Closed-loop and activity-guided optogenetic control
Advances in optical manipulation and observation of neural activity have set the stage for
widespread implementation of closed-loop and activity-guided optical control of neural …
widespread implementation of closed-loop and activity-guided optical control of neural …
Technologies for imaging neural activity in large volumes
Neural circuitry has evolved to form distributed networks that act dynamically across large
volumes. Conventional microscopy collects data from individual planes and cannot sample …
volumes. Conventional microscopy collects data from individual planes and cannot sample …
Simultaneous denoising, deconvolution, and demixing of calcium imaging data
We present a modular approach for analyzing calcium imaging recordings of large neuronal
ensembles. Our goal is to simultaneously identify the locations of the neurons, demix …
ensembles. Our goal is to simultaneously identify the locations of the neurons, demix …
[HTML][HTML] Tracking the same neurons across multiple days in Ca2+ imaging data
Ca 2+ imaging techniques permit time-lapse recordings of neuronal activity from large
populations over weeks. However, without identifying the same neurons across imaging …
populations over weeks. However, without identifying the same neurons across imaging …
Visualization of cortical, subcortical and deep brain neural circuit dynamics during naturalistic mammalian behavior with head-mounted microscopes and chronically …
Genetically encoded calcium indicators for visualizing dynamic cellular activity have greatly
expanded our understanding of the brain. However, owing to the light-scattering properties …
expanded our understanding of the brain. However, owing to the light-scattering properties …
Accurate spike estimation from noisy calcium signals for ultrafast three-dimensional imaging of large neuronal populations in vivo
Extracting neuronal spiking activity from large-scale two-photon recordings remains
challenging, especially in mammals in vivo, where large noises often contaminate the …
challenging, especially in mammals in vivo, where large noises often contaminate the …
Simultaneous multi-plane imaging of neural circuits
Recording the activity of large populations of neurons is an important step toward
understanding the emergent function of neural circuits. Here we present a simple …
understanding the emergent function of neural circuits. Here we present a simple …
A deep-learning approach for online cell identification and trace extraction in functional two-photon calcium imaging
L Sità, M Brondi, P Lagomarsino de Leon Roig… - Nature …, 2022 - nature.com
In vivo two-photon calcium imaging is a powerful approach in neuroscience. However,
processing two-photon calcium imaging data is computationally intensive and time …
processing two-photon calcium imaging data is computationally intensive and time …
EZcalcium: open-source toolbox for analysis of calcium imaging data
DA Cantu, B Wang, MW Gongwer, CX He… - Frontiers in neural …, 2020 - frontiersin.org
Fluorescence calcium imaging using a range of microscopy approaches, such as two-
photon excitation or head-mounted “miniscopes,” is one of the preferred methods to record …
photon excitation or head-mounted “miniscopes,” is one of the preferred methods to record …
[HTML][HTML] Computational processing of neural recordings from calcium imaging data
C Stringer, M Pachitariu - Current opinion in neurobiology, 2019 - Elsevier
Highlights•There are several promising techniques for processing calcium imaging
data.•Comparing the accuracy of these methods is difficult, due to lack of ground truth.•The …
data.•Comparing the accuracy of these methods is difficult, due to lack of ground truth.•The …