McGill.CA / McConnell Brain Imaging Centre / Neuroinformatics

Brain Atlases: NIH Pediatric

NIH Pediatric

NIHPD Objective 1 Atlases (4.5–18.5y)

We present an unbiased standard magnetic resonance imaging template brain volume for pediatric data from the 4.5 to 18.5y age range. These volumes were created using data from 324 children enrolled in the NIH-funded MRI study of normal brain development (Almli et al., 2007, Evans and Group 2006).

Tools for using these atlases can be found in the Software section.

Publications

The following publications should be referenced when using this atlas:

VS Fonov, AC Evans, RC McKinstry, CR Almli and DL Collins Unbiased nonlinear average age-appropriate brain templates from birth to adulthood NeuroImage, Volume 47, Supplement 1, July 2009, Page S102 Organization for Human Brain Mapping 2009 Annual Meeting, DOI: 10.1016/S1053-8119(09)70884-5

License

Under Construction

Viewing

To view the atlases online, click on the appropriate JIV2 link in the Download section below.

Online viewing requires Java browser support. The Java Internet Viewer (JIV2) used here is available for download and personal use under the GNU general public license (GPL).

When viewing, the stereotaxic coordinates (X,Y,Z) are displayed in the first row below the volumes. One can use the left most mouse button to click on any image, and the other cross-sectional images will be updated with the appropriate position. You can also hold the middle/rocker mouse button down while moving up or down, to pan through the image plane. Holding ‘Shift’ with the left or middle button will enable dragging and zooming. When looking at the images, remember that left is left and right is right!

Download

You can download templates constructed for different age ranges. For each age range you will get an average T1w, T2w, PDw maps normalized between 0 and 100. Also each age range includes a binary brain mask. NOTE that these templates are smaller then standard MNI-152 template, so if you use them to perform registration in stereotaxic space it will be different coordinate system. It is possible to transform results to MNI-152 space by applying following scaling: 1.21988 in x direction, 1.23510 in y direction and 1.28654 in z direction. Also, you can apply transformation defined in nihpd_asym_44–60_tal.xfm file.

All templates for all age ranges in one archive: MINC1 388MB, MINC2 387MB, NIFTI 375MB,T1w JIV2

NIHPD Objective 2 Atlases (birth - 4.5 years)

We present an unbiased magnetic resonance imaging template brain volume for pediatric data from birth to 4.5y age range. These volumes were created using 317 scans from 108 children enrolled in the NIH-funded MRI study of normal brain development (Almli et al., 2007, Evans and Group 2006).

Tools for using these atlases can be found in the Software section.

Viewing

To view the atlases online, click on the appropriate JIV2 link in the Download section.

Online viewing requires Java browser support. The Java Internet Viewer (JIV2) used here is available for download and personal use under the GNU general public license (GPL).

When viewing, the MNI stereotaxic coordinates (X,Y,Z) are displayed in the first row below the volumes. One can use the left most mouse button to click on any image, and the other cross-sectional images will be updated with the appropriate position. You can also hold the middle/rocker mouse button down while moving up or down, to pan through the image plane. Holding ‘Shift’ with the left or middle button will enable dragging and zooming. When looking at the images, remember that left is left and right is right!

Methods

The pediatric average atlases are comprised of:

Image pre-processing included non-uniform intensity correction (Sled, 1998) and intensity normalization to a range of 0–100. All T1w MRI data was then transformed into the Talairach-like MNI stereotaxic space using minctracc (Collins, Neelin et al. 1994). Brain masking was performed using BET (Smith, 2002). Age-based subgroups of subjects were created, and all scans within each group were then automatically re-registered to the stereotaxic space using the appropriate template. For each group, an iterative nonlinear co-registration algorithm (Grabner, Janke et al. 2006, Fonov, 2010), was applied to obtain the group averages. The T1-based transformation was then applied to the T2, PD and tissue classified volumes to generate average atlases for these data. Methodological details can be found in (Fonov, 2010).

Publications

The following publications should be referenced when using this atlas:

VS Fonov, AC Evans, K Botteron, CR Almli, RC McKinstry, DL Collins and BDCG, Unbiased average age-appropriate atlases for pediatric studies, NeuroImage, In Press, ISSN 1053–8119, DOI: 10.1016/j.neuroimage.2010.07.033

VS Fonov, AC Evans, RC McKinstry, CR Almli and DL Collins Unbiased nonlinear average age-appropriate brain templates from birth to adulthood NeuroImage, Volume 47, Supplement 1, July 2009, Page S102 Organization for Human Brain Mapping 2009 Annual Meeting, DOI: 10.1016/S1053-8119(09)70884-5

License

Under Construction

Age Comparisons

To compare between different NIHPD age atlases, click here and choose the desired ages. Note that the adult template is also included for reference (18.5–43 y.o): ICBM 152 Nonlinear atlases version 2009.

Download

You can download templates constructed for different age ranges. For each age range you will get an average T1w, T2w, PDw maps normalized between 0 and 100 and tissue probability maps, with values between 0 and 1. Also each age range includes a binary brain mask.

Left-Right Symmetric templates

Asymmetric (natural) templates

 

 

 

                           

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