Publications

Preprints

Rupprecht P, Rozsa M, Fang X, Svoboda K, Helmchen F (2025). Spike inference from calcium imaging data acquired with GCaMP8 indicators. bioRxiv. doi: doi.org/10.1101/2025.03.03.641129. link

Rupprecht P, Fan W, Sullivan SJ, Helmchen F, Sdrulla A (2024) Spike inference from mouse spinal cord calcium imaging data. bioRxiv. doi: doi.org/10.1101/2024.07.17.603957. link

Hu B, Temiz NZ, Chou CN,  Rupprecht P, Meissner-Bernard C, Titze B, Chung SY,  Friedrich RW (2024). Representational learning by optimization of neural manifolds in an olfactory memory network. bioRxiv. doi:10.1101/2024.11.17.623906v1. link

Peer-reviewed publications

O’Neill PS, Baccino-Calace M, Rupprecht P, Lee S, Hao YA, Lin MZ, Friedrich RW, Mueller M, Delvendahl I (2025) A deep learning framework for automated and generalized synaptic event analysis. eLife 13. link

Groos D, Reuss AM*, Rupprecht P*, Stachniak T, Han S, Lewis CM, Sych Y, Wieckhorst M, Karayannis T, Aguzzi A, Helmchen F (2025) A distinct hypothalamus-habenula circuits govern risk preference. Nature Neuroscience 28, 361-373. link (*equal contribution)

Meissner-Bernard C, Jenkins B, Rupprecht P, Arn Bouldoires E, Zenke F, Friedrich RW§, Frank T§ (2025). Computational functions of precisely balanced neuronal assemblies in an olfactory memory network. Cell Reports 44, 115330. link (§ co-senior authors)

Rupprecht P, Duss SN, Becker D, Lewis CM, Bohacek J, Helmchen F (2024) Centripetal integration of past events by hippocampal astrocytes and its regulation by the locus coeruleus. Nature Neuroscience. 27, 927-939.link

Masala N, Mittag M, Ambrad Giovannetti E, O'Neil DA, Distler FJ, Rupprecht P, Helmchen F, Yuste R, Fuhrmann M, Beck H, Wenzel M, Kelly T (2024) Aberrant hippocampal Ca2+ micro-waves following synapsin-dependent adenoviral expression of Ca2+ indicators. eLife, 13.link

Rupprecht P, Carta S, Hoffmann A, Echizen M, Kitamura K, Helmchen F§, Friedrich RW§ (2021) A deep learning toolbox for noise-optimized, generalized spike inference from calcium imaging data. Nature Neuroscience. 24(9):1324-1337. link (§ co-senior authors)

Schoenfeld G*, Carta S*, Rupprecht P, Ayaz A, Helmchen F (2021). In vivo calcium imaging of CA3 pyramidal neuron populations in adult mouse hippocampus. eNeuro. 8(4):ENEURO.0023-21.2021. link (* equal contribution)

Huang KH, Rupprecht P, Frank T, Kawakami K, Bouwmeester T, Friedrich RW (2020). A virtual reality system to analyze neural activity and behavior in adult zebrafish. Nature Methods. 17(3), 343-351. link

Rupprecht P, Friedrich RW (2018). Precise synaptic balance in the zebrafish homolog of olfactory cortex. Neuron 100(3), 669-683. link

Berens P, Freeman J, Deneux T, Chenkov N, McColgan T, Speiser A, Macke JH, Turaga SC, Mineault P, Rupprecht P, Gerhard S, Friedrich RW, Friedrich J, Paninski L, Pachitariu M, Harris KD, Bolte B, Machado TA, Ringach D, Stone J, Rogerson LE, Sofroniew NJ, Reimer J, Froudarakis E, Euler T, Roso MR, Theis L, Tolias AS, Bethge M (2018). Community-based benchmarking improves spike rate inference from two-photon calcium imaging data. PLoS Computational Biology 14(5), e1006157. link

Jacobson GA, Rupprecht P, Friedrich RW (2018). Experience-dependent plasticity of odor representations in the telencephalon of zebrafish. Current Biology 28(1), 1-14. link

Rupprecht P, Prendergast A, Wyart C, Friedrich RW (2016). Remote z-scanning with a macroscopic voice coil motor for fast 3D multiphoton laser scanning microscopy. Biomedical Optics Express 7(5), 1656-1671. link

Rupprecht P, Prevedel R, Groessl F, Haubensak WE, Vaziri A (2015). Optimizing and extending light-sculpting microscopy for fast functional imaging in neuroscience. Biomedical Optics Express 6(2), 353-368. link

Rupprecht P, Golé L, Rieu JP, Vézy C, Ferrigno R, Mertani HC, Riviere C (2012). A tapered channel microfluidic device for comprehensive cell adhesion analysis, using measurements of detachment kinetics and shear stress-dependent motion. Biomicrofluidics 6(1), 014107. link