Matej Praprotnik

Sub-THz acoustic excitation of protein motion. Colloquium CRC 1114, FU Berlin, Berlin, Germany, February 15, 2024.

Keynote lecture: DPD simulation of ultrasound propagation through liquid water. Slovenian Chemical Society Annual Meeting 2023, Portorož, Slovenia, September 13, 2023.
DPD simulation of ultrasound propagation through liquid water. 10th International Congress on Industrial and Applied Mathematics (ICIAM 2023), Tokyo, Japan, August 24, 2023.

Dissipative Particle Dynamics simulation of ultrasound propagation through liquid water. CaSToRC - HPC National Competence Centre - EuroCC and SimEA Online Seminar Series, CaSToRC, The Cyprus Institute, Nicosia, Cyprus, November 8, 2022.
Dissipative Particle Dynamics simulation of ultrasound propagation through liquid water. Widely Applied Mathematics Seminar, Harvard John A. Paulson School of Engineering and Applied Sciences, Harvard University, Boston, USA, October 13, 2022.
Plenary lecture: Multiscale simulations of bimolecular systems. Regional Biophysics Conference 2022, Pécs, Hungary, August 23, 2022.
Multiscale modeling in soft and biological matter. Modeling Materials at Realistic time Scales via Optimal Exploitation of Exascale Computers and Artificial Intelligence, NOMAD-E-CAM Workshop and Hands-on Tutorial, IRIS Adlershof, Berlin, Germany, July 26, 2022.
Multiscale simulations of open molecular systems. Complex Fluids and Soft Matter (CFSM) Seminar Series, May 18, 2022.

Multiscale simulations of open molecular systems. JSI Colloquia, Jožef Stefan Institute, Slovenia, November 24, 2021.
Use of urgent supercomputing in tackling the pandemic. From Open Data to Innovation: 2nd NI4OS-Europe Dissemination Event in Slovenia collocated with the Network of Knowledge 2021 Conference, Slovenia, November 24, 2021.
Multiscale simulations of open molecular systems. CRC 1114, Scaling Cascades in Complex Systems, FU Berlin, Germany, March 3, 2021.
Open Boundary Molecular Dynamics of DNA. 9th Minisymposium of the SFB TRR 102, Martin-Luther-Universitaet Halle-Wittenberg, Halle, Germany, February 5, 2021.

Open Boundary Molecular Dynamics of DNA. Theoretical and Computational Biophysics Group, Beckman Institute for Advanced Science & Technology, University of Illinois at Urbana-Champaign, USA, February 3, 2020.

Plenary lecture: Scientific case for computing in Europe 2018-2026. The 15th International Symposium on Operations Research in Slovenia - SOR’19, Bled, Slovenia, September 25-27, 2019.
Mixed resolution schemes. CECAM/IRTG school: Bio/Soft Matter Simulations across Multiple Scales, Crowne Plaza Hotel, Heidelberg, Germany, September 18-20, 2019.
Rotation of star polymers under shear flow: Application of the Eckart frame to soft matter. Public Seminar, Max Planck Institute for Polymer Research, Mainz, Germany, July 23, 2019.
Multi-resolution techniques. Summer School in Multi-Scale Modelling, Lorentz Center, Leiden, the Netherlands, June 17-21, 2019.
Open Boundary Molecular Dynamics of biomolecular systems. Out of Equilibrium Soft Matter Systems - From Driven to Active Systems, Kavli Institute for Theoretical Sciences, University of Chinese Academy of Sciences, Beijing, China, May 19-24, 2019.
Open Boundary Molecular Dynamics of DNA. Institute of Physics, Chinese Academy of Sciences, Beijing, China, January 23, 2019.

Concurrent coupling of MD and DPD. Coupling and Linking Simulations - EMMC Expert Meeting and Roadmap, CECAM-HQ-EPFL, Lausanne, Switzerland, November 8-9, 2018.
Open Boundary Molecular Dynamics of a DNA molecule in a hybrid explicit/implicit salt solution. Advances in Computational Statistical Physics, CIRM, Marseille, France, September 17-21, 2018.
Open Boundary Molecular Dynamics of DNA. CECAM Workshop: Computational Biophysics on your Desktop: Is that Possible?, University of Trento, Trento, Italy, September 3-6, 2018.
Multiscale simulations of biomolecular systems. CANES (Cross-Disciplinary Approaches to Non-Equilibrium Systems) Seminar Series, King's College London, London, UK, May 23, 2018.
Adaptive resolution simulations coupling atomistic water to dissipative particle dynamics. "Multiscale and Non-Continuum Flows", Special Interest Group meeting, Queen Mary University of London, London, UK, April 18, 2018.

