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.

BioRxiv preprint:
https://www.biorxiv.org/content/10.1101/2020.09.16.300053v1

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