News
14.12.2023-15.12.2023
Conference participation
Sergey Samsonov gave invited talk “Computational approaches to understand protein-glycosaminoglycan recognition” at HS-Seq, Berlin Symposium. Berlin, Germany.
07.12.2023-08.12.2023
Scientific visit
Anila Sebastian and Sergey Samsonov visited the group of prof. Daniel Huster at the University of Leipzig (Germany). Sergey Samsonov gave a talk “The dynamic dance: exploring protein-carbohydrate recognition with molecular dynamics” at the seminar at the Institute for Medical Physics and Biophysics.
28.11.2023
PhD Defense
Mateusz Marcisz defended his PhD Thesis “Development of the novel computational approaches for glycosaminoglycans” at the Faculty of Chemistry. Congratulations!
26.11.2023-29.11.2023
Hosting a visit from a collaboration partner
We hosted Prof. Serge Perez from University Grenoble Alpes, who presented at the Chemistry Faculty Seminar his talk “The algorithmic beauty of the starch granule” and discussed the ongoing projects with the group.
15.11.2023-17.11.2023
Conference participation
Annemarie Danielsson presented a poster at ELIXIR 3D BioInfo Community F2F/hybrid meeting in Prague, Czech Republic.
24.09.2023-28.09.2023
Conference participation
All our group participated in the 8th Polish-Korean Conference on Protein Folding. Jastrzębia Góra, Poland. Sergey Samsonov, Martyna Maszota-Zieleniak and Anila Sebastian gave talks, while Łukasz Golon, Mateusz Marcisz, Annemarie Danielsson and Marta Pągielska presented posters.
10.07.2023
Bachelor’s Degree
Marta Pągielska obtained her Bachelor’s Degree and will continue in the group as a Master student. Congratulations!
06.07.2023
PhD Defense
Małgorzata Kogut-Günthel defended her PhD Thesis “Computational Approaches to Characterise Biologically Active Systems Containing Proteins, Carbohydrates, and Ions” at the Faculty of Chemistry. Congratulations!
06.07.2023-07.07.2023
Hosting a visit from a collaboration partner
We hosted Prof. Satoru Tsushima from the University of Tokyo (Japan)/Helmholtz-Zentrum Dresden- Rossendorf (Germany). We discussed ongoing and future common projects.
01.07.2023
New Group Member
Łukasz Golon joined the group as a postdoc. Welcome!
20.06.2023-22.06.2023
Hosting a visit from a collaboration partner
We hosted Prof. Daniel Huster and Dr. Anja Penk from the University of Leipzig (Germany). We discussed ongoing and future common projects.
19.06.2023-22.06.2023
Scientific visit
Marta Pągielska visited the group of prof. Sylvie Ricard-Blum at the University of Lyon (France).
05.06.2023-09.06.2023
Workshop participation and scientific visit
Mateusz Marcisz participated in the workshop (https://glycoalps.univ-grenoble-alpes.fr/glyco-club/glyco-club-s-activities/structural-glycoscience-summer-school-2023-886248.kjsp) l Structural GLycoscience Summer School 2023 in Grenoble (France) and visited the group of prof. Bertrand Huard at the University of Grenoble-Alpes (France).
17.05.2023-28.05.2023
Scientific visit
Mateusz Marcisz the group of prof. Wonpil Im at the University of Lehigh (USA).
03.04.2023
Invited talk
“Modeling glycosaminoglycan containing biologically relevant systems” at the Technical University of Munich (Germany). Sergey Samsonov.
20.03.2023
New Group Member
Anila Sebastian joined the group as a postdoc. Welcome!
24.01.2023
Talk at the University of Gdańsk
“One more little step towards understanding of glycosaminoglycan sulfation code” at the Department of Theoretical Chemistry at the University of Gdańsk. Sergey Samsonov.
04.04.2022
Talk at the University of Gdańsk
“SAXS data assisted modeling of the syndecan-2 and syndecan-4 proteoglycans - part II” at the Department of Theoretical Chemistry at the University of Gdańsk. Martyna Maszota-Zieleniak.
06.12.2022
Talk at the University of Gdańsk
“Solvent models benchmark for molecular dynamics of glycosaminoglycans” at the Department of Theoretical Chemistry at the University of Gdańsk. Mateusz Marcisz.
