A Web-Based Atlas Combining MRI and Histology of the Squirrel Monkey Brain

Neuroinformatics
Kurt G SchillingAdam W Anderson

Abstract

The squirrel monkey (Saimiri sciureus) is a commonly-used surrogate for humans in biomedical research. In the neuroimaging community, MRI and histological atlases serve as valuable resources for anatomical, physiological, and functional studies of the brain; however, no digital MRI/histology atlas is currently available for the squirrel monkey. This paper describes the construction of a web-based multi-modal atlas of the squirrel monkey brain. The MRI-derived information includes anatomical MRI contrast (i.e., T2-weighted and proton-density-weighted) and diffusion MRI metrics (i.e., fractional anisotropy and mean diffusivity) from data acquired both in vivo and ex vivo on a 9.4 Tesla scanner. The histological images include Nissl and myelin stains, co-registered to the corresponding MRI, allowing identification of cyto- and myelo-architecture. In addition, a bidirectional neuronal tracer, biotinylated dextran amine (BDA) was injected into the primary motor cortex, enabling highly specific identification of regions connected to the injection location. The atlas integrates the results of common image analysis methods including diffusion tensor imaging glyphs, labels of 57 white-matter tracts identified using DTI-tractography, and...Continue Reading

References

Feb 1, 1989·Brain Research Bulletin·A W TogaB A Payne
Nov 1, 1994·NeuroImage·A W TogaS Schluender
Nov 14, 2000·Journal of Neuroscience Methods·A ReinerM G Honig
Nov 11, 2003·IEEE Transactions on Medical Imaging·Gustavo K RohdeBenoit M Dawant
Jun 7, 2005·Philosophical Transactions of the Royal Society of London. Series B, Biological Sciences·Jon H Kaas
Aug 18, 2006·Current Opinion in Neurology·Heidi Johansen-Berg, Timothy E J Behrens
Feb 13, 2007·NeuroImage·Helen E D'ArceuilAlex J de Crespigny
Feb 13, 2007·Brain : a Journal of Neurology·Jeremy D SchmahmannVan J Wedeen
Sep 1, 2007·NeuroImage·John Ashburner
Feb 19, 2009·Trends in Cognitive Sciences·Angela D Friederici
Nov 20, 2009·IEEE Transactions on Medical Imaging·Stefan KleinJosien P W Pluim
Sep 22, 2010·Neuroinformatics·Mei-Yu HsiaoJyh-Horng Chen
Jan 1, 2008·CSH Protocols·Carol Ann PaulJoanne Berger-Sweeney
May 7, 2011·Magnetic Resonance Imaging·Ann S ChoeAdam W Anderson
Jul 1, 2011·Frontiers in Neuroanatomy·Jon H KaasIwona Stepniewska
Oct 8, 2011·NeuroImage·Mark JenkinsonStephen M Smith
Feb 5, 2013·Frontiers in Integrative Neuroscience·Matthew D Budde, Jacopo Annese
Nov 19, 2013·Journal of Pathology Informatics·Adam GoodeMahadev Satyanarayanan
Dec 19, 2013·PloS One·Fang-Cheng YehWen-Yih Isaac Tseng
Jul 22, 2014·Journal of Medical Primatology·Tomoaki MurakamiTokuma Yanai
Apr 23, 2015·Proceedings of the National Academy of Sciences of the United States of America·Li Min ChenJohn C Gore
Apr 29, 2015·Proceedings - Society of Photo-Optical Instrumentation Engineers·Peizhen SunBennett A Landman
Jul 17, 2015·Human Brain Mapping·Thomas R KnöscheTim B Dyrby
Jul 28, 2016·Magnetic Resonance Imaging·Tung-Lin WuJohn C Gore
Dec 6, 2016·The Journal of Comparative Neurology·Song-Lin DingEd S LeinReference
Feb 1, 2017·Neuropsychopharmacology : Official Publication of the American College of Neuropsychopharmacology·Maria E SecciZuzana Justinova
May 23, 2017·ILAR Journal·Matthew L BanksSidney S Negus
Jul 28, 2017·Neuroinformatics·Kurt G SchillingAdam W Anderson
Sep 26, 2017·NMR in Biomedicine·Ben JeurissenAlexander Leemans

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Citations

Apr 18, 2020·Journal of Korean Medical Science·Chung Yoh KimJin Seo Park
Jun 13, 2021·Neuroscience and Biobehavioral Reviews·Julie RoyoMichel Thiebaut de Schotten

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Software Mentioned

Leica
DSI
Atlas
WebGL
CentOS
SNAP
PostgreSQL
AngularJS
MRTrix
Web Viewer Tool

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