Reporting methods for processing and analysis of data from serial block face scanning electron microscopy

Journal of Microscopy
S Borrett, L Hughes

Abstract

Serial block face scanning electron microscopy is rapidly becoming a popular tool for collecting large three-dimensional data sets of cells and tissues, filling the resolution and volume gap between fluorescence microscopy and high-resolution electron microscopy. The automated collection of data within the instrument occupies the smallest proportion of the time required to prepare and analyse biological samples. It is the processing of data once it has been collected that proves the greatest challenge. In this review we discuss different methods that are used to process data. We suggest potential workflows that can be used to facilitate the transfer of raw image stacks into quantifiable data as well as propose a set of criteria for reporting methods for data analysis to enable replication of work.

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Citations

Nov 4, 2016·Biology of the Cell·Benjamin Titze, Christel Genoud
Oct 19, 2016·Environmental Science & Technology·Astrid LaytonMarc Weissburg
Apr 7, 2020·PLoS Computational Biology·Christopher T LeePadmini Rangamani
Apr 5, 2020·The Journal of Comparative Neurology·Nicholas D Holland, Ildiko M L Somorjai
Dec 14, 2018·Frontiers in Neural Circuits·Ben MulcahyMei Zhen
Nov 13, 2020·Journal of Morphology·Nicholas D Holland, Ildiko M L Somorjai
Sep 19, 2020·Histochemistry and Cell Biology·Jan Philipp SchneiderChristoph Wrede

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