Waxholm Space atlas of the rat brain hippocampal region: Three-dimensional delineations based on magnetic resonance and diffusion tensor imaging
Atlases of the rat brain are widely used as reference for orientation, planning of experiments, and as tools for assigning location to experimental data. Improved quality and use of magnetic resonance imaging (MRI) and other tomographical imaging techniques in rats have allowed the development of ne...
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| creator | Kjonigsen, Lisa J. Lillehaug, Sveinung Bjaalie, Jan G. Witter, Menno P. Leergaard, Trygve B. |
| description | Atlases of the rat brain are widely used as reference for orientation, planning of experiments, and as tools for assigning location to experimental data. Improved quality and use of magnetic resonance imaging (MRI) and other tomographical imaging techniques in rats have allowed the development of new three-dimensional (3-D) volumetric brain atlas templates. The rat hippocampal region is a commonly used model for basic research on memory and learning, and for preclinical investigations of brain disease. The region features a complex anatomical organization with multiple subdivisions that can be identified on the basis of specific cytoarchitectonic or chemoarchitectonic criteria. We here investigate the extent to which it is possible to identify boundaries of divisions of the hippocampal region on the basis of high-resolution MRI contrast. We present the boundaries of 13 divisions, identified and delineated based on multiple types of image contrast observed in the recently published Waxholm Space MRI/DTI template for the Sprague Dawley rat brain (Papp et al., Neuroimage 97:374–386, 2014). The new detailed delineations of the hippocampal formation and parahippocampal region (Waxholm Space atlas of the Sprague Dawley rat brain, v2.0) are shared via the INCF Software Center (http://software.incf.org/), where also the MRI/DTI reference template is available. The present update of the Waxholm Space atlas of the rat brain is intended to facilitate interpretation, analysis, and integration of experimental data from this anatomically complex region.
Volumetric Waxholm Space rat brain atlas (v2.0), in which the hippocampal formation and parahippocampal region have been delineated on the basis of MRI criteria. [Display omitted]
•Waxholm Space atlas (v2.0) of the rat brain•Volumetric atlas template for the rat hippocampal region•MRI-based boundary criteria•3D graphical model of hippocampal formation and parahippocampal region |
| doi_str_mv | 10.1016/j.neuroimage.2014.12.080 |
| format | Article |
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Volumetric Waxholm Space rat brain atlas (v2.0), in which the hippocampal formation and parahippocampal region have been delineated on the basis of MRI criteria. [Display omitted]
•Waxholm Space atlas (v2.0) of the rat brain•Volumetric atlas template for the rat hippocampal region•MRI-based boundary criteria•3D graphical model of hippocampal formation and parahippocampal region</description><identifier>ISSN: 1053-8119</identifier><identifier>EISSN: 1095-9572</identifier><identifier>DOI: 10.1016/j.neuroimage.2014.12.080</identifier><identifier>PMID: 25585022</identifier><language>eng</language><publisher>United States: Elsevier Inc</publisher><subject>Alzheimer's disease ; Animals ; Brain ; Brain Mapping ; Diffusion ; Diffusion Tensor Imaging ; Digital brain atlasing ; Hippocampus ; Hippocampus - anatomy & histology ; Imaging, Three-Dimensional ; Investigations ; Magnetic Resonance Imaging ; Male ; Neuroinformatics ; NMR ; Nuclear magnetic resonance ; Parahippocampus ; Rats ; Rats, Sprague-Dawley ; Rodents ; Segmentation ; Software ; Sprague Dawley rat ; Template ; Waxholm Space</subject><ispartof>NeuroImage (Orlando, Fla.), 2015-03, Vol.108, p.441-449</ispartof><rights>2015 The Authors</rights><rights>Copyright © 2015 The Authors. Published by Elsevier Inc. All rights reserved.</rights><rights>Copyright Elsevier Limited Mar 1, 2015</rights><rights>info:eu-repo/semantics/openAccess</rights><lds50>peer_reviewed</lds50><oa>free_for_read</oa><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c645t-4e956295cbd18f62021698639d44995c262c0ab7e964f17d60906e68a90b7b043</citedby><cites>FETCH-LOGICAL-c645t-4e956295cbd18f62021698639d44995c262c0ab7e964f17d60906e68a90b7b043</cites></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktohtml>$$Uhttps://www.sciencedirect.com/science/article/pii/S105381191500004X$$EHTML$$P50$$Gelsevier$$Hfree_for_read</linktohtml><link.rule.ids>230,314,776,780,881,3537,26544,27901,27902,65306</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/25585022$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Kjonigsen, Lisa J.