Junior group leader in neuroscience - calcium imaging, ephys, plasticity, microscopy, data analysis. PhD with @RainerFriedri12, postdoc with @FritjofHelmchen.
Zürich, Switzerland
Joined October 2017
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Very excited about this preprint! We use a K-mirror and a tunable lens to flexibly align the two-photon imaging plane with curved biological structures. Great work of PhD student @ShinjinNeuro101, with Fritjof Helmchen, @LucaGodenzini, and many others! biorxiv.org/content/10.64898…
Peter Rupprecht retweeted
goddamn I love biophysics
biorxiv.org/content/10.64898…
With this, we can align the imaging plane with the structure of interest, for example the curved cell layer in hippocampal CA1 or CA3. Finally we can get all the cells bodies in focus.
The optical design is simple and can be integrated as add-on into existing microscopes. We provide 3D-printed designs, Python code to simulate the beam path, and code for integration with ScanImage on GitHub: github.com/HelmchenLabSoftwa…
Check out the manuscript for many examples how this method can be applied in cerebellum, hippocampus and cortex using windows, cannulas and prisms, with calcium and glutamate sensors: biorxiv.org/content/10.64898…
A K-mirror a very simple device: it simply rotates the image or, for two-photon microscopy, the scan field.
Peter Rupprecht retweeted
Correcting axial-motion artifacts in two-photon calcium imaging with suite2p-in-depth
biorxiv.org/content/10.64898…
ALT Figure 1 shows mouse neuron and retinal axonal-bouton images in x-y and x-z views, illustrating fluorescence changes caused by axial motion. Diagrams explain z-stack correction using a reference stack and ROI-specific depth profiles, and volume-based z-registration using repeated imaging planes to reconstruct fluorescence at a common depth. Figure 1: Liad J. Baruchin, Maria Cozan, Andrew Mikhniak, Carsen Stringer and Sylvia Schröder. Source: https://www.biorxiv.org/content/10.64898/2026.09.25.754364v1. CC BY 4.0: https://creativecommons.org/licenses/by/4.0/. Complete figure downloaded from bioRxiv; no crop.
Peter Rupprecht retweeted
⚠️PREPRINT ALERT⚠️
How can we better understand distributed brain activity across temporal and spatial scales?
In this collaborative project, we combined ultra-flexible electrodes with two-photon imaging to illuminate brain-wide neural dynamics.
doi.org/10.21203/rs.3.rs-102…
1/8
Interesting work by Yoon et al. from the lab of Na Ji on how axial imaging resolution (3.5- 20 um) affects the extraction of accurate neuronal signals. Very instructive: biorxiv.org/content/10.64898…
Peter Rupprecht retweeted
Today's publication by isab.science pushes the boundaries of neuropathological visualizations. Congrats to all authors!
Excited to share our work now in Nature Methods!
We wrote this manuscript to help others better analyze and interpret calcium imaging data. As a central aspect, we show why nonlinear behavior of calcium indicators matters in practice.
Very happy about this work!
An Analysis from @ptrrupprecht @UZH_en @AllenInstitute et al investigates the behavior of GCaMP8 variants in spike inference using different algorithms.
nature.com/articles/s41592-0…
Peter Rupprecht retweeted
An Analysis from @ptrrupprecht @UZH_en @AllenInstitute et al investigates the behavior of GCaMP8 variants in spike inference using different algorithms.
nature.com/articles/s41592-0…
If you miss science twitter (or its neuroscience section), maybe you should join NeuroMethods on zulip (similar to slack but better): neuromethods.zulipchat.com/l…
If you have no idea what this is about, here's a brief blog post with the history: gcamp6f.com/2026/07/21/neuro…
Looking forward to #FENS2026 next week!
I will present a poster on effects of LC🔵 and arousal on astrocytes and neurons: PS06-09PM-201
Shinjini Ghosh @ShinjinNeuro101 will present her work on a Theremin-based auditory virtual environment for mice: PS04-08PM-568
"Hippocampal neuronal and astrocytic responses to noradrenaline and natural arousal."
Happy to share that our paper is now out as a reviewed preprint @eLife : elifesciences.org/reviewed-p…
I really liked the process at @eLife so far. It's quite motivating to do revision experiments not in order to get the paper accepted but in order to make the paper better!
Peter Rupprecht retweeted
I wanted to like QED's new 1% preprint ranking. But the more I looked at the data, the more uncomfortable it made me. Here is my full peer review:
open.substack.com/pub/blekhm…
The YouTube channel of
@Kurz_Gesagt
made a great and accessible video on how memories are stored in our brains. I wrote a blog post to provide additional context and details for those interested in the view of a neurophysiology researcher: gcamp6f.com/2026/06/22/what-…