Adaptive resolution simulations coupling atomistic to supramolecular water. PASC17, Palazzo dei Congressi, Lugano, Switzerland, June 26-28, 2017.
Multiscale simulations of DNA. Bioorigami – Designed Bionanostructures from Nucleic Acids to Proteins and beyond, National Institute of Chemistry, Ljubljana, Slovenia, June 21-23, 2017.
Open Boundary Molecular Dynamics Simulation. Seminar SBP, SISSA, Trieste, Italy, June 8, 2017.
Adaptive resolution simulations of supramolecular water. E-CAM Workshop: State of the Art in Mesoscale and Multiscale Modeling, CECAM-IRL, University College Dublin, Dublin, Ireland, May 29 - June 1, 2017.
Adaptive resolution simulations of DNA. Multiscale Modeling and Experimental Approaches to Genome Organization, Ecole de Physique, Les Houches, France, April 2-7, 2017.
Adaptive resolution simulations of supramolecular water models. First Workshop on Hybrid Methods in Molecular Simulation, University of Cagliari, Cagliari, Italy, April 3-4, 2017.
Open Boundary Molecular Dynamics. Scaling Cascades in Complex Systems, FU Berlin, Berlin, Germany, March 27-29, 2017.
Concurrent coupling of atomistic and supramolecular water models. COST Action MP1305 Flowing Matter WG2+WG3 Meeting, Erlangen, Germany, February 28-March 3, 2017.

Adaptive resolution simulations coupling atomistic models to MARTINI. Multiscale Simulation Methods in Soft Matter Systems II, Darmstadt, Germany, October 4-6, 2016.
Open boundary molecular dynamics of star-polymer melts. The 12th World Congress on Computational Mechanics and The 6th Asia-Pacific Congress on Computational Mechanics, Seoul, Korea, July 24-29, 2016.
Adaptive resolution simulation of supramolecular water models. 2016 SIAM Conference on Mathematical Aspects of Material Science, Philadelphia, Pennsylvania, USA, May 8-12, 2016.

Adaptive resolution simulation of polarizable supramolecular water models. 13th US National Congress on Computational Mechanics, San Diego, CA, USA, July 26-30, 2015.
Adaptive resolution simulations of supramolecular coarse-grained water models. ZCAM Workshop: Molecular Hydrodynamics Meets Fluctuating Hydrodynamics, Residencia La Cristalera, Miraflores de la Sierra, Madrid, Spain, May 10-14, 2015.
Napredne metode simulacij molekulske dinamike - večskalne simulacije z uporabo polja sil MARTINI, odprte simulacije molekulske dinamike in hibridne metode za simulacijo nanofluidike. 2. mednarodna spomladanska šola fizike - delavnice iz biofizike, Maribor, Slovenia, May 5-12, 2015.
Simulacije z uporabo metode AdResS: sklopitev atomistične in grobozrnate resolucije. 2. mednarodna spomladanska šola fizike - delavnice iz biofizike, Maribor, Slovenia, May 5-12, 2015.

Multiscale simulations of water flow past/through nanoscale objects. CECAM Workshop: Scale-Bridging Techniques in Molecular Simulation: A Critical Appraisal, Zuse-Institut Berlin (ZIB), Berlin, Germany, August 25-27, 2014.
Adaptive resolution simulation of atomistic protein in multiscale water. 11th World Congress on Computational Mechanics (WCCM XI) and 5th European Conference on Computational Mechanics (ECCM V) and 6th European Conference on Computational Fluid Dynamics (ECFD VI), Barcelona, Spain, July 20-25, 2014.

Open molecular dynamics simulation of star polymers. III International Conference on Particle-Based Methods. Fundamentals and Applications (Particles 2013), Stuttgart, Germany, September 18-20, 2013.
Open molecular dynamics simulation of star polymers. Austrian-Slovenian Polymer Meeting (ASPM 2013), Bled, Slovenia, April 3-5, 2013.

