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About me

I'm a postdoctoral fellow in the lab of Jan Hasenauer where my research revolves around the interfaces of life sciences, mathematics and computer science. We develop mechanistic models (ODE/PDEs) and apply methods of parameter estimation (Julia/Python) for model calibration to shed light on the interplay and ramifications of dynamical biological processes in cells. Therefore also AI-tools, artificial neural networks/DL approaches and recent advances in bioinformatics are exploited. We develop pipelines for statistical data analysis and visualization (R/Python, Javascript/Typescript) of large-scale data sets, knowledge representation and reasoning on metadata using semantic web technologies (graph databases, SPARQL, ontologies) focusing and reusability and reproducibility in the life sciences.

Up to the 2020s I have been working in the field of computational neuroscience. I developed novel numerical methods and grid generation tools for modelling and simulation of spatially-resolved intracellular ion dynamics in neurons by PDEs/ODEs on HPC/HTC infrastructure. We made use of GPU programming on NVIDIA GPUs through CUDA/cg shader programming for interactively visualizing and numerical analysis of scientific data sets in the virtual reality framework Unity VR (C#). Major programming experience stems from C++/C and Lua, Java and Python. I developed prior to that also numerical models for multi-scale and hybrid-dimensional phenomena in molecular dynamics/computational neuroscience and mesh generation methods for the study of intracellular Calcium waves, neuronal plasticity and memory formation.

Contact

Contact information can be found on the left most panel - feel free to browse my recent and public projects.

For secure e-mailing find my GPG fingerprint as: F598 BCFF 445C C90F 3312 3C71 7D30 C7E5 7559 76A6.

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Stephan Grein's Projects

ambilight icon ambilight

Utilizing the OLA project for snoozing lights (wakeup and asleep)

amici icon amici

Advanced Multilanguage Interface to CVODES and IDAS

anamorph icon anamorph

Framework for creating 3d neuronal morphologies from point/diameter descriptions.

benchmark-models-petab icon benchmark-models-petab

A collection of mathematical models with experimental data in the PEtab format as benchmark problems in order to evaluate new and existing methodologies for data-based modelling

caffeine icon caffeine

A high performance caching library for Java 8

ci.gradle icon ci.gradle

Gradle plugins for managing Liberty profile servers #devops

csg.js icon csg.js

Constructive solid geometry on meshes using BSP trees in JavaScript

dancer2 icon dancer2

Perl Dancer Next Generation (rewrite of Perl Dancer)

hypatia.jl icon hypatia.jl

interior point solver for general convex conic optimization problems

jarosado0911 icon jarosado0911

I am currently a graduate student at Temple University studying Computational Neuroscience.

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