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Data

1. Introduction
2. Mindboggle-101 atlases
3. Mindboggle-101 templates
4. Mindboggle-101: Individual manually labeled brain surfaces and volumes
5. Other (non-Mindboggle-101) templates and manually labeled brains

Introduction

Welcome to the world’s largest collection of free, manually labeled human brain image data!

Please cite the following article and this website when making use of Mindboggle-101 data:
101 labeled brain images and a consistent human cortical labeling protocol
Arno Klein, Jason Tourville. Frontiers in Brain Imaging Methods. 6:171. DOI: 10.3389/fnins.2012.00171

All data below are also included in Synapse project pages, and except where noted,
all data are licensed under a Creative Commons License: CC_license
as nifti volumes (nii), vtk surfaces (vtk), and FreeSurfer files (mgh, etc.).
You can find out more about the data from the table of subjects, information
about the scans, scan sources, lists of labels, and the log of changes.


./images/data/DKT_labels_width400px.png

Mindboggle-101 atlases

Each of the 101 manually labeled individual brain surfaces and volumes is an atlas, a labeled or annotated brain image that can be used in registration-based labeling. We have combined the individual labels to create aggregate atlases here as well.

Volume atlases

Cortical surface atlases

Mindboggle-101 templates

A template is an unlabeled image used as a reference or standard, often for registering other images to each other. Each one of the image volumes and surfaces below was constructed by combining the images from multiple subjects. ANTS brain templates were made with buildtemplateparallel.sh, head templates with antsMultivariateTemplateConstruction.sh, and FreeSurfer templates with make_freesurfer_template.txt.

Brain volumes: ANTS nonlinear average templates (nii)

Head volumes: ANTS nonlinear average templates (nii)

Cortical surfaces: FreeSurfer nonlinear average templates (tif)

Mindboggle-101: Individual manually labeled brain surfaces and volumes

The Mindboggle-101 dataset includes labeled anatomical regions for 101 healthy subjects. The manually edited cortical labels follow sulcus landmarks according to the Desikan-Killiany-Tourville (DKT) protocol (reference at top).
  • OASIS-TRT-20 MRIs and cortical labels [nii, nii (MNI152), vtk, mgh]:

    All 20 subjects from the OASIS Test-Retest sample OASIS-TRT www

  • OASIS-TRT-20 whole-brain labels [nii, nii (MNI152)]

    The cortical labels above plus manual subcortex by Neuromorphometrics CC_license_nond

  • NKI-RS-22 MRIs and cortical labels [nii, nii (MNI152), vtk, mgh]:

    22 subjects from the Nathan Klein Institute / Rockland Sample NKI-RS www

  • NKI-TRT-20 MRIs and cortical labels [nii, nii (MNI152), vtk, mgh]:

    20 subjects from the Nathan Klein Institute / Test-Retest Sample NKI-TRT www

  • MMRR-21 MRIs and cortical labels [nii, nii (MNI152), vtk, mgh]:

    All 21 subjects in the Multi-Modal MRI Reproducibility Resource MMRR www

  • Extra-18 MRIs and cortical labels [nii, nii (MNI152), vtk, mgh]:
    • HLN-12: All 12 subjects from the Human Language Network study
    • MMRR-3T7T-2: 2 subjects acquired like MMRR-21 (multimodal + 7T scans: MMRR www)
    • Colin27-1: Colin Holmes template (average of 27 scans)
    • Twins-2: 2 identical twins, including AK
    • Afterthought-1: 1 brain imager, SG
  • fsaverage [nii and mgh]:

    The figures above show the DKT cortical labeling protocol with sulcus landmarks on FreeSurfer’s fsaverage surface.

Other (non-Mindboggle-101) templates and manually labeled brains

The following images are not from the Mindboggle-101 data above, and the manual labels are not the same as those of the DKT labeling protocol used for the Mindboggle-101 data above (Warning: These labeled brains were used for evaluating registrations; I cannot vouch for their anatomical accuracy.):

Tissue-segmented templates: created by Nicholas Tustison for use with antsAtroposN4.sh

Templates: built with buildtemplateparallel.sh with images from 2009 evaluation

Atlases: manually labeled volumes from 2009 evaluation

  • CUMC-12: 12 labeled brains (2009)
  • IBSR-18: 18 labeled brains (2009)
  • MGH-10: 10 labeled brains (2009)

./images/data/evaluation2009_80atlases.png