04.04.2022
Talk at the University of Gdańsk
“Simulation of Coarse-Grained Heparin in the SUGRES-1P force field - First Results” at the Department of Theoretical Chemistry at the University of Gdańsk. Annemarie Danielsson.
12-13.12.2022
Scientific visit
Sergey Samsonov visited the group of prof. Daniel Huster at the University of Leipzig (Germany).
12.12.2022
Grant PHC Polonium for Research projects between France and Poland
We obtained a joint grant from a common program of NAWA (the Polish National Agency for Academic Exchange) and French Republic with the title “Characterization of protein-glycosaminoglycan interactions” together with the group of prof. Ricard-Blum at the University of Lyon (France).
9.11.2022
Hosting a visit from a collaboration partner
We hosted Prof. Daniel Huster and Dr. Anja Penk from the University of Leipzig (Germany). We discussed ongoing and future common projects.
13.09.2022-17.09.2022
Conference participation
The 7th Polish-Korean Conference on Protein Folding. Seoul, South Korea. Poster presentation by Mateusz Marcicz. The poster presentation received an award as the best poster.
11.09.2022-14.09.2022
Conference participation
Chemistry Towards Biology (CTB10). Bratislava, Slovakia. Oral presentations “Computational and experimental analysis of the interactions between glycosaminoglycans and small molecules” by Martyna Maszota-Zieleniak and “Theoretical chemistry approaches to biologically relevant problems in the molecular systems containing glycosaminoglycans” by Sergey Samsonov.
11.07.2022-29.07.2022
Scientific visit
Martyna Maszota-Zieleniak visited the group of prof. Ricard-Blum at the University of Lyon (France).
11.07.2022-15.07.2022
Scientific visit
Margrethe Gaardløs visited the group of prof. Nikitovic at the University of Creete (Greece).
16.05.2022
Hosting a visit from a collaboration partner
We hosted Dr. Georg Künze from the University of Leipzig (Germany). Within his visit, Dr. Künze gave a talk "Biomolecular Structure Determination by NMR Spectroscopy with Paramagnetic Metal Ions and Probes" at the Faculty of Chemistry. We also discussed ongoing and future common projects.
25.04.2022-28.04.2022
Scientific visit
Sergey Samsonov visited the group of prof. Ricard-Blum at the University of Lyon (France).
10-13.05.2022
Conference participation
European ROSETTACON on protein structure prediction and design. Warsaw, Poland. Oral presentations “Molecular Dynamics-based descriptors of 3-O-Sulfated Heparan Sulfate as Contributors of Protein Binding Specificity” by Annemarie Danielsson and “Cyclic peptide approach to model protein- glycosaminoglycan interactions” by Margrethe Gaardløs.
04-06.05.2022
Conference participation
Innogly Annual Meeting 2022. Lugano, Switzerland. Invited talks “Repulsive Scaling Replica Exchange Molecular Dynamics in docking Glycosaminoglycans” by Mateusz Marcisz and “Modeling Biologically Relevant Interactions of Glycosaminoglycans” by Sergey Samsonov.
08.04.2022
Invited talk
“Modeling protein-glycosaminoglycan interactions in biologically relevant systems” Intercollegiate Faculty of Biotechnology of University of Gdańsk/Medical University of Gdańsk. Sergey Samsonov.
04.04.2022
Talk at the University of Gdańsk
“Molecular docking and simulations of GAG-protein interactions” at the Department of Theoretical Chemistry at the University of Gdańsk. Margrethe Gaardløs.
19.01.2022
Invited talk
“Modeling molecular interactions of glycosaminoglycans” at the Lab of Theory of Biopolymers, University of Warsaw. Sergey Samsonov.
21.12.2021
Talk at the University of Gdańsk
“Molecular Dynamics-based descriptors of Heparan Sulfate hexasaccharides” at the Department of Theoretical Chemistry at the University of Gdańsk. Annemarie Danielsson.
14.12.2021
Invited talk
“Computational approaches to study glycosaminoglycan interactions” at the University of Leipzig (Germany). Sergey Samsonov.
13.12.2021-14.12.2021
Scientific visit
Annemarie Danielsson, Margrethe Gaardløs and Sergey Samsonov visited the group of prof. Huster at the University of Leipzig (Germany).
30.11.2021
Talk at the University of Gdańsk (online)
“Computational analysis of ions interactions with proteins and glycosaminoglycas” at the Department of Theoretical Chemistry at the University of Gdańsk. Małgorzata Kogut.
