Interactive atlas of the rat hippocampus integrating high-resolution histological images and boundary definitions
-
1
University of Oslo, CMBN & IMB, Norway
-
2
NTNU, Kavli Institute-CBM, Norway
The rat hippocampus is a highly complex brain region frequently studied with relation to learning and memory processes as well as Alzheimer's disease and epilepsy. The region consists of several subdivisions that are difficult to delineate anatomically. Published atlases of the rat brain typically lack the underlying histological criteria necessary to identify boundaries, and textbooks describing the region are often inadequately illustrated and difficult to relate to experimental data. Without an available resource providing overview of cytoarchitectonic features with criteria for delineating the hippocampal region, the comparison of experimental results is challenging. To amend this, we are currently developing a novel integrated atlas application where high-resolution images of histological sections are directly linked to expert-defined criteria for subdividing cell layers of the rat hippocampus formation, fasciola and associated parahippocampal regions. The high-resolution images are spatially organized and stored in a relational Oracle database system (Moene et al, 2007) together with corresponding metadata. The web-based atlas application, comprising the database framework with an interactive image viewer based on Zoomify® technology, allows interactive access to a comprehensive section image repository and a text archive containing boundary descriptions and a systematic ontology for the region. The image viewer technology provides rapid zooming and panning of very large images through the web as well as specific links from individual boundary drawings in the images to corresponding text defining the anatomical criteria used for their delineation. Recent progress in this project includes the release of complete image sets of annotated sagittal and horizontal sections in addition to the coronal. More functionality has been included to the image viewer and the general design and user interaction have been developed further. The bi-directionally linked text and images constitute an intuitive and applicable web-based environment for exploring the anatomical subdivisions of the rat hippocampal region.
The hippocampus atlas application will be made available via The Rodent WorkBench (http://www.rbwb.org).
Conference:
Neuroinformatics 2009, Pilsen, Czechia, 6 Sep - 8 Sep, 2009.
Presentation Type:
Oral Presentation
Topic:
Digital atlasing
Citation:
Kjonigsen
LJ,
Leergaard
TB,
Moene
IA,
Witter
MP and
Bjaalie
JG
(2019). Interactive atlas of the rat hippocampus integrating high-resolution histological images and boundary definitions.
Front. Neuroinform.
Conference Abstract:
Neuroinformatics 2009.
doi: 10.3389/conf.neuro.11.2009.08.014
Copyright:
The abstracts in this collection have not been subject to any Frontiers peer review or checks, and are not endorsed by Frontiers.
They are made available through the Frontiers publishing platform as a service to conference organizers and presenters.
The copyright in the individual abstracts is owned by the author of each abstract or his/her employer unless otherwise stated.
Each abstract, as well as the collection of abstracts, are published under a Creative Commons CC-BY 4.0 (attribution) licence (https://creativecommons.org/licenses/by/4.0/) and may thus be reproduced, translated, adapted and be the subject of derivative works provided the authors and Frontiers are attributed.
For Frontiers’ terms and conditions please see https://www.frontiersin.org/legal/terms-and-conditions.
Received:
21 May 2009;
Published Online:
09 May 2019.
*
Correspondence:
Lisa J Kjonigsen, University of Oslo, CMBN & IMB, Oslo, Norway, l.j.kjonigsen@medisin.uio.no