Macaque atlas: the SARM
Creators
- 1. Centre for Integrative Neurosciences, University of Tübingen, Tübingen, Germany; Max Planck Institute for Biological Cybernetics, Tübingen, Germany; Department of Psychiatry and Psychotherapy, Central Institute of Mental Health, Medical Faculty Mannheim, Heidelberg University, Mannheim, Germany
- 2. Scientific and Statistical Computing Core, National Institute of Mental Health, Bethesda, USA
- 3. Department of Neuroscience, Brown University, Providence RI USA; Laboratory of Brain and Cognition, National Institute of Mental Health, Bethesda, USA
- 4. Max Planck Institute for Biological Cybernetics, Tübingen, Germany; University of Manchester, Manchester, United Kingdom
- 5. Neuroscience Research Australia and The University of New South Wales, Sydney, Australia
- 6. Instituto de Neurobiologia, Universidad Nacional Autónoma de México campus Juriquilla, Queretaro, Mexico
- 7. Laboratory of Brain and Cognition, National Institute of Mental Health, Bethesda, USA
- 8. Centre for Integrative Neurosciences, University of Tübingen, Tübingen, Germany; Max Planck Institute for Biological Cybernetics, Tübingen, Germany; Nathan S. Kline Institute for Psychiatric Research, Orangeburg, New York, USA; International Center for Primate Brain Research, Center for Excellence in Brain Science and Intelligence Technology, Chinese Academy of Science, Shanghai, China
Description
Macaque atlas: the SARM
Overview
Here we present the Subcortical Atlas of the Rhesus Macaque (SARM).
This atlas is defined in the coordinates/space of the NMT v2 template, described here:
Macaque template: NMT v2 (current).
Contents
Digitized anatomical atlases are crucial for examining brain structure and the functional networks identified by magnetic resonance imaging (MRI). To aid in MRI data analysis, we created a complete parcellation of the rhesus macaque subcortex using high-resolution ex vivo structural imaging and histological data. The structural scan was warped to the NIMH Macaque Template (NMT v2), an in vivo population template, where the parcellation was refined to produce the Subcortical Atlas of the Rhesus Macaque (SARM). The NMT v2 has several forms and variants (based on symmetry/asymmetry, field-of-view, and voxel size), and for each of these there is an accompanying SARM.
Using an updated version of the Rhesus Monkey Brain in Stereotaxic Coordinates (Paxinos et al., 2009; Paxinos et al., in preparation) for guidance, the SARM features 6 parcellation levels, arranged hierarchically from fine regions-of-interest (ROIs) to broader composite regions, suited for fMRI studies.
The SARM is distributed as a single dataset with six sub-volumes, whereby SARM Level 1 is volume "[0]" and Level 6 is volume "[5]". The distribution also includes a binary SARM mask file.
The download includes a CSV table file of the hierarchically-organized ROI labels. This can be viewed as a simple text file or within any spreadsheet software, such as Microsoft Excel.
Download
The SARM can be downloaded directly here, and it is also distributed as part of the NMT v2 download. For each form/variant of the NMT, there is a matching SARM dataset, as well.
To download and unpack the datasets, please see the instructions…
- … here for the symmetric from: Download symmetric NMT v2 datasets
- … here for the asymmetric from: Download asymmetric NMT v2 datasets
Additional supplemental files (including the original ex vivo anatomical scan, brain mask, subcortical parcellation, label file, transformation scripts to compute the nonlinear registration of the individual G12 to the NMTv2 and related artifact masks) may also be downloaded here.
Citation/questions
If you make use of the SARM in your research, please cite:
Hartig R, Glen D, Jung B, Logothetis NK, Paxinos G, Garza-Villarreal EA, Messinger A, Evrard C (2020). “Magnetic Resonance Imaging Atlas of the Rhesus Macaque Subcortex.” NeuroImage, submitted.
For questions, comments and/or suggestions, contact:
henry.evrard @ tuebingen.mpg.de
renee.hartig @ tuebingen.mpg.de
adam.messinger @ nih.gov
glend @ mail.nih.gov
egarza@comunidad.unam.mx
Files
SARM_atlas_Distribution_Package.zip
Files
(914.2 MB)
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md5:8f1978c2784ce7a9fe4233c0eab75384
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914.2 MB | Preview Download |
Additional details
References
- Hartig R, Glen D, Jung B, Logothetis NK, Paxinos G, Garza-Villarreal EA, Messinger A, Evrard C (2020). "Magnetic Resonance Imaging Atlas of the Rhesus Macaque Subcortex." NeuroImage, submitted.