Adaptive resolution simulations coupled to continuum. IUTAM Symposium on Particle Methods in Fluid Mechanics, Technical University of Denmark, Kgs. Lyngby, Denmark, October 15-16, 2012.
Multiscale simulation of liquids. 12th International Conference Computational and Mathematical Methods in Science and Engineering (CMMSE), La Manga - Murcia, Spain, July 2-5, 2012.
Coupling atomistic and continuum hydrodynamics. Modeling Soft Matter: Linking Multiple Length and Time Scales, Kavli Institute for Theoretical Physics, University of California, Santa Barbara, USA, June 4-8, 2012.

Concurrent multiscale simulation of molecular liquids. CECAM Workshop: Multiscale Modeling of Simple and Complex Liquid Flow Using Particle-Continuum Hybrids, ZCAM, Zaragoza, Spain, October 5-7, 2011.
Multiscale simulation methods for liquids. Cambridge-Edinburgh Meeting, Department of Chemistry, University of Cambridge, Cambridge, UK, April 26-27, 2011.
Multiscale simulations of fluids. INRIA, Grenoble, France, April 20, 2011.

Hybrid methods for multiscale simulation of liquids. ETHZ - CECAM - ESF Workshop in Multiscale Modeling and Simulation, Kartause Ittingen, Switzerland, October 19-22, 2010.
Linking atomistic and continuum hydrodynamics. Novel Simulation Approaches to Soft Matter Systems Workshop, Dresden, Germany, September 20-24, 2010.
Hybrid methods for multiscale flow simulations. Regional Biophysics Conference 2010, Primosten, Croatia, September 15-18, 2010.
AdResS: Concurrent coupling of different levels of resolution in molecular simulations. 2010 Workshop on Multiscale Molecular Modelling: Molecular Dynamics, Computational Statistical Mechanics, and Simulation Algorithms, University of Edinburgh, Edinburgh, UK, June 30 - July 3, 2010.
Linking length scales in molecular simulations. ACAM Workshop: Dynamic Coarse-Graining: Towards Quantitative Mesoscale Modeling of Complex Fluids, ACAM, Dublin, Ireland, May 19-21, 2010.

Hybrid atomistic-continuum methods for dense liquids. International Autumn School "Molecular simulations at different scale - future and perspectives on modeling interfaces", Technische Universität Darmstadt, Darmstadt, Germany, September 24-25, 2009.
Coupling MD with continuum through a mesoscopic model. International Autumn School "Molecular simulations at different scale - future and perspectives on modeling interfaces", Technische Universität Darmstadt, Darmstadt, Germany, September 24-25, 2009.
Adaptive resolution simulation. The 3rd Adriatic Meeting on Computational Solutions in the Life Sciences, Primosten, Croatia, September 1-5, 2009.
Adaptive resolution molecular dynamics simulation. EPSRC Symposium Workshop on Molecular Dynamics, Mathematics Research Centre, University of Warwick, Coventry, UK, June 1-5, 2009.
Coupling atomistic and continuum hydrodynamics through a mesoscopic model. IWoM3 2009 - International Workshop on Multiscale Materials Modeling, Harnack House, Berlin, Germany, March 10-13, 2009.

Adaptive resolution simulation of molecular liquids. Sonderforschungsbereich (SFB) 716: Summer School "Hybridsimulationen" und Statusseminar, Universität Stuttgart, Pforzheim-Hohenwart, Germany, September 8-10, 2008.
Concurrent triple-scale simulation of molecular liquids. Computational Science & Engineering Laboratory, ETH Zurich, Zurich, Switzerland, May 14, 2008.

Adaptive resolution simulation of liquid water. New Developments in Computational Physics: CompPhys07 - 8th International NTZ Workshop, Institut für Theoretische Physik, Universität Leipzig, Leipzig, Germany, November 29 - December 1, 2007.
Adaptive resolution molecular dynamics simulations. Departamento de Fisica Teoretica de la Materia Condensada, Universidad Autonoma de Madrid, Madrid, Spain, May 26, 2007.

Fast vibrational modes in molecular simulation studies. Through Science to Stability: 1st South Eastern European Workshop on Practical Approaches to Computational Biology, Opatija, Croatia, September 1-4, 2005.

Invited Talks & Lectures