNA Secondary Topology from the 3D Structure", Mini EURO Conference on Computational Biology, Bioinformatics and Medicine, 26-28.06.2014, Poznan, Poland.
  5. T. Ratajczak, M. Antczak, P. Lukasiak, "RNAlyzer - a Web Server for Computational Quality Evaluation of RNAs", Mini EURO Conference on Computational Biology, Bioinformatics and Medicine, 26-28.06.2014, Poznan, Poland.
  6. T. Zok, M. Antczak, M. Popenda, P. Lukasiak, R.W. Adamiak, J. Blazewicz, M. Szachniuk, "RNApdbee: from RNA atom coordinates to the secondary structure", poster, BIT'14: Bioinformatics in Torun, 12-14.06.2014, Torun, Poland.
  7. M. Antczak, T. Zok, P. Lukasiak, J. Blazewicz, M. Szachniuk, "RNA rotamer library for coarse-grained model refinement", poster, BIT'14: Bioinformatics in Torun, 12-14.06.2014, Torun, Poland.
  8. T. Ratajczak, M. Antczak, M. Szachniuk, J. Blazewicz, P. Lukasiak, "RNAlyzer - web server for computational quality evaluation of RNAs", Seminar of the Laboratory of Algorithm Design and Data Structures, Institute of Computing Science, Poznan University of Technology, 27.05.2014, Poznan, Poland.
  9. T. Zok, M. Antczak, M. Popenda, M. Szachniuk, P. Lukasiak, J. Blazewicz, "An algorithm to extract RNA secondary topology from the 3D structure", Seminar of the Laboratory of Algorithm Design and Data Structures, Institute of Computing Science, Poznan University of Technology, 28.01.2014, Poznan, Poland.
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2013

  1. T. Zok, M. Antczak, P. Lukasiak, J. Blazewicz, M. Szachniuk, "RNA rotamer library for coarse-grained model reconstruction", 2nd International Systems Biomedicine Symposium, poster, 21-22.10.2013, Campus Belval, Luxembourg.
  2. T. Zok, M. Antczak, M. Szachniuk, P. Lukasiak, J. Blazewicz, "A search in RNA conformational space - building a library of nucleotide rotamers", ICOLE2013 – German - Polish Workshop on Computational Biology, Perspectives of Bioinformatics, Operations Research and Machine Learning, September, Lessach, Austria.
  3. M. Antczak, P. Lukasiak, K. Fidelis, A. Kryshtafovych, J. Blazewicz, "Structural alignment of local descriptors of protein structures", ICOLE2013 – German - Polish Workshop on Computational Biology, Perspectives of Bioinformatics, Operations Research and Machine Learning, September, Lessach, Austria.
  4. M. Antczak, P. Lukasiak, K. Fidelis, A. Kryshtafovych, J. Blazewicz, "Novel approach to model quality assessment of proteins", EURO XXVI – 26th European Conference on Operational Research, July, Rome, Italy, [WWW].
  5. P. Lukasiak, M. Antczak, T. Ratajczak, J. Blazewicz, "Quality evaluation of biomolecules", EURO XXVI – 26th European Conference on Operational Research, July, Rome, Italy, [WWW].
  6. M. Antczak, P. Lukasiak, K. Fidelis, A. Kryshtafovych, J. Blazewicz, "Novel method for structural quality assessment of proteins", ECCO XXVI, May, 2013, Paris, France, pp. 47.
  7. P. Lukasiak, M. Antczak, T. Ratajczak, J. Blazewicz, "RNAlyzer - tool for RNA visualization and analysis", ECCO XXVI, May, 2013, Paris, France, pp. 80.
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2012

