Waxholm Space atlas of the rat brain hippocampal region: Three-dimensional delineations based on magnetic resonance and diffusion tensor imaging

NeuroImage

Volumn 108, Issue , 2015, Pages 441-449

  Kjonigsen, Lisa J ^a   Lillehaug, Sveinung ^a   Bjaalie, Jan G ^a   Witter, Menno P ^b   Leergaard, Trygve B ^a  

^a UNIVERSITY OF OSLO   (Norway)

^b NORWEGIAN UNIVERSITY OF SCIENCE AND TECHNOLOGY   (Norway)

Author keywords

Diffusion tensor imaging; Digital brain atlasing; Hippocampus; Magnetic resonance imaging; Neuroinformatics; Parahippocampus; Segmentation; Sprague Dawley rat; Template; Waxholm Space

Indexed keywords

ADULT; ANATOMICAL CONCEPTS; ANIMAL TISSUE; ARTICLE; BRAIN MAPPING; BRAIN REGION; BRAIN SIZE; CONTRAST ENHANCEMENT; CONTROLLED STUDY; CYTOARCHITECTURE; DENTATE GYRUS; DIFFUSION TENSOR IMAGING; DIGITAL IMAGING; ENTORHINAL CORTEX; FASCIOLA CINEREUM; HIPPOCAMPAL CA1 REGION; HIPPOCAMPAL CA2 REGION; HIPPOCAMPAL CA3 REGION; HIPPOCAMPUS; IMAGE ANALYSIS; LEARNING; MALE; MEMORY; NEUROANATOMY; NEUROIMAGING; NONHUMAN; PARAHIPPOCAMPAL GYRUS; PARASUBICULUM; PERIRHINAL CORTEX; PRESUBICULUM; RAT; STRUCTURE ANALYSIS; SUBICULUM; THREE DIMENSIONAL IMAGING; WAXHOLM SPACE ATLAS; ANATOMY AND HISTOLOGY; ANIMAL; NUCLEAR MAGNETIC RESONANCE IMAGING; SPRAGUE DAWLEY RAT;

ANIMALS; BRAIN MAPPING; DIFFUSION TENSOR IMAGING; HIPPOCAMPUS; IMAGING, THREE-DIMENSIONAL; MAGNETIC RESONANCE IMAGING; MALE; RATS; RATS, SPRAGUE-DAWLEY;

EID: 84922225184     PISSN: 10538119     EISSN: 10959572     Source Type: Journal    
DOI: 10.1016/j.neuroimage.2014.12.080     Document Type: Article

References (26)

