Fast online deconvolution of calcium imaging data

J Friedrich, P Zhou, L Paninski - PLoS computational biology, 2017 - journals.plos.org
Fluorescent calcium indicators are a popular means for observing the spiking activity of
large neuronal populations, but extracting the activity of each neuron from raw fluorescence …

Thalamic nuclei convey diverse contextual information to layer 1 of visual cortex

MM Roth, JC Dahmen, DR Muir, F Imhof… - Nature …, 2016 - nature.com
Sensory perception depends on the context in which a stimulus occurs. Prevailing models
emphasize cortical feedback as the source of contextual modulation. However, higher order …

Locomotion-dependent remapping of distributed cortical networks

KB Clancy, I Orsolic, TD Mrsic-Flogel - Nature neuroscience, 2019 - nature.com
The interactions between neocortical areas are fluid and state-dependent, but how
individual neurons couple to cortex-wide network dynamics remains poorly understood. We …

Visual intracortical and transthalamic pathways carry distinct information to cortical areas

A Blot, MM Roth, I Gasler, M Javadzadeh, F Imhof… - Neuron, 2021 - cell.com
Sensory processing involves information flow between neocortical areas, assumed to rely
on direct intracortical projections. However, cortical areas may also communicate indirectly …

Fast nonconvex deconvolution of calcium imaging data

SW Jewell, TD Hocking, P Fearnhead, DM Witten - Biostatistics, 2020 - academic.oup.com
Calcium imaging data promises to transform the field of neuroscience by making it possible
to record from large populations of neurons simultaneously. However, determining the exact …

Inferring spikes from calcium imaging in dopamine neurons

W Fleming, S Jewell, B Engelhard, DM Witten… - PloS one, 2021 - journals.plos.org
Calcium imaging has led to discoveries about neural correlates of behavior in subcortical
neurons, including dopamine (DA) neurons. However, spike inference methods have not …

[PDF][PDF] Local and global spatial organization of interaural level difference and frequency preferences in auditory cortex

M Panniello, AJ King, JC Dahmen… - Cerebral …, 2018 - academic.oup.com
Despite decades of microelectrode recordings, fundamental questions remain about how
auditory cortex represents sound-source location. Here, we used in vivo 2-photon calcium …

FocusStack and StimServer: a new open source MATLAB toolchain for visual stimulation and analysis of two-photon calcium neuronal imaging data

DR Muir, BM Kampa - Frontiers in Neuroinformatics, 2015 - frontiersin.org
Two-photon calcium imaging of neuronal responses is an increasingly accessible
technology for probing population responses in cortex at single cell resolution, and with …

Reconstruction of burst activity from calcium imaging of neuronal population via Lq minimization and interval screening

T Quan, X Lv, X Liu, S Zeng - Biomedical optics express, 2016 - opg.optica.org
Calcium imaging is becoming an increasingly popular technology to indirectly measure
activity patterns in local neuronal networks. Based on the dependence of calcium …

Information-theoretic approach and fundamental limits of resolving two closely timed neuronal spikes in mouse brain calcium imaging

S Soltanian-Zadeh, Y Gong… - IEEE Transactions on …, 2018 - ieeexplore.ieee.org
Objective: Although optical imaging of neurons using fluorescent genetically encoded
calcium sensors has enabled large-scale in vivo experiments, the sensors' slow dynamics …