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
Parcellations in FreeSurfer Surface Space
7 Network Estimate |
7 Network Confidence |
17 Network Estimate |
17 Network Confidence |
|
|
|
|
|
|
|
|
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 |
|
|
|
|
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:
Index
Network Name
R
G
B
0
NONE
0
0
0
0
1
7Networks_1
120
18
134
0
2
7Networks_2
70
130
180
0
3
7Networks_3
0
118
14
0
4
7Networks_4
196
58
250
0
5
7Networks_5
220
248
164
0
6
7Networks_6
230
148
34
0
7
7Networks_7
205
62
78
0
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:
Index
Network Name
R
G
B
0
NONE
0
0
0
0
1
17Networks_1
120
18
134
0
2
17Networks_2
255
0
0
0
3
17Networks_3
70
130
180
0
4
17Networks_4
42
204
164
0
5
17Networks_5
74
155
60
0
6
17Networks_6
0
118
14
0
7
17Networks_7
196
58
250
0
8
17Networks_8
255
152
213
0
9
17Networks_9
200
248
164
0
10
17Networks_10
122
135
50
0
11
17Networks_11
119
140
176
0
12
17Networks_12
230
148
34
0
13
17Networks_13
135
50
74
0
14
17Networks_14
12
48
255
0
15
17Networks_15
0
0
130
0
16
17Networks_16
255
255
0
0
17
17Networks_17
205
62
78
0
Example Usage
See README in unzipped folder
Other downloads
Cerebral Surface Parcellations in Caret Space
Movies of Cortical Seed-based Functional Connectivity
Cerebellar Parcellation in MNI Space
Movies of Cerebellar Seed-based Functional Connectivity