  1. M. Antczak, P. Lukasiak, K. Fidelis, A. Kryshtafovych, J. Blazewicz, "A novel approach for quality assessment of protein structures", ICOLE2012 – German - Polish Workshop on Computational Biology, Perspectives of Bioinformatics, Operations Research and Machine Learning, 29.09-06.10.2012, Lessach, Austria.
  2. P. Lukasiak, J. Blazewicz, K. Fidelis, M. Antczak, T. Ratajczak, "RNA and Protein quality assessment", ICOLE2012 – German - Polish Workshop on Computational Biology, Perspectives of Bioinformatics, Operations Research and Machine Learning, 29.09-06.10.2012, Lessach, Austria.
  3. M. Antczak, P. Lukasiak, K. Fidelis, A. Kryshtafovych, J. Blazewicz, "Protein structure quality assessment and modeling support methodology", CBBM 2012 – Mini-EURO Conference on Computational Biology, Bioinformatics and Medicine, September, Nottingham, England.
  4. M. Szachniuk, M. Antczak, M. Popenda, "Solving RNA puzzle: strategies, milestones and constraints", CBBM 2012 – Mini-EURO Conference on Computational Biology, Bioinformatics and Medicine, September, Nottingham, England.
  5. M. Popenda, M. Szachniuk, M. Antczak, K. J. Purzycka, P. Lukasiak, N. Bartol, J. Blazewicz, R. W. Adamiak, "RNAComposer: automated high-resolution structure prediction for large RNAs", Session 2. Genomics, Proteomics, Metabolomics—Medical and Environmental Implications, 1st Polish-German Biochemical Societies Joint Meeting, September, Poznan, Poland, pp. 19, [PDF].
  6. M. Antczak, P. Lukasiak, K. Fidelis, A. Kryshtafovych, J. Blazewicz, "Protein structure quality assessment and modeling support framework", EURO XXV – 25th European Conference on Operational Research, July, Vilnius, Lithuania, pp. 80, [PDF].
  7. M. Szachniuk, M. Popenda, M. Antczak, K.J. Purzycka, P. Lukasiak, N. Bartol, J. Blazewicz, R.W. Adamiak, "RNAComposer - breaking the limits in prediction of large RNA 3D structures", poster, BIOCONNECT 2012: Business Meets Science to cooperate in current topics, 15-16.05.2012, Poznan, Poland.
  8. P. Lukasiak, T. Ratajczak, M. Antczak, J. Blazewicz, M. Szachniuk, R.W. Adamiak, M. Popenda, "Novel approach to quality analysis of RNA structural models", poster, BIOCONNECT 2012: Business Meets Science to cooperate in current topics, 15-16.05.2012, Poznan, Poland.
  9. J. Blazewicz, M. Popenda, M. Antczak, M. Szachniuk, P. Lukasiak, R. W. Adamiak, N. Bartol, K. J. Purzycka, "The tool for automatic prediction of RNA tertiary structures", ECCO XXV, April, 2012, Antalya, Turkey, pp. 6, [PDF].
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2011

  1. P. Lukasiak, M. Antczak, K. Fidelis, J. Blazewicz, "Quality assessment of protein model", Protein and RNA Structure Prediction, 2011, 03-06.12.2011, Cancun, Mexico.
  2. M. Popenda, M. Szachniuk, M. Antczak, K.J. Purzycka, P. Lukasiak, N. Bartol, J. Blazewicz, R. W. Adamiak, "RNAComposer - an automatic tool for RNA tertiary structure prediction", Multi-Pole Approach to Structural Biology Conference, November, Warsaw, Poland, pp. L38, [PDF].
  3. M. Antczak, P. Lukasiak, K. Fidelis, A. Kryshtafovych, J. Blazewicz, "Protein structural analysis web framework used to general quality assessment and the comparative modeling support", IV Convention of the Polish Bioinformatics Society in conjunction with 7th Workshop on Bioinformatics, October, Kraków, Poland, pp. 17, [PDF].
  4. M. Antczak, P. Lukasiak, K. Fidelis, A. Kryshtafovych, J. Blazewicz, "Protein structure quality assessment and modeling support techniques", ICOLE2011 – German - Polish Workshop on Computational Biology, Perspectives of Bioinformatics, Operations Research and Machine Learning, September, Lessach, Austria.
  5. M. Antczak, P. Lukasiak, K. Fidelis, A. Kryshtafovych, J. Blazewicz, "Quality assessment of protein structure models with using systematic evaluation of local sequence-structure compatibility", ECCO XXIV, July, 2011, Amsterdam, Netherlands, pp. 24-25, [PDF].
  6. P. Lukasiak, K. Fidelis, M. Wojciechowski, M. Antczak, "Quality assessment of protein 3D model", ECCO XXIV, 30 May – 01 June, 2011, Amsterdam, Netherlands, pp. 26, [PDF].
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2010

