GraFT: Graph Filtered Temporal Dictionary Learning for Functional Neural Imaging DOI Creative Commons
Adam S. Charles, Nathan Cermak, Rifqi O. Affan

et al.

IEEE Transactions on Image Processing, Journal Year: 2022, Volume and Issue: 31, P. 3509 - 3524

Published: Jan. 1, 2022

Optical imaging of calcium signals in the brain has enabled researchers to observe activity hundreds-to-thousands individual neurons simultaneously. Current methods predominantly use morphological information, typically focusing on expected shapes cell bodies, better identify field-of-view. The explicit shape constraints limit applicability automated identification other important scales with more complex morphologies, e.g., dendritic or widefield imaging. Specifically, fluorescing components may be broken up, incompletely found, merged ways that do not accurately describe underlying neural activity. Here we present Graph Filtered Temporal Dictionary (GraFT), a new approach frames problem isolating independent as dictionary learning problem. focus time-traces-the main quantity used scientific discovery-and learn time trace spatial maps acting presence coefficients encoding which pixels time-traces are active in. Furthermore, novel graph filtering model redefines connectivity between terms their shared temporal activity, rather than proximity. This greatly eases ability our method handle data non-local structure. We demonstrate properties method, such robustness morphology, simultaneously detecting different neuronal types, and implicitly inferring number neurons, both synthetic real examples. applications at dendritic, somatic, scales.

Language: Английский

Improved green and red GRAB sensors for monitoring spatiotemporal serotonin release in vivo DOI
Fei Deng, Jinxia Wan,

Guochuan Li

et al.

Nature Methods, Journal Year: 2024, Volume and Issue: 21(4), P. 692 - 702

Published: March 5, 2024

Language: Английский

Citations

29
Mesoscopic Imaging: Shining a Wide Light on Large-Scale Neural Dynamics DOI Creative Commons
Jessica A. Cardin, Michael C. Crair, Michael J. Higley

et al.

Neuron, Journal Year: 2020, Volume and Issue: 108(1), P. 33 - 43

Published: Oct. 1, 2020

Language: Английский

Citations

111
Characterizing Cortex-Wide Dynamics with Wide-Field Calcium Imaging DOI Creative Commons
Chi Ren, Takaki Komiyama

Journal of Neuroscience, Journal Year: 2021, Volume and Issue: 41(19), P. 4160 - 4168

Published: April 23, 2021

The brain functions through coordinated activity among distributed regions. Wide-field calcium imaging, combined with improved genetically encoded indicators, allows sufficient signal-to-noise ratio and spatiotemporal resolution to afford a unique opportunity capture cortex-wide dynamics on moment-by-moment basis in behaving animals. Recent applications of this approach have been uncovering cortical at unprecedented scales during various cognitive processes, ranging from relatively simple sensorimotor integration more complex decision-making tasks. In review, we will highlight recent scientific advances enabled by wide-field imaging mice. We then summarize several technical considerations future opportunities for uncover large-scale circuit dynamics.

Language: Английский

Citations

85
Chronic, cortex-wide imaging of specific cell populations during behavior DOI
João Couto, Simon Musall, Xiaonan Richard Sun

et al.

Nature Protocols, Journal Year: 2021, Volume and Issue: 16(7), P. 3241 - 3263

Published: June 2, 2021

Language: Английский

Citations

71
Through the looking glass: A review of cranial window technology for optical access to the brain DOI Creative Commons
Samuel W. Cramer, Russell E. Carter, Justin D. Aronson

et al.

Journal of Neuroscience Methods, Journal Year: 2021, Volume and Issue: 354, P. 109100 - 109100

Published: Feb. 15, 2021

Deciphering neurologic function is a daunting task, requiring understanding the neuronal networks and emergent properties that arise from interactions among single neurons. Mechanistic insights into require tools simultaneously assess both neuron activity consequent mesoscale output. The development of cranial window technologies, in which skull thinned or replaced with synthetic optical interface, has enabled monitoring subcellular to resolution awake, behaving animals when coupled advanced microscopy techniques. Here we review recent achievements appraise relative merits each design discuss future research design.