</creatorcontrib><creatorcontrib>Lillehaug, Sveinung</creatorcontrib><creatorcontrib>Bjaalie, Jan G.</creatorcontrib><creatorcontrib>Witter, Menno P.</creatorcontrib><creatorcontrib>Leergaard, Trygve B.</creatorcontrib><title>Waxholm Space atlas of the rat brain hippocampal region: Three-dimensional delineations based on magnetic resonance and diffusion tensor imaging</title><title>NeuroImage (Orlando, Fla.)</title><addtitle>Neuroimage</addtitle><description>Atlases of the rat brain are widely used as reference for orientation, planning of experiments, and as tools for assigning location to experimental data. Improved quality and use of magnetic resonance imaging (MRI) and other tomographical imaging techniques in rats have allowed the development of new three-dimensional (3-D) volumetric brain atlas templates. The rat hippocampal region is a commonly used model for basic research on memory and learning, and for preclinical investigations of brain disease. The region features a complex anatomical organization with multiple subdivisions that can be identified on the basis of specific cytoarchitectonic or chemoarchitectonic criteria. We here investigate the extent to which it is possible to identify boundaries of divisions of the hippocampal region on the basis of high-resolution MRI contrast. We present the boundaries of 13 divisions, identified and delineated based on multiple types of image contrast observed in the recently published Waxholm Space MRI/DTI template for the Sprague Dawley rat brain (Papp et al., Neuroimage 97:374–386, 2014). The new detailed delineations of the hippocampal formation and parahippocampal region (Waxholm Space atlas of the Sprague Dawley rat brain, v2.0) are shared via the INCF Software Center (http://software.incf.org/), where also the MRI/DTI reference template is available. The present update of the Waxholm Space atlas of the rat brain is intended to facilitate interpretation, analysis, and integration of experimental data from this anatomically complex region.
Volumetric Waxholm Space rat brain atlas (v2.0), in which the hippocampal formation and parahippocampal region have been delineated on the basis of MRI criteria. [Display omitted]
•Waxholm Space atlas (v2.0) of the rat brain•Volumetric atlas template for the rat hippocampal region•MRI-based boundary criteria•3D graphical model of hippocampal formation and parahippocampal region</description><subject>Alzheimer's disease</subject><subject>Animals</subject><subject>Brain</subject><subject>Brain Mapping</subject><subject>Diffusion</subject><subject>Diffusion Tensor Imaging</subject><subject>Digital brain atlasing</subject><subject>Hippocampus</subject><subject>Hippocampus - anatomy & histology</subject><subject>Imaging, Three-Dimensional</subject><subject>Investigations</subject><subject>Magnetic Resonance Imaging</subject><subject>Male</subject><subject>Neuroinformatics</subject><subject>NMR</subject><subject>Nuclear magnetic resonance</subject><subject>Parahippocampus</subject><subject>Rats</subject><subject>Rats, Sprague-Dawley</subject><subject>Rodents</subject><subject>Segmentation</subject><subject>Software</subject><subject>Sprague Dawley rat</subject><subject>Template</subject><subject>Waxholm Space</subject><issn>1053-8119</issn><issn>1095-9572</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2015</creationdate><recordtype>article</recordtype><sourceid>EIF</sourceid><sourceid>BENPR</sourceid><sourceid>3HK</sourceid><recordid>eNqNkt-O1SAQxhujcdfVV1ASb7zpEWih4J1u_Jds4oVrvCS0TM_hpIUK1Ohb-MhOPbuaeKNXwPCbmY_hqyrC6I5RJp8fdwHWFP1s97DjlLU7xndU0TvVOaNa1Fp0_O62F02tGNNn1YOcj5RSzVp1vzrjQihBOT-vfny23w5xmsnHxQ5AbJlsJnEk5QAk2UL6ZH0gB78scbDzYieSYO9jeEGuDwmgdn6GkDGANw4mH8AWPGXS2wyOxEBQY4DiB0zMiIWtS3DE-XFct0RSsEBMZHuMD_uH1b3RThke3awX1ac3r68v39VXH96-v3x5VQ-yFaVuQQvJtRh6x9QoOeVMaiUb7dpWY5hLPlDbd6BlO7LOSaqpBKmspn3X07a5qJ6c6g7J5-KDCTFZw6gS3Ajd6AaJZydiSfHLCrmY2ecBpskGiGs2TEraMspF9x-oaBhK4hzRp3-hx7gmHN8vindKdUwjpW7VxZwTjGZJOKD0HRWazQLmaP5YwGwWMIwbtACmPr5psPYzuN-Jt3-OwKsTADjerx6SyYMH_BfnEwzFuOj_3eUnhrLGXw</recordid><startdate>20150301</startdate><enddate>20150301</enddate><creator>Kjonigsen, Lisa J.</creator><creator>Lillehaug, Sveinung</creator><creator>Bjaalie, Jan G.</creator><creator>Witter, Menno P.</creator><creator>Leergaard, Trygve B.