Cheol Han, Ph.D
Computational Neuroscience and Neuroinformatics
Department of Brain and Cognitive Sciences
Seoul National University
Korea
On Fri, Mar 30, 2012 at 8:40 AM, Lilla Zollei
<lzollei@nmr.mgh.harvard.edu> wrote:
Hi Cheol,
I am a bit confused by your question. The atlases that we use help with the segmentation on the surface rec
onstruction steps when we process a new volume. If the outcomes look resonable to you, then all is good. Did I answer your question?
Lilla
On Fri, 30 Mar 2012, Cheol Han wrote:
Dear Lilla
I appreciate your answers. It was very helpful. Just another follow-up question. I think freesurfer itself ended without errors and the skull-stripped and surfaces look okay. I think in the recommended reconstruction Pipeline, "check segmentation" is related to
checking atlas worked. Still, I wonder there is a gold standard to check the atlas (Deksian atlas) works okay. .
Thanks again!
Best
Cheol
Cheol Han, Ph.D
Computational Neuroscience and Neuroinformatics
Department of Brain and Cognitive Sciences
Seoul National University
Korea
On Fri, Mar 30, 2012 at 2:46 AM, Lilla Zollei <lzollei@nmr.mgh.harvard.edu> wrote:
Hi Cheol,
I am using freesurfer for patients with various neural disease. I wonder the the
freesurfer atlas is applicable to them: dementia (with Lewy bodies, DLB),
epilepsy, schizophrenia, ADHD, Alzheimer, stroke. (I know some studies already
used freesurfer for some of the diseases in the list,) I believe epilepsy
patients with lobectomy cannot be applicable.
If the malformation or the difference between normal control acquisitions and your scans is significant the FS pipeline, using the FS atlas is not going to be successful. Withuot seeing your data I cannot tell which population from the above is going to be
affected, but if in doubt just try processing one or two representative samples from the different populations and assess how successful the processing is.
Also is there age limit for the freesurfer atlas? How young can the atlas work
for? 4 year-old? 6 year-old? or more than 10 year-old? How about the upper
bound? 80 year-old?
The lower bound, in our experience, is about 4-5 yrs. Of course, it depends on your data quality but we had success all the way down to that age. I am not aware of any upper limits. Again, if you are processing these kind of "extreme" populations, make sure
that you inspect the outcome of the FS recon pipeline carefully before proceeding with any type of analysis.
Lilla
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