Lectures related to Coarse-Grained Simulations: Basics and Applications

Coarse-Grained Simulations: Fundamentals and Applications

Covers the fundamentals and applications of coarse-grained simulations, including advantages, challenges, single-scale simulations, brain modeling techniques, and lipid membrane coarse-graining.

Simulation: Control of Dynamic Systems

Explores simulation of common structures and control of dynamic systems through friction and elasticity constants.

Simulation in Biophysics

Explores simulation in biophysics, covering types, applications, considerations, and precision in soft matter problems.

Protein Lipidation: Membrane Localization and Signalling

Covers protein lipidation, membrane localization, major lipid classes, signaling modulation, and lipid rafts in biological membranes.

Efficient Stochastic Numerical Methods

Explores efficient stochastic numerical methods for modeling and learning, covering topics like the Analytical Engine and kinase inhibitors.

Molecular dynamics under constraints

Explores molecular dynamics simulations under holonomic constraints, focusing on numerical integration and algorithm formulation.

Scientific Computing in Neuroscience

Explores the history and tools of scientific computing in neuroscience, emphasizing the simulation of neurons and networks.

Protein Lipidation: Membrane Organization

Explores protein lipidation, membrane localisation, lipid modification impact on signalling, and dynamic lipidation processes.

Optimization and Simulation: Introduction to Simulation

Introduces state-of-the-art methods in optimization and simulation, covering topics like statistical analysis, variance reduction, and simulation projects.

Classical Molecular Dynamics: Simulation and Integration Algorithms

Explores classical molecular dynamics simulations, integration algorithms, and trajectory accuracy.

Lipids: Fundamentals and Properties

Covers the fundamentals of lipids, their roles in the cell membrane, and the influence of (un)saturated chains and cholesterol on membrane stability.

Verlet Scheme: Magnetic Fields and Speed Dependent Forces

Explores the Verlet scheme, magnetic fields, speed-dependent forces, and nonlinear physics through simulations and exercises.

Simulation & Optimization: Poisson Process & Random Numbers

Explores simulation pitfalls, random numbers, discrete & continuous distributions, and Monte-Carlo integration.

Malaria Parasite: Transport Mechanisms in Host Cell

Explores the transport mechanisms of the Malaria Parasite in the Red Blood Cell, focusing on protein export, nutrient import, and lipid transport.

Molecular Dynamics and Monte Carlo: Computational Environment

Covers the computational environment for Molecular Dynamics and Monte Carlo exercises, emphasizing theoretical understanding over coding skills.

Network Simulation and Activity Dynamics

Explores neural network simulation, activity dynamics, and validation processes to ensure accurate predictions.

Hybrid QM/MM Approaches

Covers Hybrid QM/MM Approaches, explaining system partitioning, MM potential forms, and practical QM/MM implementation.

Modeling Prisoner's Dilemma: Naive vs. Optimal

Explores the modeling of the '100 prisoners' problem and compares naive and optimal approaches.

Molecular dynamics and integrators

Explores molecular dynamics, integrators, trajectory generation, and error monitoring in atomistic modeling.

Computational Cell Biology: Simulations Insights

Explores computer simulations in cell biology, focusing on Molecular Dynamics and Monte Carlo, to gain insights into complex biological systems and their limitations.