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Cortical Parcellation Estimated by Intrinsic Functional Connectivity

Data from 1000 young, healthy adults were registered using surface-based alignment. All data were acquired on siemens 3T scanners using the same functional and structural sequences. A clustering approach was employed to identify and replicate networks of functionally coupled regions across the cerebral cortex. The results revealed local networks confined to sensory and motor cortices as well as distributed networks of association regions that form interdigitated circuits. Within the sensory and motor cortices, functional connectivity followed topographic representations across adjacent areas. In association cortex, the connectivity patterns often showed abrupt transitions between network boundaries, forming largely parallel circuits. The parcellations of the cerebral cortex into 7 and 17 networks in FreeSurfer surface space and nonlinear MNI152 are available for download.

References

Yeo BT, Krienen FM, Sepulcre J, Sabuncu MR, Lashkari D, Hollinshead M, Roffman JL, Smoller JW, Zollei L., Polimeni JR, Fischl B, Liu H, Buckner RL (2011) The organization of the human cerebral cortex estimated by intrinsic functional connectivity. J. Neurophysiol. In Press.

Parcellations in FreeSurfer Surface Space

7 Network Estimate

7 Network Confidence

17 Network Estimate

17 Network Confidence

Yeo2011_JNeurophysiol_7networks_lateral.png

Yeo2011_JNeurophysiol_7networks_lateral_confidence.png

Yeo2011_JNeurophysiol_17networks_lateral.png

Yeo2011_JNeurophysiol_17networks_lateral_confidence.png

Yeo2011_JNeurophysiol_7networks_medial.png

Yeo2011_JNeurophysiol_7networks_medial_confidence.png

Yeo2011_JNeurophysiol_17networks_medial.png

Yeo2011_JNeurophysiol_17networks_medial_confidence.png

Downloads

Resting State Cortical Parcellation in fsaverage, fsaverage6 and fsaverage5 Space. These subjects are also currently in the developmental version of FreeSurfer which can be accessed from the Martinos center network (/autofs/cluster/freesurfer/centos4.0_x86_64/dev/subjects/). These subjects will be officially included in some future FreeSurfer release. Note however, the zip file linked here corresponds exactly to that from the reference, while functional parcellations in the developmental and official release versions of FreeSurfer are subjected to modifications/improvements.

Information about Downloads

There are three folders in "Yeo_JNeurophysiol11_FreeSurfer.zip", corresponding to the "fsaverage", "fsaverage5" and "fsaverage6" surface space. "fsaverage" contains the high resolution version of the parcellation, while "fsaverage6" and "fsaverage5" contain lower resolution versions of the parcellation. The parcellations were computed in "fsaverage5" space and upsampled to "fsaverage6" and "fsaverage".

The structure of each folder follows that of a preprocessed freesurfer subject. In particular, "fsaverage/label/", "fsaverage5/label/", "fsaverage6/label/" contain all the parcellation and confidence files. For example, "fsaverage/label/rh.Yeo2011_7Networks_N1000.annot" is the 7-network parcellation for 1000 subjects on the right hemisphere and "fsaverage/label/lh.Yeo2011_17NetworksConfidence_N1000.mgz" is the confidence map for the 17-network parcellation for 1000 subjects on the left hemisphere.

Example Usage

See README in unzipped folder

Parcellations in Nonlinear MNI152 Volume Space

7 Network Tight Mask

7 Network Liberal Mask

17 Network Tight Mask

17 Network Liberal Mask

Yeo2011_JNeurophysiol_7networks_TightMask_axial9.png

Yeo2011_JNeurophysiol_7networks_LiberalMask_axial9.png

Yeo2011_JNeurophysiol_17networks_TightMask_axial9.png

Yeo2011_JNeurophysiol_17networks_LiberalMask_axial9.png

Downloads

Resting State Cortical Parcellation in nonlinear MNI152 space. We are working to put these subjects in FreeSurfer. Note however, the zip file linked here corresponds exactly to that from the reference, while functional parcellations in the developmental and official release versions of FreeSurfer are subjected to modifications/improvements.

Information about Downloads

1. FSL_MNI152_FreeSurferConformed_1mm.nii.gz is the FSL MNI152 1mm template interpolated and intensity normalized into a 256 x 256 x 256 1mm-isotropic volume (obtained by putting the FSL MNI152 1mm template through recon-all using FreeSurfer 4.5.0)

2. Yeo2011_7Networks_MNI152_FreeSurferConformed1mm.nii.gz is a volume consisting of 7 cortical networks projected into MNI152 space. The cortical ribbon is defined by putting the FSL MNI152 1mm template through recon-all using FreeSurfer 4.5.0. The slices of this volume is shown in Yeo et al., 2011.

3. Yeo2011_7Networks_MNI152_FreeSurferConformed1mm.nii.gz is a volume consisting of 7 cortical networks projected into MNI152 space. The cortical ribbon is defined in a more liberal fashion than in (2). More specifically, the cortical mask is obtained by nonlinear warping 1000 subjects (from Yeo et al. 2011, Buckner et al. 2011) into MNI152 space via the FreeSurfer recon-all pipeline. An initial mask is first obtained where a vox l is decided to be a cortical voxel if the cortex of more than 150 subjects (out of 1000 subjects) were mapped to the voxel or if the voxel is labeled as part of the cortical ribbon from (2). This cortical mask is th n smoothed, and small holes and islands in the masks are removed by simple morphological operations.

4. Yeo2011_7Networks_ColorLUT.txt is a FreeSurfer readable text file specifying how the 7 networks are named, numbered and colored in Yeo et al. 2011:

In particular the networks are numbered from 7Networks_1 to 7Networks_7. The first column of the text file specifies the value of voxels in the nifty values corresponding to the particular network. The second column f the text file specifies the named of the networks. For example, from the text file, voxels whose values = 3 corresponds to the network 7Networks_3.Columns 3 to 5 corresponds to the R, G, B values (ranges from 0 to 55) of the networks. Last column is all zeros (FreeSurfer's default).

5. Yeo2011_17Networks_MNI152_FreeSurferConformed1mm.nii.gz is a volume consisting of 17 cortical networks projected into MNI152 space. The cortical ribbon is defined in the same fashion as (2), i.e., by putting the F L MNI152 1mm template through recon-all using FreeSurfer 4.5.0.

6. Yeo2011_17Networks_MNI152_FreeSurferConformed1mm.nii.gz is a volume consisting of 17 cortical networks projected into MNI152 space. The cortical ribbon is defined in a more liberal fashion than in (2) and in the s me way as (3).

7. Yeo2011_17Networks_ColorLUT.txt is a FreeSurfer readable text file specifying how the 17 networks are named, numbered and colored in Yeo et al. 2011:

Example Usage

See README in unzipped folder

Other downloads

Surface Parcellations in Caret Space

Movies of Seed-based Functional Connectivity

Code for the von Mises-Fisher Mixture Model Clustering