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WatershedCounting3D: A New Method for Segmenting and Counting Punctate Structures from Confocal Image Data
Author(s) -
Gniadek Thomas J.,
Warren Graham
Publication year - 2007
Publication title -
traffic
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 2.677
H-Index - 130
eISSN - 1600-0854
pISSN - 1398-9219
DOI - 10.1111/j.1600-0854.2007.00538.x
Subject(s) - thresholding , golgi apparatus , confocal , endoplasmic reticulum , organelle , biology , segmentation , intracellular , confocal microscopy , microbiology and biotechnology , image segmentation , image (mathematics) , microscopy , homogeneous , artificial intelligence , biological system , computer vision , computer science , optics , physics , thermodynamics
Current research in cell biology frequently uses light microscopy to study intracellular organelles. To segment and count organelles, most investigators have used a global thresholding method, which relies on homogeneous background intensity values within a cell. Because this is not always the case, we developed WatershedCounting3D, a program that uses a modified watershed algorithm to more accurately identify intracellular structures from confocal image data, even in the presence of an inhomogeneous background. We give examples of segmenting and counting endoplasmic reticulum exit sites and the Golgi apparatus.