</creator><general>Elsevier Inc</general><general>Elsevier Limited</general><general>Academic Press</general><scope>6I.</scope><scope>AAFTH</scope><scope>CGR</scope><scope>CUY</scope><scope>CVF</scope><scope>ECM</scope><scope>EIF</scope><scope>NPM</scope><scope>AAYXX</scope><scope>CITATION</scope><scope>3V.</scope><scope>7TK</scope><scope>7X7</scope><scope>7XB</scope><scope>88E</scope><scope>88G</scope><scope>8AO</scope><scope>8FD</scope><scope>8FE</scope><scope>8FH</scope><scope>8FI</scope><scope>8FJ</scope><scope>8FK</scope><scope>ABUWG</scope><scope>AFKRA</scope><scope>AZQEC</scope><scope>BBNVY</scope><scope>BENPR</scope><scope>BHPHI</scope><scope>CCPQU</scope><scope>DWQXO</scope><scope>FR3</scope><scope>FYUFA</scope><scope>GHDGH</scope><scope>GNUQQ</scope><scope>HCIFZ</scope><scope>K9.</scope><scope>LK8</scope><scope>M0S</scope><scope>M1P</scope><scope>M2M</scope><scope>M7P</scope><scope>P64</scope><scope>PQEST</scope><scope>PQQKQ</scope><scope>PQUKI</scope><scope>PRINS</scope><scope>PSYQQ</scope><scope>Q9U</scope><scope>RC3</scope><scope>7X8</scope><scope>7QO</scope><scope>3HK</scope></search><sort><creationdate>20150301</creationdate><title>Waxholm Space atlas of the rat brain hippocampal region: Three-dimensional delineations based on magnetic resonance and diffusion tensor imaging</title><author>Kjonigsen, Lisa J. ; Lillehaug, Sveinung ; Bjaalie, Jan G. ; Witter, Menno P. ; Leergaard, Trygve B.</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c645t-4e956295cbd18f62021698639d44995c262c0ab7e964f17d60906e68a90b7b043</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2015</creationdate><topic>Alzheimer's disease</topic><topic>Animals</topic><topic>Brain</topic><topic>Brain Mapping</topic><topic>Diffusion</topic><topic>Diffusion Tensor Imaging</topic><topic>Digital brain atlasing</topic><topic>Hippocampus</topic><topic>Hippocampus - anatomy & histology</topic><topic>Imaging, Three-Dimensional</topic><topic>Investigations</topic><topic>Magnetic Resonance Imaging</topic><topic>Male</topic><topic>Neuroinformatics</topic><topic>NMR</topic><topic>Nuclear magnetic resonance</topic><topic>Parahippocampus</topic><topic>Rats</topic><topic>Rats, Sprague-Dawley</topic><topic>Rodents</topic><topic>Segmentation</topic><topic>Software</topic><topic>Sprague Dawley rat</topic><topic>Template</topic><topic>Waxholm Space</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Kjonigsen, Lisa J.</creatorcontrib><creatorcontrib>Lillehaug, Sveinung</creatorcontrib><creatorcontrib>Bjaalie, Jan G.</creatorcontrib><creatorcontrib>Witter, Menno P.</creatorcontrib><creatorcontrib>Leergaard, Trygve B.</creatorcontrib><collection>ScienceDirect Open Access Titles</collection><collection>Elsevier:ScienceDirect:Open Access</collection><collection>Medline</collection><collection>MEDLINE</collection><collection>MEDLINE (Ovid)</collection><collection>MEDLINE</collection><collection>MEDLINE</collection><collection>PubMed</collection><collection>CrossRef</collection><collection>ProQuest Central (Corporate)</collection><collection>Neurosciences Abstracts</collection><collection>Health & Medical Collection</collection><collection>ProQuest Central (purchase pre-March 2016)</collection><collection>Medical Database (Alumni Edition)</collection><collection>Psychology Database (Alumni)</collection><collection>ProQuest Pharma Collection</collection><collection>Technology Research Database</collection><collection>ProQuest SciTech Collection</collection><collection>ProQuest Natural Science Collection</collection><collection>Hospital Premium Collection</collection><collection>Hospital Premium Collection (Alumni Edition)</collection><collection>ProQuest Central (Alumni) (purchase pre-March 2016)</collection><collection>ProQuest Central (Alumni Edition)</collection><collection>ProQuest Central UK/Ireland</collection><collection>ProQuest Central Essentials</collection><collection>Biological Science Collection</collection><collection>ProQuest Central</collection><collection>Natural Science Collection</collection><collection>ProQuest One Community College</collection><collection>ProQuest Central Korea</collection><collection>Engineering Research Database</collection><collection>Health Research Premium Collection</collection><collection>Health Research Premium Collection (Alumni)</collection><collection>ProQuest Central Student</collection><collection>SciTech Premium Collection</collection><collection>ProQuest Health & Medical Complete (Alumni)</collection><collection>ProQuest Biological Science Collection</collection><collection>Health & Medical