BSc/MSc projects
We currently do not accept new BSc/MSc students. Please contact one of the other group leaders at the CCTB.
Ongoing Projects:
2022
| M.Sc. Thesis | Tracking immune cell activity in-vivo with CNNs | Tristan Beste | with Prof. Florian Erhard, Virology |
| M.Sc. Thesis | Unsupervised Deep Learning for live cell segmentation | Helmut Becker | external |
| M.Sc. Project | Automating connectomics of the C.elegans Dauer larva | Felix Fink | with Prof. Christian Stigloher, ICF |
| external | Quantification of tissue growth from time-lapse PhC movies | Tassilo v. Trotha | Supervisor: Mario Benn, ETH |
Completed:
2021
| M.Sc. Project | Automated quantification of axon demyelination in EM images | Jan Hoffmann | Lab Rotation Transl. Neurosci. |
| M.Sc. Project | Bird recognition with Tensorflow on a Raspberry Pi | Sarah Franz | |
| M.Sc. Project | Deep Learning based measurement of wild bee mandibles | Lucas Fortune | with Dr. Samuel Boff, Zoo-3 |
| M.Sc. Project | AI-based detection of synaptic vesicles | Lukas Baltes | |
| M.Sc. Thesis | Reproducible workflow for fMRI-based MDD biomarkers | Martin Hochheimer | with Prof. Hewig, Psychology |
| M.Sc. Project | Quality assessment of Deep Learning CLEM registration | Rick Seifert | |
| M.Sc. Project | Deep Learning for denoising of electron tomograms | Helmut Becker | |
| B.Sc. Project | Fiji plugins to analyze microscopy images of T.brucei | Tuguldur Tumurbaatar | with Dr. Brooke Morriswood, ZEB |
| M.Sc. Project | Neural Network to classify autocorrelation in dSTORM images | Julius Körber |
2020
| M.Sc. Thesis | Applying a U-Net to segment microtubules of T.brucei | Johannes Schmidt | with Markus Engstler, ZEB |
| M.Sc. Thesis | Segmentation of Insect Brain Images Using Deep Neural Networks | Nico Braun | with Prof. Keram Pfeiffer, Zoo-2 |
| M.Sc. Thesis | Optimization of Localization Microscopy with Deep Learning | Andreas Berberich | with Prof. Markus Sauer and Prof. Karl Mannheim |
| M.Sc. Thesis | MR-Imaging of Neurovascular Coupling of the PNS | Christopher Nauroth | with Prof. Mirko Pham, Neuroradiology |
| M.Sc. Project | Automated cell tracking with U-Net and DeepImageJ | Tristan Beste | with Dr. Kathrin Stelzner, Microbiology |
2019
| B.Sc. Thesis | Correlation of Light- and Electron microscopic images using deep neural networks | Rick Seifert | with Prof. Christian Stigloher, ICF |
| B.Sc. Thesis | Automated analysis of cell-cell interactions in in-vivo confocal microscopy | Julia Homer | with Prof. Florian Erhard, Virology |
| M.Sc. Thesis | Annotation of Cryo-EM density maps with convolutional neural networks | Philipp Mostosi | with Dr. Andrea Thorn, Biochemistry |
| M.Sc. Project | Tracing of microtubules in electron tomograms of T.brucei | Johannes Schmidt | with Prof. Markus Engstler, ZEB |
| M.Sc. Project | Live tracking of honey bees for behavioral experiments | Lucas Fortune | with Prof. Ricarda Scheiner, Zoo-2 |
| M.Sc. Project | Benchmarking of unsupervised denoising algorithms | Nico Braun |
2018 and earlier
| M.Sc. Thesis | Machine Learning for segmentation of 3D EM images | Maria Theiss | |
| B.Sc. Thesis | Automated pollen classification with deep learning | Kilian Maidhof | with Dr. Alexander Keller, CCTB |
| M.Sc. Project | Fiji Macro for automated vesicle segmentation in anisotropic EM images | Yannic Lurz | |
| M.Sc. Project | Analyzing filopodia expression in fluorescent images of HEK cells | Martin Hochheimer | Translational Neuroscience |
| M.Sc. Project | GPU-optimized true non-local means denoising | Philipp Mostosi | |
| B.Sc. Project | Pixelwise identification of microtubules in electron tomograms of T.brucei | Johannes Schmidt | |
| B.Sc. Project | Comparison of classical and trainable segmentation for fluorescence images | Mario Schneider |
