A semi-automated pipeline for the segmentation of rhesus macaque hippocampus: Validation across a wide age range

Michael R. Hunsaker, David G Amaral

Research output: Contribution to journalArticle

9 Citations (Scopus)

Abstract

This report outlines a neuroimaging pipeline that allows a robust, high-throughput, semi-automated, template-based protocol for segmenting the hippocampus in rhesus macaque (Macaca mulatta) monkeys ranging from 1 week to 260 weeks of age. The semiautomated component of this approach minimizes user effort while concurrently maximizing the benefit of human expertise by requiring as few as 10 landmarks to be placed on images of each hippocampus to guide registration. Any systematic errors in the normalization process are corrected using a machine-learning algorithm that has been trained by comparing manual and automated segmentations to identify systematic errors. These methods result in high spatial overlap and reliability when compared with the results of manual tracing protocols. They also dramatically reduce the time to acquire data, an important consideration in large-scale neuroradiological studies involving hundreds of MRI scans. Importantly, other than the initial generation of the unbiased template, this approach requires only modest neuroanatomical training. It has been validated for high-throughput studies of rhesus macaque hippocampal anatomy across a broad age range.

Original languageEnglish (US)
Article numbere89456
JournalPLoS One
Volume9
Issue number2
DOIs
StatePublished - Feb 24 2014

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Systematic errors
hippocampus
Macaca mulatta
Hippocampus
Pipelines
Throughput
Neuroimaging
Learning algorithms
Learning systems
artificial intelligence
Haplorhini
monkeys
Anatomy
Magnetic Resonance Imaging
methodology

ASJC Scopus subject areas

  • Agricultural and Biological Sciences(all)
  • Biochemistry, Genetics and Molecular Biology(all)
  • Medicine(all)

Cite this

A semi-automated pipeline for the segmentation of rhesus macaque hippocampus : Validation across a wide age range. / Hunsaker, Michael R.; Amaral, David G.

In: PLoS One, Vol. 9, No. 2, e89456, 24.02.2014.

Research output: Contribution to journalArticle

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