  1. M. Szachniuk, M. Popenda, M. Antczak, K.J. Purzycka, P. Lukasiak, N. Bartol, J. Blazewicz, R.W. Adamiak, "RNAComposer & the art of composing RNA structures", Seminar of the Laboratory of Algorithm Design and Data Structures, Institute of Computing Science, Poznan University of Technology, 09.11.2010, Poznan, Poland.
  2. T. Zok, M. Szachniuk, M. Antczak, "Comparison of RNA structures in torsional angle space", Seminar of the Laboratory of Algorithm Design and Data Structures, Institute of Computing Science, Poznan University of Technology, 12.10.2010, Poznan, Poland.
  3. P. Lukasiak, K. Fidelis, M. Antczak, A. Kryshtafovych, J. Blazewicz, "Automated prediction of 3D structure of proteins based on descriptors approach", ICOLE2010 – German - Polish Workshop on Computational Biology, Perspectives of Bioinformatics, Operations Research and Machine Learning, 26.09-02.10.2010, Lessach, Austria.
  4. M. Szachniuk, M. Popenda, M. Antczak, K.J. Purzycka, P. Lukasiak, N. Bartol, J. Blazewicz, R. W. Adamiak, "RNAComposer and the art of composing RNA structures", ICOLE2010 – German - Polish Workshop on Computational Biology, Perspectives of Bioinformatics, Operations Research and Machine Learning, 26.09-02.10.2010, Lessach, Austria.
  5. T. Zok, M. Szachniuk, M. Antczak, "Comparison of RNA structures in torsional angle space", ICOLE2010 – German - Polish Workshop on Computational Biology, Perspectives of Bioinformatics, Operations Research and Machine Learning, 26.09-02.10.2010, Lessach, Austria.
  6. P. Lukasiak, M. Wojciechowski, M. Antczak, M. Szachniuk, J. Blazewicz, "Validation of RNA models by a novel method based on local descriptors approach", EURASNET Interdisciplinary Focus Meeting: Frontiers in Structural Biology of RNAs and RNPs, 16-18.08.2010, Poznan, Poland.
  7. M. Popenda, M. Szachniuk, M. Antczak, K.J. Purzycka, P. Lukasiak, J. Blazewicz, R.W. Adamiak, "RNAComposer: a method and server for large-scale automated modeling of RNA tertiary structures", EURASNET Interdisciplinary Focus Meeting: Frontiers in Structural Biology of RNAs and RNPs, 16-18.08.2010, Poznan, Poland.
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2009

  1. M. Antczak, J. Blazewicz, P. Lukasiak, M. Milostan "DomAn2 - approach for predicting domains boundaries in proteins", II Convention of the Polish Bioinformatics Society in conjunction with 7th Workshop on Bioinformatics, October, Bedlewo, Poland, pp. 21.
  2. A. Hoffa, J. Blazewicz, P. Lukasiak, M. Antczak, "Ligand-protein conformation structure prediction", II Convention of the Polish Bioinformatics Society in conjunction with 7th Workshop on Bioinformatics, October, Bedlewo, Poland, pp. 20.
  3. M. Antczak, J. Blazewicz, P. Lukasiak, M. Milostan "Doman2 - approach for predicting domains boundaries in proteins", EURO XXIII – 23nd European Conference on Operational Research, July, Bonn, Germany, pp. 25, [PDF].
  4. A. Hoffa, J. Blazewicz, P. Lukasiak, M. Antczak, "Bspred method - the new approach used for predicting protein binding sites", EURO XXIII – 23nd European Conference on Operational Research, July, Bonn, Germany, pp. 25, [PDF].
  5. P. Lukasiak, M. Antczak, A. Hoffa, W. Biniecki, M. Wojciechowski, "ProDomAn-Protein Domains Analysis platform", ICOLE’09 – German - Polish Workshop on Computational Biology, Perspectives of Bioinformatics, Operations Research and Machine Learning, 25.05-29.05.2009, Lessach, Austria.
  6. M. Milostan, J. Sarzynska, A. Mickiewicz, M. Antczak, P. Lukasiak, J. Blazewicz, "Protein structure modelling–case study", ICOLE’09 – German - Polish Workshop on Computational Biology, Perspectives of Bioinformatics, Operations Research and Machine Learning, 25.05-29.05.2009, Lessach, Austria.
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2008

