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Supervised learning sets benchmark for robust spike rate inference from calcium imaging signals

https://doi.org/10.1101/010777
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What this work says

Outgoing claims: the papers this work cites, builds on, or argues with.

inferredcites →https://doi.org/10.1007/s00424-008-0603-5openalex-snapshot
Eyecup scope—optical recordings of light stimulus-evoked fluorescence signals in the retina
inferredcites →https://doi.org/10.1016/j.bpj.2008.08.005openalex-snapshot
Spike Inference from Calcium Imaging Using Sequential Monte Carlo Methods
inferredcites →https://doi.org/10.1016/j.bpj.2012.07.058openalex-snapshot
Photon Shot Noise Limits on Optical Detection of Neuronal Spikes and Estimation of Spike Timing
inferredcites →https://doi.org/10.1016/j.cpc.2010.04.018openalex-snapshot
NWChem: A comprehensive and scalable open-source solution for large scale molecular simulations
inferredcites →https://doi.org/10.1016/j.jneumeth.2013.05.007openalex-snapshot
Quantifying bursting neuron activity from calcium signals using blind deconvolution
inferredcites →https://doi.org/10.1016/j.neunet.2014.03.007openalex-snapshot
Detecting cells using non-negative matrix factorization on calcium imaging data
inferredcites →https://doi.org/10.1016/j.neuron.2014.09.033openalex-snapshot
Pupil Fluctuations Track Fast Switching of Cortical States during Quiet Wakefulness
inferredcites →https://doi.org/10.1016/j.patrec.2005.10.010openalex-snapshot
An introduction to ROC analysis
inferredcites →https://doi.org/10.1038/nature12354openalex-snapshot
Ultrasensitive fluorescent proteins for imaging neuronal activity
inferredcites →https://doi.org/10.1038/nmeth.1453openalex-snapshot
High-speed in vivo calcium imaging reveals neuronal network activity with near-millisecond precision
inferredcites →https://doi.org/10.1038/nmeth.2773openalex-snapshot
Optimized ratiometric calcium sensors for functional in vivo imaging of neurons and T lymphocytes
inferredcites →https://doi.org/10.1038/nmeth.3185openalex-snapshot
Rational design of a high-affinity, fast, red calcium indicator R-CaMP2
inferredcites →https://doi.org/10.1038/nmeth874openalex-snapshot
Reconstruction of firing rate changes across neuronal populations by temporally deconvolved Ca2+ imaging
inferredcites →https://doi.org/10.1038/nn.2140openalex-snapshot
Population imaging of ongoing neuronal activity in the visual cortex of awake rats
inferredcites →https://doi.org/10.1038/nn.3707openalex-snapshot
Population code in mouse V1 facilitates readout of natural scenes through increased sparseness
inferredcites →https://doi.org/10.1038/nn.3709openalex-snapshot
High-fidelity optical reporting of neuronal electrical activity with an ultrafast fluorescent voltage sensor
inferredcites →https://doi.org/10.1038/nrn2338openalex-snapshot
Imaging in vivo: watching the brain in action
inferredcites →https://doi.org/10.1073/pnas.0506029102openalex-snapshot
Imaging input and output of neocortical networks in vivo
inferredcites →https://doi.org/10.1073/pnas.1232232100openalex-snapshot
In vivo two-photon calcium imaging of neuronal networks
inferredcites →https://doi.org/10.1088/1741-2560/10/4/046017openalex-snapshot
A finite rate of innovation algorithm for fast and accurate spike detection from two-photon calcium imaging
inferredcites →https://doi.org/10.1109/acssc.2013.6810293openalex-snapshot
Bayesian spike inference from calcium imaging data
inferredcites →https://doi.org/10.1126/science.2321027openalex-snapshot
Two-Photon Laser Scanning Fluorescence Microscopy
inferredcites →https://doi.org/10.1137/0916069openalex-snapshot
A Limited Memory Algorithm for Bound Constrained Optimization
inferredcites →https://doi.org/10.1152/jn.00084.2008openalex-snapshot
Fast and Accurate Detection of Action Potentials From Somatic Calcium Fluctuations
inferredcites →https://doi.org/10.1152/jn.00484.2010openalex-snapshot
Automatic Identification of Fluorescently Labeled Brain Cells for Rapid Functional Imaging
inferredcites →https://doi.org/10.1152/jn.00722.2010openalex-snapshot
Bulk electroporation and population calcium imaging in the adult mammalian retina
inferredcites →https://doi.org/10.1152/jn.01073.2009openalex-snapshot
Fast Nonnegative Deconvolution for Spike Train Inference From Population Calcium Imaging
inferredcites →https://doi.org/10.1371/journal.pcbi.1003356openalex-snapshot
Beyond GLMs: A Generative Mixture Modeling Approach to Neural System Identification
inferredcites →https://doi.org/10.1523/jneurosci.2601-12.2012openalex-snapshot
Optimization of a GCaMP Calcium Indicator for Neural Activity Imaging
inferredcites →https://doi.org/10.3389/fncir.2013.00151openalex-snapshot
Three-dimensional mapping of microcircuit correlation structure
inferredcites →https://doi.org/10.3389/fncir.2013.00201openalex-snapshot
Inference of neuronal network spike dynamics and topology from calcium imaging data
inferredcites →https://doi.org/10.3758/s13423-012-0230-1openalex-snapshot
Standard errors and confidence intervals in within-subjects designs: Generalizing Loftus and Masson (1994) and avoiding the biases of alternative accounts
inferredcites →https://doi.org/10.48550/arxiv.1201.0490openalex-snapshot
Scikit-learn: Machine Learning in Python
inferredcites →https://doi.org/10.48550/arxiv.1409.2903openalex-snapshot
A structured matrix factorization framework for large scale calcium imaging data analysis

What points at this work

Incoming claims: where this work appears in other papers’ reference lists and arguments.

inferred← citeshttps://doi.org/10.1007/s10827-016-0611-yopenalex-snapshot
Consistent estimation of complete neuronal connectivity in large neuronal populations using sparse “shotgun” neuronal activity sampling
inferred← citeshttps://doi.org/10.1016/j.jneumeth.2021.109173openalex-snapshot
Neural anatomy and optical microscopy (NAOMi) simulation for evaluating calcium imaging methods
inferred← citeshttps://doi.org/10.1016/j.neuron.2015.03.034openalex-snapshot
Closed-Loop and Activity-Guided Optogenetic Control
inferred← citeshttps://doi.org/10.1101/479055openalex-snapshot
Accurate action potential inference from a calcium sensor protein through biophysical modeling:
inferred← citeshttps://doi.org/10.1371/journal.pcbi.1004083openalex-snapshot
Improved Estimation and Interpretation of Correlations in Neural Circuits
inferred← citeshttps://doi.org/10.1371/journal.pone.0168342openalex-snapshot
A Markovian Entropy Measure for the Analysis of Calcium Activity Time Series
inferred← citeshttps://doi.org/10.3390/bioengineering10101208openalex-snapshot
Artificial Vision: The High-Frequency Electrical Stimulation of the Blind Mouse Retina Decay Spike Generation and Electrogenically Clamped Intracellular Ca2+ at Elevated Levels
inferred← citeshttps://doi.org/10.3390/ijms20081880openalex-snapshot
Calcium Activity Dynamics Correlate with Neuronal Phenotype at a Single Cell Level and in a Threshold-Dependent Manner
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