Quantitative analysis of subcellular distributions with an open-source, object-based tool

The subcellular localization of objects, such as organelles, proteins, or other molecules, instructs cellular form and function. Understanding the underlying spatial relationships between objects through colocalization analysis of microscopy images is a fundamental approach used to inform biological...

Full description

Saved in:
Bibliographic Details
Published inBiology open Vol. 9; no. 10
Main Authors Ryder, Pearl V., Lerit, Dorothy A.
Format Journal Article
LanguageEnglish
Published England The Company of Biologists Ltd 19.10.2020
The Company of Biologists
Subjects
Algorithms
Biological Transport
centrosome
Centrosomes
colocalization
Computer applications
Data processing
Embryos
fluorescence microscopy
Image analysis
Image processing
Image Processing, Computer-Assisted - methods
Image segmentation
Intracellular Space - metabolism
Localization
Methods & Techniques
Microscopy
Molecular Imaging
mRNA
Organelles
Pipeline design
Quantitative analysis
rna localization
Software
Three dimensional analysis
Colocalization
Image analysis
RNA localization
Centrosome
Fluorescence microscopy
Online AccessGet full text

Cover

More Information
Summary:The subcellular localization of objects, such as organelles, proteins, or other molecules, instructs cellular form and function. Understanding the underlying spatial relationships between objects through colocalization analysis of microscopy images is a fundamental approach used to inform biological mechanisms. We generated an automated and customizable computational tool, the SubcellularDistribution pipeline, to facilitate object-based image analysis from 3D fluorescence microcopy images. To test the utility of the SubcellularDistribution pipeline, we examined the subcellular distribution of mRNA relative to centrosomes within syncytial Drosophila embryos. Centrosomes are microtubule-organizing centers, and RNA enrichments at centrosomes are of emerging importance. Our open-source and freely available software detected RNA distributions comparably to commercially available image analysis software. The SubcellularDistribution pipeline is designed to guide the user through the complete process of preparing image analysis data for publication, from image segmentation and data processing to visualization.
Bibliography:ObjectType-Article-1
SourceType-Scholarly Journals-1
ObjectType-Feature-2
content type line 14
content type line 23
ISSN:2046-6390
2046-6390
DOI:10.1242/bio.055228