Scalable Brain Atlas - Calabrese et al. (2015) DTI atlas with Paxinos brain regions

Macaque - Calabrese et al. (2015) DTI atlas with Paxinos brain regions

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About this atlas

The Calabrese et al. (2015) MRI and DTI atlas is based on 0.075 mm MRI and 0.15 mm DTI images, averaged over 10 macaques in the age range 1.8 to 11 years and body weight range 2.2 to 10 kg. The near-microscopic resolution is made possible by using postmortem brains immersed in contrast enhancing agents, a high magnetic field strength (7T), a 65mm diameter RF coil, and long scan times (46h for MRI+DTI).
The atlas segmentation contains 241 anatomic labels and is largely consistent with the Paxinos et al. (2009) Nissl based atlas.
The brain region hierarchy is that of Puelles et al., (2013).
Average atlas templates for eight image contrasts are available for download (academic use only) at the Duke University CIVM archive.
The data was obtained at the Center for In Vivo Microscopy at Duke University Medical Center, under the supervision of Allan Johnson.

Terms of use

This template is subject to license terms.
In addition, you must abide by our citation policy, designed to give proper credit to atlas makers.
In brief, always (1) cite each data source that contributed to your analysis, and (2) cite the Scalable Brain Atlas main publication and plugin references where appropriate.

The defining citations for this atlas template are:

Calabrese E, Badea A, Coe CL, Lubach GR, Shi Y, Styner MA, Johnson A (2015) "A diffusion tensor MRI atlas of the postmortem rhesus macaque brain" Neuroimage 117:408–416. [doi 10.1016/j.neuroimage.2015.05.072]

Downloads

It is recommended that you download atlas data directly from the original data source. This will give you the most recent version of the data with the highest resolution.
The original data source for this atlas is: http://www.civm.duhs.duke.edu/rhesusatlas/.
In case you can't find the data at the original source, the Scalable Brain Atlas provides selected (downsampled) datasets for your convenience.
The license terms of the original data source apply.

FA: Fractional Anisotropy
- ../../templates/CBCetal15/source/civm_rhesus_v1_fac.nii.gz; filesize 46735 kB; shape [400x530x340]
- ../../templates/CBCetal15/source/civm_rhesus_v1_fac_downsample2.nii.gz; filesize 7016 kB; shape [200x265x170]
DWI: Diffusion Weighted Image
- ../../templates/CBCetal15/source/civm_rhesus_v1_dwi.nii.gz; filesize 18700 kB; shape [400x530x340]
- ../../templates/CBCetal15/source/civm_rhesus_v1_dwi_downsample2.nii.gz; filesize 2713 kB; shape [200x265x170]
b0: b0 (T2-like) Image
- ../../templates/CBCetal15/source/civm_rhesus_v1_b0.nii.gz; filesize 18452 kB; shape [400x530x340]
- ../../templates/CBCetal15/source/civm_rhesus_v1_b0_downsample2.nii.gz; filesize 2631 kB; shape [200x265x170]
labels: Atlas labels
The label index mapper converts label indices to acronyms, full names, and rgb-values.
- ../../templates/CBCetal15/source/civm_rhesus_v1_labels.nii.gz; filesize 2888 kB; shape [400x530x340]
- ../../templates/CBCetal15/source/civm_rhesus_v1_labels_downsample2.nii.gz; filesize 555 kB; shape [200x265x170]
coronal_svg: Coronal sections of the label volume "civm_rhesus_v1_labels.nii", converted to Scalable Vector Graphics.
Brain regions are color-coded by the RGB to Acronym map, which can be chained with the Acronym to Fullname map.
- ../../templates/CBCetal15/source/coronal_svg.zip; filesize 2737 kB

The Scalable Brain Atlas is developed by Rembrandt Bakker and many contributors with financial support from INCF, Radboud University Nijmegen, and others.
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