Segmentation of the mouse hippocampal formation in magnetic resonance images

Kay Richards; Charles Watson; Rachel F. Buckley; Nyoman D. Kurniawan; Zhengyi Yang; Marianne D. Keller; Richard Beare; Perry F. Bartlett; Gary F. Egan; Graham J. Galloway; George Paxinos; Steven Petrou; David C. Reutens

doi:10.1016/j.neuroimage.2011.06.025

Segmentation of the mouse hippocampal formation in magnetic resonance images

Kay Richards, Charles Watson, Rachel F. Buckley, Nyoman D. Kurniawan, Zhengyi Yang, Marianne D. Keller, Richard Beare, Perry F. Bartlett, Gary F. Egan, Graham J. Galloway, George Paxinos, Steven Petrou, David C. Reutens

Research output: Contribution to journal › Article › peer-review

68 Citations (Scopus)

Abstract

The hippocampal formation plays an important role in cognition, spatial navigation, learning, and memory. High resolution magnetic resonance (MR) imaging makes it possible to study in vivo changes in the hippocampus over time and is useful for comparing hippocampal volume and structure in wild type and mutant mice. Such comparisons demand a reliable way to segment the hippocampal formation. We have developed a method for the systematic segmentation of the hippocampal formation using the perfusion-fixed C57BL/6 mouse brain for application in longitudinal and comparative studies. Our aim was to develop a guide for segmenting over 40 structures in an adult mouse brain using 30 μm isotropic resolution images acquired with a 16.4. T MR imaging system and combined using super-resolution reconstruction.

Original language	English
Pages (from-to)	732-740
Number of pages	9
Journal	NeuroImage
Volume	58
Issue number	3
DOIs	https://doi.org/10.1016/j.neuroimage.2011.06.025
Publication status	Published or Issued - 1 Oct 2011
Externally published	Yes

Keywords

Atlas
CA fields
Entorhinal
Hippocampal formation
Hippocampus
Magnetic resonance
Mouse brain
Perirhinal
Segmentation
Subiculum

ASJC Scopus subject areas

Neurology
Cognitive Neuroscience

Access to Document

10.1016/j.neuroimage.2011.06.025

Cite this

@article{df28af396ed64d27836e05438df4cd34,

title = "Segmentation of the mouse hippocampal formation in magnetic resonance images",

abstract = "The hippocampal formation plays an important role in cognition, spatial navigation, learning, and memory. High resolution magnetic resonance (MR) imaging makes it possible to study in vivo changes in the hippocampus over time and is useful for comparing hippocampal volume and structure in wild type and mutant mice. Such comparisons demand a reliable way to segment the hippocampal formation. We have developed a method for the systematic segmentation of the hippocampal formation using the perfusion-fixed C57BL/6 mouse brain for application in longitudinal and comparative studies. Our aim was to develop a guide for segmenting over 40 structures in an adult mouse brain using 30 μm isotropic resolution images acquired with a 16.4. T MR imaging system and combined using super-resolution reconstruction.",

keywords = "Atlas, CA fields, Entorhinal, Hippocampal formation, Hippocampus, Magnetic resonance, Mouse brain, Perirhinal, Segmentation, Subiculum",

author = "Kay Richards and Charles Watson and Buckley, {Rachel F.} and Kurniawan, {Nyoman D.} and Zhengyi Yang and Keller, {Marianne D.} and Richard Beare and Bartlett, {Perry F.} and Egan, {Gary F.} and Galloway, {Graham J.} and George Paxinos and Steven Petrou and Reutens, {David C.}",

note = "Funding Information: We thank the Queensland NMR Network (QNN) and the National Imaging Facility (NIF) for instrument access and technical support. This work was funded by the National Health and Medical Research Council (NHMRC) of Australia . ",

year = "2011",

month = oct,

day = "1",

doi = "10.1016/j.neuroimage.2011.06.025",

language = "English",

volume = "58",

pages = "732--740",

journal = "NeuroImage",

issn = "1053-8119",

publisher = "Academic Press Inc.",

number = "3",

}

TY - JOUR

T1 - Segmentation of the mouse hippocampal formation in magnetic resonance images

AU - Richards, Kay

AU - Watson, Charles

AU - Buckley, Rachel F.

AU - Kurniawan, Nyoman D.

AU - Yang, Zhengyi

AU - Keller, Marianne D.

AU - Beare, Richard

AU - Bartlett, Perry F.

AU - Egan, Gary F.

AU - Galloway, Graham J.

AU - Paxinos, George

AU - Petrou, Steven

AU - Reutens, David C.

N1 - Funding Information: We thank the Queensland NMR Network (QNN) and the National Imaging Facility (NIF) for instrument access and technical support. This work was funded by the National Health and Medical Research Council (NHMRC) of Australia .

PY - 2011/10/1

Y1 - 2011/10/1

N2 - The hippocampal formation plays an important role in cognition, spatial navigation, learning, and memory. High resolution magnetic resonance (MR) imaging makes it possible to study in vivo changes in the hippocampus over time and is useful for comparing hippocampal volume and structure in wild type and mutant mice. Such comparisons demand a reliable way to segment the hippocampal formation. We have developed a method for the systematic segmentation of the hippocampal formation using the perfusion-fixed C57BL/6 mouse brain for application in longitudinal and comparative studies. Our aim was to develop a guide for segmenting over 40 structures in an adult mouse brain using 30 μm isotropic resolution images acquired with a 16.4. T MR imaging system and combined using super-resolution reconstruction.

AB - The hippocampal formation plays an important role in cognition, spatial navigation, learning, and memory. High resolution magnetic resonance (MR) imaging makes it possible to study in vivo changes in the hippocampus over time and is useful for comparing hippocampal volume and structure in wild type and mutant mice. Such comparisons demand a reliable way to segment the hippocampal formation. We have developed a method for the systematic segmentation of the hippocampal formation using the perfusion-fixed C57BL/6 mouse brain for application in longitudinal and comparative studies. Our aim was to develop a guide for segmenting over 40 structures in an adult mouse brain using 30 μm isotropic resolution images acquired with a 16.4. T MR imaging system and combined using super-resolution reconstruction.

KW - Atlas

KW - CA fields

KW - Entorhinal

KW - Hippocampal formation

KW - Hippocampus

KW - Magnetic resonance

KW - Mouse brain

KW - Perirhinal

KW - Segmentation

KW - Subiculum

UR - http://www.scopus.com/inward/record.url?scp=80052153948&partnerID=8YFLogxK

U2 - 10.1016/j.neuroimage.2011.06.025

DO - 10.1016/j.neuroimage.2011.06.025

M3 - Article

C2 - 21704710

AN - SCOPUS:80052153948

SN - 1053-8119

VL - 58

SP - 732

EP - 740

JO - NeuroImage

JF - NeuroImage

IS - 3

ER -

Segmentation of the mouse hippocampal formation in magnetic resonance images

Abstract

Keywords

ASJC Scopus subject areas

Access to Document

Other files and links

Cite this