Language: Английский

Citations

61
Pyramidal cell types drive functionally distinct cortical activity patterns during decision-making DOI Creative Commons
Simon Musall, Xiaonan Richard Sun, Hemanth Mohan

et al.

Nature Neuroscience, Journal Year: 2023, Volume and Issue: unknown

Published: Jan. 23, 2023

Abstract Understanding how cortical circuits generate complex behavior requires investigating the cell types that comprise them. Functional differences across pyramidal neuron (PyN) have been observed within areas, but it is not known whether these local extend throughout cortex, nor additional emerge when larger-scale dynamics are considered. We used genetic and retrograde labeling to target tract, intratelencephalic corticostriatal projection neurons measured their cortex-wide activity. Each PyN type drove unique neural dynamics, both at scales. Cortical activity optogenetic inactivation during an auditory decision task revealed distinct functional roles. All PyNs in parietal cortex were recruited perception of stimulus, but, surprisingly, tract had largest causal role. In frontal all required for accurate choices showed choice tuning. Our results reveal rich, cell-type-specific shape perceptual decisions.

Language: Английский

Citations

38
Rapid fluctuations in functional connectivity of cortical networks encode spontaneous behavior DOI
Hadas Benisty, Daniel Barson,

Andrew H. Moberly

et al.

Nature Neuroscience, Journal Year: 2023, Volume and Issue: 27(1), P. 148 - 158

Published: Nov. 30, 2023

Language: Английский

Citations

36
Cortex-wide neural dynamics predict behavioral states and provide a neural basis for resting-state dynamic functional connectivity DOI Creative Commons
Somayeh Shahsavarani,

David N. Thibodeaux,

Weihao Xu

et al.

Cell Reports, Journal Year: 2023, Volume and Issue: 42(6), P. 112527 - 112527

Published: May 26, 2023

Although resting-state functional magnetic resonance imaging (fMRI) studies have observed dynamically changing brain-wide networks of correlated activity, fMRI's dependence on hemodynamic signals makes results challenging to interpret. Meanwhile, emerging techniques for real-time recording large populations neurons revealed compelling fluctuations in neuronal activity across the brain that are obscured by traditional trial averaging. To reconcile these observations, we use wide-field optical mapping simultaneously record pan-cortical and awake, spontaneously behaving mice. Some components clearly represent sensory motor function. However, particularly during quiet rest, strongly fluctuating patterns diverse regions contribute greatly interregional correlations. Dynamic changes correlations coincide with arousal state. Simultaneously acquired hemodynamics depict similar brain-state-dependent correlation shifts. These support a neural basis dynamic fMRI, while highlighting importance study

Language: Английский

Citations

28
The rise of nonnegative matrix factorization: Algorithms and applications DOI

Yi-Ting Guo,

Qin‐Qin Li,

Chun‐Sheng Liang

et al.

Information Systems, Journal Year: 2024, Volume and Issue: 123, P. 102379 - 102379

Published: March 21, 2024

Language: Английский

Citations

9
Wide-Field Calcium Imaging of Neuronal Network Dynamics In Vivo DOI Creative Commons
Angela K. Nietz,

Laurentiu S. Popa,

Martha L. Streng

et al.

Biology, Journal Year: 2022, Volume and Issue: 11(11), P. 1601 - 1601

Published: Nov. 1, 2022

A central tenet of neuroscience is that sensory, motor, and cognitive behaviors are generated by the communications interactions among neurons, distributed within across anatomically functionally distinct brain regions. Therefore, to decipher how plans, learns, executes requires characterizing neuronal activity at multiple spatial temporal scales. This includes simultaneously recording dynamics mesoscale level understand regions during different behavioral states. Wide-field Ca2+ imaging, which uses single photon excitation improved genetically encoded indicators, allows for simultaneous recordings large areas proving be a powerful tool study mesoscopic scale in behaving animals. review details techniques used wide-field imaging various approaches employed analyses rich neuronal-behavioral data sets obtained. Also discussed providing novel insights into both normal altered neural processing disease. Finally, we examine limitations approach new developments bringing capabilities this important technique investigating large-scale dynamics.

Language: Английский

Citations

30