About

I am currently a Computation & Theory Fellow at HHMI Janelia Research Campus.

With a multidisciplinary background in mathematics, computation, optics and biophysics, I am interested in various research questions at the intersection of machine learning, computer simulations, microscopy, and cell and tissue biology. Using computer simulations and machine learning tools, I aim to advance microscopy techniques and to gain insight into the workings of cells and tissues at the ultrastructure level. My interdisciplinary research has allowed me to gain broad experience collaborating with computer scientists, theorists and experimentalists.

If you are interested in my work, take a look at some of my projects below, or read more about my research at janelia.org.

Research Interests

I am interested in the following research topics:

  • Machine learning
  • Simulations
  • Neural representations
  • Graph neural networks
  • Adaptive optics
  • Super-resolution imaging

Projects

Here is a short overview of some of my projects:

Adaptive optics for fluorescence microscopy

Microscopy images are often distorted due to imperfections in the optical system, or inhomogeneous refractive indices of the sample. Together with the Shroff lab at Janelia, I work on enhancing and optimizing wavefront sensing techniques for fluorescence microscopy with the aim of achieving optimal correction in real-time.
[Paper] [Code]

Simulation of point-spread functions

Fluorescent molecules exhibit anisotropic emission that leads to intricate point-spread functions. We developed a simulation tool to accurately model these PSFs, which is crucial to achieve accurate and unbiased results in single-molecule localization techniques.
[Paper] [Code]

Graph neural networks for understanding biological systems

Together with the Saalfeld lab at Janelia, we explore graph neural networks to learn the interaction rules between complex dynamical systems observed in biology.
[Preprint]

Publications

For a full list of publications please see my ORCID or Google Scholar page.

CVML Blog

We started a blog for our Janelia CVML interest group that highlights papers discussed by Janelia’s computer vision and machine learning researchers. I contributed to the following blog entries:

Magdalena C. Schneider