PUBLICATION
High-fidelity estimates of spikes and subthreshold waveforms from 1-photon voltage imaging in vivo
- Authors
- Xie, M.E., Adam, Y., Fan, L.Z., Böhm, U.L., Kinsella, I., Zhou, D., Rozsa, M., Singh, A., Svoboda, K., Paninski, L., Cohen, A.E.
- ID
- ZDB-PUB-210409-11
- Date
- 2021
- Source
- Cell Reports 35: 108954 (Journal)
- Registered Authors
- Cohen, Adam
- Keywords
- signal extraction, voltage imaging
- MeSH Terms
-
- Action Potentials/physiology*
- Algorithms
- Animals
- Computer Simulation
- Hippocampus/physiology
- Imaging, Three-Dimensional*
- Mice, Transgenic
- Photons*
- Pyramidal Cells/physiology
- Reproducibility of Results
- Signal Transduction
- Zebrafish
- PubMed
- 33826882 Full text @ Cell Rep.
Citation
Xie, M.E., Adam, Y., Fan, L.Z., Böhm, U.L., Kinsella, I., Zhou, D., Rozsa, M., Singh, A., Svoboda, K., Paninski, L., Cohen, A.E. (2021) High-fidelity estimates of spikes and subthreshold waveforms from 1-photon voltage imaging in vivo. Cell Reports. 35:108954.
Abstract
The ability to probe the membrane potential of multiple genetically defined neurons simultaneously would have a profound impact on neuroscience research. Genetically encoded voltage indicators are a promising tool for this purpose, and recent developments have achieved a high signal-to-noise ratio in vivo with 1-photon fluorescence imaging. However, these recordings exhibit several sources of noise and signal extraction remains a challenge. We present an improved signal extraction pipeline, spike-guided penalized matrix decomposition-nonnegative matrix factorization (SGPMD-NMF), which resolves supra- and subthreshold voltages in vivo. The method incorporates biophysical and optical constraints. We validate the pipeline with simultaneous patch-clamp and optical recordings from mouse layer 1 in vivo and with simulated and composite datasets with realistic noise. We demonstrate applications to mouse hippocampus expressing paQuasAr3-s or SomArchon1, mouse cortex expressing SomArchon1 or Voltron, and zebrafish spines expressing zArchon1.
Genes / Markers
Expression
Phenotype
Mutations / Transgenics
Human Disease / Model
Sequence Targeting Reagents
Fish
Orthology
Engineered Foreign Genes
Mapping