High-fidelity estimates of spikes and subthreshold waveforms from 1-photon voltage imaging in vivo

Michael E. Xie, Yoav Adam, Linlin Z. Fan, Urs L. Böhm, Ian Kinsella, Ding Zhou, Marton Rozsa, Amrita Singh, Karel Svoboda, Liam Paninski*, Adam E. Cohen*

*Corresponding author for this work

Research output: Contribution to journalArticlepeer-review

15 Scopus citations

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.

Original languageAmerican English
Article number108954
JournalCell Reports
Volume35
Issue number1
DOIs
StatePublished - 6 Apr 2021
Externally publishedYes

Bibliographical note

Publisher Copyright:
© 2021 The Author(s)

Keywords

  • signal extraction
  • voltage imaging

Fingerprint

Dive into the research topics of 'High-fidelity estimates of spikes and subthreshold waveforms from 1-photon voltage imaging in vivo'. Together they form a unique fingerprint.

Cite this