25.11.2021-3.12.2021
Hosting a visit from a collaboration partner
We hosted Brianda Lopez Santini from the group of prof. Zacharias at the Technical University of Munich within the DAAD/NAWA German-Polish Exchange Programme.
25.11.2021
Conference Participation
Online Workshop: “Computational Modeling in Chemistry, Biology and Materials - Making it Mainstream” (https://sites.google.com/cusat.ac.in/workshop/home). Talk "Modeling glycosaminoglycans: advances and challenges" by Sergey Samsonov.
17.11.2021
PhD defense
Krzysztof Bojarski defended his PhD Thesis “Computational approaches to study protein- glycosaminoglycan systems” at the Faculty of Chemistry. Congratulations!
17-21.10.2021
Conference participation
The 6th Polish-Korean Conference on Protein Folding. Jastrzębia Góra, Poland. Invited talk by Sergey Samsonov, short lectures by Martyna Maszota-Zieleniak, Mateusz Marcisz, Margrethe Gaardløs and Krzysztof Bojarski, posters by Małgorzata Kogut and Annemarie Danielsson.
27-29.09.2021
Conference participation
Hybrid Symposium “GlycosAminoGlycans: What remains to be solved?”, Heraklion, Greece. Talk: “Challenges and advances in molecular docking of glycosaminoglycans” by Sergey Samsonov.
24.09.2021
Invited talk
Online seminar at VCU Medical Chemistry Department, Virginia Commonwealth University, USA. Talk “Challenges and advances in molecular docking of glycosaminoglycans” by Sergey Samsonov.
01.09.2021
New Group Member
Margrethe Gaardløs joined the group as a postdoc.
28.07.2021
Workshop participation
We participated in the online workshop on Computational Analysis Tools (CAT) provided by Dr. Martin Frank (glycosciences.deö Biognow AB Göteborg, Sweden)
14.07.2021
Invited talk
“Modeling molecular interactions of glycosaminoglycans” at the Technical University of Munich (Germany). Sergey Samsonov and Krzysztof Bojarski
June-July 2021
Scientific visit
Krzysztof Bojarski and Sergey Samsonov visited the group of prof. Zacharias at the Technical University of Munich (Germany) on 12-15.07.2021 and 16.06-15.07.2021, respectively.
23-25.06.2021
Conference Participation
Online Joint Warren and Beilstein Symposium on Glycosciences. Talk "Computational insights into modeling protein-glycosaminoglycan interactions" by Sergey Samsonov.
02.06.2021
Talk at the University of Gdańsk (online)
“Even more glycosaminoglycans: ongoing projects” at the Department of Theoretical Chemistry at the University of Gdańsk. Sergey Samsonov.
26.05.2021
Talk at the University of Gdańsk (online)
“The Specificity of Interaction of Interleukin-8 with Glycosaminoglycans: Comparison with Acidic Peptides” at the Department of Theoretical Chemistry at the University of Gdańsk. Annemarie Danielsson.
19.05.2021
“Glycosaminoglycans in modeling: does the size matter?” at the Department of Theoretical Chemistry at the University of Gdańsk. Mateusz Marcisz.
“Computational approaches to study protein-glycosaminoglycan systems” at the Department of Theoretical Chemistry at the University of Gdańsk. Krzysztof Bojarski.
05.05.2021
Talk at the University of Gdańsk (online)
“Glycosaminoglycans in modeling: does the size matter?” at the Department of Theoretical Chemistry at the University of Gdańsk. Mateusz Marcisz.
05.05.2021
Talk at the University of Gdańsk (online), Faculty Seminar
"Modeling biologically relevant interactions with glycosaminoglycans” at the Faculty of Chemistry at the University of Gdańsk. Sergey Samsonov.
20.01.2021
Talk at the University of Gdańsk (online)
“Evaluation of Replica Exchange with Repulsive Scaling Approach for Docking Glycosaminoglycans” at the Department of Theoretical Chemistry at the University of Gdańsk. Martyna Maszota-Zieleniak.
16.12.2020
Talk at the University of Gdańsk (online)
“Computational approaches to study protein-glycosaminoglycan systems” at the Department of Theoretical Chemistry at the University of Gdańsk. Krzysztof Bojarski.
