DOI: 10.5281/zenodo.7330129
title: Statistically unbiased prediction enables accurate denoising of voltage imaging data

description: Here we report SUPPORT (Statistically Unbiased Prediction utilizing sPatiOtempoRal information in imaging daTa), a self-supervised learning method for removing Poisson-Gaussian noise in voltage imaging data. SUPPORT is based on the insight that a pixel value in voltage imaging data is highly dependent on its spatially neighboring pixels in the same time frame, even when its temporally adjacent frames do not provide useful information for statistical prediction. Such spatiotemporal dependency is captured and utilized to accurately denoise voltage imaging data in which the existence of the action potential in a time frame cannot be inferred by the information in other frames. Through simulation and experiments, we show that SUPPORT enables precise denoising of voltage imaging data while preserving the underlying dynamics in the scene. We also show that SUPPORT can be used for denoising time-lapse fluorescence microscopy images of <em>Caenorhabditis elegans</em> (<em>C. elegans</em>), in which the imaging speed is not faster than the locomotion of the worm, as well as static volumetric images of <em>Penicillium</em> and mouse embryos. SUPPORT is exceptionally compelling for denoising voltage imaging and time-lapse imaging data, and is even effective for denoising calcium imaging data. For more details, please see the accompanying research publication "Statistically unbiased prediction enables accurate denoising of voltage imaging data". Datasets for publication titled "Statistically unbiased prediction enables accurate denoising of voltage imaging data" <strong>Voltage imaging of paQuasAr6a: paQuasAr6a.zip</strong><br> paQuasAr6a/Q6a_Cell1<br> paQuasAr6a/Q6a_Cell2<br> paQuasAr6a/Q6a_Cell3<br> paQuasAr6a/Q6a_Cell4<br> paQuasAr6a/Q6a_Cell5<br> paQuasAr6a/Q6a_Cell6<br> paQuasAr6a/175118PP046_P8_pulse (10 ms)_q6<br> paQuasAr6a/181625PP046_P5_q6_pulse(50ms)<br> paQuasAr6a/183616PP046_P8_pulse (10 ms)_q6<br> paQuasAr6a/183717PP046_P5_q6_pulse(50ms) <strong>Voltage imaging of Voltron2: Voltron2.zip</strong><br> Voltron2/Voltron_Cell1<br> Voltron2/Voltron_Cell2<br> Voltron2/Voltron_Cell3<br> Voltron2/Voltron_Cell3_2<br> Voltron2/Voltron_Cell4<br> Voltron2/Voltron_Cell5<br> Voltron2/Voltron_Cell6<br> Voltron2/Voltron_Cell7 (100f_s)<br> Voltron2/Voltron_Cell7_2 (100 f_s) <strong>Voltage imaging of zArchon (zebrafish spinal cord): zebrafish_spinal_cord_N.zip</strong> <strong>Voltage imaging of SomArchon (mouse hippocampus neuron): SomArchon.zip</strong> <strong>Volumetric structural imaging of mouse embryo (Expansion microscopy): Expansion_microscopy.zip</strong><br> Expansion_microscopy/JEME208_2x_expanded_bone.tif<br> Expansion_microscopy/JEME208_2x_expanded_intenstine.tif<br> Expansion_microscopy/JEME209_2x_expanded_bone_1.tif<br> Expansion_microscopy/JEME209_2x_expanded_bone_2.tif<br> Expansion_microscopy/JEME209_2x_expanded_tail.tif <strong>Volumetric structural imaging of <em>penicillium</em>: Penicillium.zip</strong><br> Penicillium/penicillium_low_snr.tif<br> --&gt; Low SNR image<br> Penicillium/penicillium_high_snr.tif<br> --&gt; High SNR image <strong>Calcium imaging of zebrafish: Zebrafish.zip</strong><br> Zebrafish/zebrafish_multiple_brain_regions.tif<br> --&gt; Multiple brain regions<br> Zebrafish/zebrafish_Cerebellar_plate.tif<br> --&gt; Cerebellar plate<br> Zebrafish/zebrafish_Dorsal_telencephalon.tif<br> --&gt; Dorsal telencephalon<br> Zebrafish/zebrafish_Medulla_oblongata.tif<br> --&gt; Medulla oblongata<br> Zebrafish/zebrafish_Olfactory_bulb.tif<br> --&gt; Olfactory bulb<br> Zebrafish/zebrafish_Optic_tectum.tif<br> --&gt; Optic tectum<br> Zebrafish/zebrafish_Habenula.tif<br> --&gt; Habenula