Automatic reconstruction of dendrite morphology from optical section stacks

S. Urban, S. M. O'Malley, B. Walsh, A. Santamaría-Pang, P. Saggau, C. Colbert, I. A. Kakadiaris

Research output: Chapter in Book/Report/Conference proceedingConference contribution

9 Scopus citations


The function of the human brain arises from computations that occur within and among billions of nerve cells known as neurons. A neuron is composed primarily of a cell body (soma) from which emanates a collection of branching structures (dendrites). How neuronal signals are processed is dependent on the dendrites' specific morphology and distribution of voltage-gated ion channels. To understand this processing, it is necessary to acquire an accurate structural analysis of the cell. Toward this end, we present an automated reconstruction system which extracts the morphology of neurons imaged from confocal and multi-photon microscopes. As we place emphasis on this being a rapid (and therefore automated) process, we have developed several techniques that provide high-quality reconstructions with minimal human interaction. In addition to generating a tree of connected cylinders representing the reconstructed neuron, a computational model is also created for purposes of performing functional simulations. We present visual and statistical results from reconstructions performed both on real image volumes and on noised synthetic data from the Duke-Southampton archive.

Original languageEnglish (US)
Title of host publicationComputer Vision Approaches to Medical Image Analysis - Second International ECCV Workshop, CVAMIA 2006. Revised Papers
Number of pages12
ISBN (Print)3540462570, 9783540462576
StatePublished - 2006
Event2nd International ECCV Workshop on Computer Vision Approaches to Medical Image Analysis, CVAMIA 2006 - Graz, Austria
Duration: May 12 2006May 12 2006

Publication series

NameLecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)
Volume4241 LNCS
ISSN (Print)0302-9743
ISSN (Electronic)1611-3349


Conference2nd International ECCV Workshop on Computer Vision Approaches to Medical Image Analysis, CVAMIA 2006

ASJC Scopus subject areas

  • Theoretical Computer Science
  • Computer Science(all)


Dive into the research topics of 'Automatic reconstruction of dendrite morphology from optical section stacks'. Together they form a unique fingerprint.

Cite this