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.

An Algorithm for the Analysis of the 3D Spatial Organization of the Genome / F. Gregoretti, A. Cortesi, G. Oliva, B. Bodega, L. Antonelli (METHODS IN MOLECULAR BIOLOGY). - In: Capturing Chromosome Conformation / [a cura di] B. Bodega, C. Lanzuolo. - [s.l] : Springer, 2021. - ISBN 9781071606636. - pp. 299-320 [10.1007/978-1-0716-0664-3_17]

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

B. Bodega;
2021

Abstract

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.
Fluorescence microscopy; Multicolor 3D-FISH; Nuclear organization; Image processing and analysis; Cellular and subcellular segmentation; Variational segmentation model; Mathematical morphology method
Settore BIO/11 - Biologia Molecolare
Book Part (author)
File in questo prodotto:
File Dimensione Formato  
Gregoretti2021_Protocol_AnAlgorithmForTheAnalysisOfThe.pdf

accesso riservato

Tipologia: Publisher's version/PDF
Dimensione 1.04 MB
Formato Adobe PDF
1.04 MB Adobe PDF   Visualizza/Apri   Richiedi una copia
Pubblicazioni consigliate

I documenti in IRIS sono protetti da copyright e tutti i diritti sono riservati, salvo diversa indicazione.

Utilizza questo identificativo per citare o creare un link a questo documento: https://hdl.handle.net/2434/825417
Citazioni
  • ???jsp.display-item.citation.pmc??? 0
  • Scopus 2
  • ???jsp.display-item.citation.isi??? 2
social impact