6.12.2020
Grant from DAAD-NAWA
We obtained a joint grant from a common program of DAAD (The German Academic Exchange Service) and NAWA (the Polish National Agency for Academic Exchange) with the title “Advanced and innovative computational approaches to study protein-glycosaminoglycan systems” together with the group of prof. Zacharias at the Technical University of Munich.
04.10.2020
Talk at the University of Gdańsk (online)
“Computational insights into the role of ions in protein-glycosaminoglycan systems” at the Department of Theoretical Chemistry at the University of Gdańsk. Małgorzata Kogut.
04.10.2020
Conference participation (online)
The first Pomeranian Student Chemial Symposium 2020. Poster presentation “The effect of GAG chain polarity on its interactions with proteins” (in Polish) by Krzysztof Bojarski.
01.10.2020
New Group Member
Annemarie Danielsson joined the group as a PhD student. Welcome!
28.04.2020
Talk at the University of Gdańsk (online)
“Modeling AlgE4 and alginate interactions” at the Department of Theoretical Chemistry at the University of Gdańsk. Sergey Samsonov.
14.04.2020
Talk at the University of Gdańsk (online)
“April protein and GAGs” at the Department of Theoretical Chemistry at the University of Gdańsk. Mateusz Marcisz.
01.03.2020
New Group Member
Małgorzata Kogut joined the group as a PhD student. Welcome!
17-19.02.2020
Conference participation
34th Molecular Modelling Workshop 2020 (Erlangen, Germany). Talk “Challenges in modeling protein-glycosaminoglycan systems” by Krzysztof Bojarski.
18-20.12.2019
Hosting a visit from a collaboration partner
We hosted dr. Aleksei Sysa from International Sakharov Environmental Institute (Minsk, Belarus). We also discussed ongoing and future common projects.
10-12.12.2019
Hosting a visit from a collaboration partner
We hosted Prof. Sylvie Ricard-Blum from the University of Lyon (France). Within her visit, Prof. Ricard-Blum gave a talk "Extracellular glycosaminoglycan-binding proteins: from structure to interactions" at the Faculty of Chemistry. We also discussed ongoing and future common projects.
11.12.2019
Talk at the University of Gdańsk
“The progress in Sonata Bis project." at the Department of Theoretical Chemistry at the University of Gdańsk. Sergey Samsonov.
11.11.2019
Invited Talk
“Glycosaminoglycan binding: specific or not?” at the Technical University of Munich (Germany). Sergey Samsonov.
07.10.2019
New Group Member
Martyna Maszota-Zieleniak joined the group as a Postdoctoral Researcher. Welcome!
01.10.2019
New Group Member
Mateusz Marcisz joined the group as a PhD student. Welcome!
16-18.09.2019
Conference participation
5-th Polish - Korean Conference on Protein Folding (Seoul, Korea). Talk “Modeling insights into glycosaminoglycan biologically relevant functions” by Sergey Samsonov. Talk “(Pro)cathepsins and glycosaminoglycans – the significance of their complexes in biological systems” by Krzysztof Bojarski.
30.06-04.07.2019
Conference participation
XXth European Carbohydrate Symposium (Leiden, the Netherlands). Talk “Modeling insights into molecular mechanisms underlying the role of glycosaminoglycans in cell signaling processes” by Sergey Samsonov. Poster presentation “Does a microsecond timescale molecular dynamics simulation provide a deeper view on protein-glycosaminoglycan system?” by Krzysztof Bojarski.
24-28.06.2019
Conference participation
Workshop Multiscale Modeling, Lorentz Symposium (Leiden, the Netherlands). Poster presentation “Glycosaminoglycan Coarse-Grained Models” by Sergey Samsonov.
23-24.05.2019
Conference participation
Sakharov Reading 2019: Environmental Problems of XXI century (Minsk, Belarus). Talk “Cathepsins, glycosaminoglycans and biological role of their interactions” by Krzysztof Bojarski; talk “Modeling glycosaminoglycans – key molecules for tissue regeneration” by Sergey Samsonov. Co-organization of the event by Sergey Samsonov.
25.04.2019
Talk at the University of Gdańsk
“Polonez project. Summary" at the Department of Theoretical Chemistry at the University of Gdańsk. Sergey Samsonov.
19.04.2019
Invited talk
Modeling protein-glycosaminoglycan interactions" at International Sakharov Environmental Institute (Minsk, Belarus). Sergey Samsonov.
25.02-31.07.2019
Visiting student
Jan Potthoff from the Free University of Berlin joined our group within the Erasmus Programme.