Collection (Alumni Edition)</collection><collection>Medical Database</collection><collection>ProQuest Psychology</collection><collection>Biological Science Database</collection><collection>Biotechnology and BioEngineering Abstracts</collection><collection>ProQuest One Academic Eastern Edition (DO NOT USE)</collection><collection>ProQuest One Academic</collection><collection>ProQuest One Academic UKI Edition</collection><collection>ProQuest Central China</collection><collection>ProQuest One Psychology</collection><collection>ProQuest Central Basic</collection><collection>Genetics Abstracts</collection><collection>MEDLINE - Academic</collection><collection>Biotechnology Research Abstracts</collection><collection>NORA - Norwegian Open Research Archives</collection><jtitle>NeuroImage (Orlando, Fla.)</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Kjonigsen, Lisa J.</au><au>Lillehaug, Sveinung</au><au>Bjaalie, Jan G.</au><au>Witter, Menno P.</au><au>Leergaard, Trygve B.</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Waxholm Space atlas of the rat brain hippocampal region: Three-dimensional delineations based on magnetic resonance and diffusion tensor imaging</atitle><jtitle>NeuroImage (Orlando, Fla.)</jtitle><addtitle>Neuroimage</addtitle><date>2015-03-01</date><risdate>2015</risdate><volume>108</volume><spage>441</spage><epage>449</epage><pages>441-449</pages><issn>1053-8119</issn><eissn>1095-9572</eissn><abstract>Atlases of the rat brain are widely used as reference for orientation, planning of experiments, and as tools for assigning location to experimental data. Improved quality and use of magnetic resonance imaging (MRI) and other tomographical imaging techniques in rats have allowed the development of new three-dimensional (3-D) volumetric brain atlas templates. The rat hippocampal region is a commonly used model for basic research on memory and learning, and for preclinical investigations of brain disease. The region features a complex anatomical organization with multiple subdivisions that can be identified on the basis of specific cytoarchitectonic or chemoarchitectonic criteria. We here investigate the extent to which it is possible to identify boundaries of divisions of the hippocampal region on the basis of high-resolution MRI contrast. We present the boundaries of 13 divisions, identified and delineated based on multiple types of image contrast observed in the recently published Waxholm Space MRI/DTI template for the Sprague Dawley rat brain (Papp et al., Neuroimage 97:374–386, 2014). The new detailed delineations of the hippocampal formation and parahippocampal region (Waxholm Space atlas of the Sprague Dawley rat brain, v2.0) are shared via the INCF Software Center (http://software.incf.org/), where also the MRI/DTI reference template is available. The present update of the Waxholm Space atlas of the rat brain is intended to facilitate interpretation, analysis, and integration of experimental data from this anatomically complex region.
Volumetric Waxholm Space rat brain atlas (v2.0), in which the hippocampal formation and parahippocampal region have been delineated on the basis of MRI criteria. [Display omitted]
•Waxholm Space atlas (v2.0) of the rat brain•Volumetric atlas template for the rat hippocampal region•MRI-based boundary criteria•3D graphical model of hippocampal formation and parahippocampal region</abstract><cop>United States</cop><pub>Elsevier Inc</pub><pmid>25585022</pmid><doi>10.1016/j.neuroimage.2014.12.080</doi><tpages>9</tpages><oa>free_for_read</oa></addata></record> |
| fulltext | fulltext |
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| ispartof | NeuroImage (Orlando, Fla.), 2015-03, Vol.108, p.441-449 |
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| language | eng |
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| source | MEDLINE; NORA - Norwegian Open Research Archives; Elsevier ScienceDirect Journals |
| subjects | Alzheimer's disease Animals Brain Brain Mapping Diffusion Diffusion Tensor Imaging Digital brain atlasing Hippocampus Hippocampus - anatomy & histology Imaging, Three-Dimensional Investigations Magnetic Resonance Imaging Male Neuroinformatics NMR Nuclear magnetic resonance Parahippocampus Rats Rats, Sprague-Dawley Rodents Segmentation Software Sprague Dawley rat Template Waxholm Space |
| title | Waxholm Space atlas of the rat brain hippocampal region: Three-dimensional delineations based on magnetic resonance and diffusion tensor imaging |
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