An Algorithm for the Analysis of the 3D Spatial Organization of the Genome.

Francesco Gregoretti,Alice Cortesi,Gennaro Oliva,Beatrice Bodega,Laura Antonelli

CAPTURING CHROMOSOME CONFORMATION: Methods and Protocols（2021）

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摘要

We present an algorithm, and its MATLAB implementation, based on mathematical methods to detect and localize 3D multicolor DNA FISH spots in fluorescence cell image z-stacks. This algorithm provides a method to measure the relative positioning of spots in the nucleus and inter-spot distances with the aim to enrich our understanding of the 3D spatial organization of the genome within the cell nucleus.

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关键词

Cellular and subcellular segmentation,Fluorescence microscopy,Image processing and analysis,Mathematical morphology method,Multicolor 3D-FISH,Nuclear organization,Variational segmentation model

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