[Mristudio-users] can I use the neonatal brain atlas in ROIEDITOR?

[kenichioishi]

Dear Maya,

Thank you for your interest in our neonatal atlas.
Please visit
http://cmrm.med.jhmi.edu/
then click 'Atlas' then 'Neonate brain atlas' in the leftmost column.
After registration, you can download our neonatal atlas.
You can normalize your image to this atlas using DiffeoMap (or whatever software you want, including SPM or FSL).
The Diffeomap will output 2 transformation matrices at the same time. One is a Kimap (transformation from your image to the template) and the other is an Hmap (transformation from the template to your image). 
You can normalize you image to the template space by applying the Kimap to your image.
If you want to overlay our parcellation map to your image in original space, you can apply Hmap to our parcellation map to create the parcellation map in your original space. 
To measure scalar values (e.g., FA, MD, etc) of each structure (parcel), you can use the ROIeditor.
Hope this helps.

Best regards,

Kenichi Oishi
-------------------------------------------------------------
Kenichi Oishi, MD, PhD
Assistant Professor
Department of Radiology
Johns Hopkins University School of Medicine
koishi at mri.jhu.edu
-------------------------------------------------------------

On Nov 20, 2011, at 7:25 AM, susumu mori wrote:

> We currently have several atlases for pediatric populations. Please contact following colleagues;
> 
> 0 month: Dr. Kenichi Oishi
> 18 month and 24 month: Dr. Shoko Yoshida
> 
> You can use these atlases as a template in DiffeoMap. The rest of the procedures will be the same as adult atlas-based studies.
> 
> On Sun, Nov 20, 2011 at 6:36 AM, maya weinstein <weinmaya at gmail.com> wrote:
> Hi MRIStudio support,
>  
> I read Oishi et al (2011) "Multi-contrast human neonatal brain atlas: Application to normal neonate
> development analysis" NeuroImage.
> 
> Is there a way to coregister my data to this atlas and then use this atlas as a reference in the ROIEditor?
> 
> Thanks,
> 
> Maya
> 
> 
> 
> -- 
> Maya Weinstein
> Department of Psychology, Bar-Ilan University
> Functional Brain Imaging Unit, Wohl Institute for Advanced Imaging, Tel-Aviv Sourasky Medical Center
> 
> 
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