1. Andersen P., Morris R., Amaral D., Bliss T., O'Keefe J. The Hippocampus Book 2007, Oxford University Press, Oxford.
2. Boccara C.N., Kjonigsen L.J., Hammer I., Bjaalie J.G., Leergaard T.B., Witter M.P. A three-plane architectonic atlas of the rat hippocampal region. Hippocampus 2014, 10.1002/hipo.22407.
3. Bota M., Swanson L.W. Collating and curating neuroanatomical nomenclatures: principles and use of the Brain Architecture Knowledge Management System (BAMS). Front. Neuroinform. 2010, 4:3.
4. Bowden D.M., Johnson G.A., Zaborsky L., Green W.D.K., Moore E., Badea A., Dubach M.F., Bookstein F.L. A symmetrical Waxholm canonical mouse brain for NeuroMaps. J. Neurosci. Methods 2011, 195:170-175.
5. Braak H., Braak E. Neuropathological stageing of Alzheimer-related changes. Acta Neuropathol. 1991, 82:239-259.
6. Cappaert N.L.M., van Strien N.M., Witter M.P. Hippocampal Formation. The Rat Brain 2014, 511-574. Elsevier Academic Press, San Diego, CA, US, London, UK. G. Paxinos (Ed.).
7. Dolorfo C.L., Amaral D.G. Entorhinal cortex of the rat: organization of intrinsic connections. J. Comp. Neurol. 1998, 398:49-82.
8. Eichenbaum H., Yonelinas A.P., Ranganath C. The medial temporal lobe and recognition memory. Annu. Rev. Neurosci. 2007, 30:123-152.
9. Hawrylycz M., Baldock R.A., Burger A., Hashikawa T., Johnson G.A., Martone M., Ng L., Lau C., Larson S.D., Nissanov J., Puelles L., Ruffins S., Verbeek F., Zaslavsky I., Boline J. Digital atlasing and standardization in the mouse brain. PLoS Comput. Biol. 2011, 7:e1001065.
10. Insausti R., Herrero M.T., Witter M.P. Entorhinal cortex of the rat: cytoarchitectonic subdivisions and the origin and distribution of cortical efferents. Hippocampus 1997, 7:146-183.
11. Johnson G.A., Badea A., Brandenburg J., Cofer G., Fubara B., Liu S., Nissanov J. Waxholm space: an image-based reference for coordinating mouse brain research. NeuroImage 2010, 53:365-372.
12. Kjonigsen L.J., Leergaard T.B., Witter M.P., Bjaalie J.G. Digital atlas of anatomical subdivisions and boundaries of the rat hippocampal region. Front. Neuroinform. 2011, 5:2.
13. Lee D., Ruffins S., Ng Q., Sane N., Anderson S., Toga A. MBAT: a scalable informatics system for unifying digital atlasing workflows. BMC Bioinform. 2010, 11:608.
14. Leergaard T.B., White N.S., de Crespigny A., Bolstad I., D'Arceuil H., Bjaalie J.G., Dale A.M. Quantitative histological validation of diffusion MRI fiber orientation distributions in the rat brain. PLoS One 2010, 5:e8595.
15. Papp E.A., Leergaard T.B., Calabrese E., Johnson G.A., Bjaalie J.G. Waxholm Space atlas of the Sprague Dawley rat brain. NeuroImage 2014, 97:374-386.
16. Papp E.A., Leergaard T.B., Calabrese E., Johnson G.A., Bjaalie J.G. Addendum to "Waxholm Space atlas of the Sprague Dawley rat brain" [NeuroImage 97 (2014) 374-386]. NeuroImage 2015, 105:561-562.
17. Paxinos G., Watson C. The Rat Brain in Stereotaxic Coordinates 2007, Elsevier, Amsterdam; Boston.
18. Schwarcz R., Witter M.P. Memory impairment in temporal lobe epilepsy: the role of entorhinal lesions. Epilepsy Res. 2002, 50:161-177.
19. Stephan H. Allocortex (Vol. 9) 1975, Springer, Berlin.
20. Swanson L.W. Brain Maps: Structure of the Rat Brain 2004, Academic, Oxford. 3rd ed.
21. van Strien N.M., Cappaert N.L., Witter M.P. The anatomy of memory: an interactive overview of the parahippocampal-hippocampal network. Nat. Rev. Neurosci. 2009, 10:272-282.
22. Veraart J., Leergaard T.B., Antonsen B.T., Van Hecke W., Blockx I., Jeurissen B., Jiang Y., Van der Linden A., Johnson G.A., Verhoye M., Sijbers J. Population-averaged diffusion tensor imaging atlas of the Sprague Dawley rat brain. NeuroImage 2011, 58:975-983.
23. White N.S., Leergaard T.B., D'Arceuil H., Bjaalie J.G., Dale A.M. Probing tissue microstructure with restriction spectrum imaging: histological and theoretical validation. Hum. Brain Mapp. 2013, 34:327-346.
24. Witter M.P. Hippocampus. The Mouse Nervous System 2012, 112-139. Elsevier, Amsterdam. C. Watson, G. Paxinos, L. Puelles (Eds.).
25. Witter M.P., Amaral D.G. Hippocampal Formation. The Rat Nervous System 2004, 637-703. Elsevier, Amsterdam. G. Paxinos (Ed.).
26. Yushkevich P.A., Piven J., Hazlett H.C., Smith R.G., Ho S., Gee J.C., Gerig G. User-guided 3D active contour segmentation of anatomical structures: significantly improved efficiency and reliability. NeuroImage 2006, 31:1116-1128.