  1. J. Blazewicz, P. Lukasiak, M. Milostan, M. Antczak, A. Hoffa, W. Biniecki, M. Wojciechowski, "DomAn2 – method for domain boundaries prediction", 8th Community Wide Experiment on the Critical Assessment of Techniques for Protein Structure Prediction - poster session, December, Sardinia, Italy.
  2. J. Blazewicz, P. Lukasiak, M. Milostan, M. Antczak, A. Hoffa, "BSPred – the new approach used for predicting binding sites in proteins", 8th Community Wide Experiment on the Critical Assessment of Techniques for Protein Structure Prediction - poster session, December, Sardinia, Italy.
  3. M. Antczak, P. Lukasiak, M. Milostan, G. Palik, J. Blazewicz, "DomAnS – method used for domain boundaries prediction", Mini-EURO Conference on Computational Biology, Bioinformatics and Medicine, September, Rome, Italy.
  4. M. Antczak, R. W. Adamiak, P. Lukasiak, M. Popenda, M. Szachniuk, G. Palik, J. Blazewicz, "3D–RNA–Pred: An Automatic Construction of Three–Dimensional RNA Structures", ICOLE’08 – German - Polish Workshop on Computational Biology, Perspectives of Bioinformatics, Operations Research and Machine Learning, June, Lessach, Austria.
  5. P. Lukasiak, J. Blazewicz, M. Antczak, G. Palik, M. Milostan "OR approaches for domain prediction in proteins: methods, assessment", European Chapter on Combinatorial Optimization (ECCO) XXI, May 29-31, 2008, Dubrovnik.
  6. J. Blazewicz, P. Lukasiak, M. Milostan, M. Antczak, G. Palik, "DomAn – methods for domain boundaries prediction", Institute of Bioorganic Chemistry - poster session, June, Poznan, Poland.
  7. M. Antczak, P. Lukasiak, M. Milostan, G. Palik, J. Blazewicz, "Domain Analysis (DomAn) algorithm – approach used for predicting domains in proteins", EurOPT – 2008, EURO Mini Conference, Continuous Optimization and Knowledge-Based Technologies, May, Nerynga, Lithuania.
  8. G. Palik, P. Lukasiak, M. Milostan, M. Antczak, J. Blazewicz, "PMP – Protein Model Platform", EurOPT – 2008, EURO Mini Conference, Continuous Optimization and Knowledge-Based Technologies, May, Nerynga, Lithuania.
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2007

  1. G. Palik, P. Lukasiak, M. Milostan, M. Antczak, J. Blazewicz, "Domain Analysis (DomAn) algorithm - approach used for predicting domains in proteins", COMBI'07: V COMputational BIology Workshop, October, Uniejów, Poland.
  2. M. Antczak, P. Lukasiak, M. Milostan, G. Palik, J. Blazewicz, "Domain Analysis Server (DomAnS) – Protein domains prediction algorithm (DomAn)", ICOLE'07 German - Polish Workshop on Computational Biology, Perspectives of Bioinformatics, Operations Research and Machine Learning, 27.05-02.06.2007, Lessach, Austria.
  3. P. Lukasiak, J. Blazewicz, M. Antczak, M. Milostan, "Quality assessment in structural protein analysis", ICOLE'07 German - Polish Workshop on Computational Biology, Perspectives of Bioinformatics, Operations Research and Machine Learning, 27.05-02.06.2007, Lessach, Austria.
  4. M. Milostan, J. Blazewicz, P. Lukasiak, M. Antczak, G. Palik, "Protein structure analysis using OR approaches", EURO XXII – 22nd European Conference on Operational Research, July, Prague, Czech Republic, pp. 71, [PDF].
  5. P. Lukasiak, M. Antczak, M. Milostan, G. Palik, J. Blazewicz, "DomAnS – approach for predicting domains boundaries in proteins", ECCO XX - CO 2007, Joint Meeting, May, Limassol, Cyprus, pp. 32-33, [PDF].
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2006

  1. P. Lukasiak, M. Antczak, M. Milostan, G. Palik, J. Blazewicz, "DomAnS method – the new approach used for predicting domains boundaries in proteins", 7th Community Wide Experiment on the Critical Assessment of Techniques for Protein Structure Prediction, November, Pacific Groove, California, USA, pp. 93. [PDF].
  2. G. Palik, P. Lukasiak, M. Antczak, J. Blazewicz, "BacktrackingPrim algorithm - the new approach used for solving Partial Digest Problem", Workshop on Networks in Computational Biology, September, Ankara, Turkey, pp. 7-8, [PDF].
  3. P. Lukasiak, M. Antczak, G. Palik, J. Blazewicz, "New approach for Partial Digest Problem", ECCO XIX - CO 2006, Joint Meeting, May, Porto, Portugal, pp. 37-38, [PDF].
  4. M. Antczak, P. Lukasiak, G. Palik, J. Blazewicz, "BacktrackingPrim algorithm - Method used for solving Partial Digest Problem", ICOLE’06 – German - Polish Workshop on Computational Biology, Perspectives of Bioinformatics, Operations Research and Machine Learning, April/May, Lessach, Austria.
  5. G. Palik, P. Lukasiak, M. Antczak, J. Blazewicz, "BacktrackingPrim algorithm - Performed research and obtained results", ICOLE’06 – German - Polish Workshop on Computational Biology, Perspectives of Bioinformatics, Operations Research and Machine Learning, April/May, Lessach, Austria.
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