WatershedCounting3D: A new method for segmenting and counting punctate structures from confocal image data

Thomas J Gniadek, Graham Warren

Research output: Contribution to journalArticlepeer-review

23 Scopus citations

Abstract

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.

Original languageEnglish (US)
Pages (from-to)339-346
Number of pages8
JournalTraffic
Volume8
Issue number4
DOIs
StatePublished - Apr 2007

Keywords

  • Confocal
  • ER exit site
  • Golgi
  • Segmentation
  • Watershed algorithm

Fingerprint

Dive into the research topics of 'WatershedCounting3D: A new method for segmenting and counting punctate structures from confocal image data'. Together they form a unique fingerprint.

Cite this