[Freesurfer] Inclusion of lateral ventricle in pial surface

[Vy Dinh]

Dear Experts,

I noticed that the inferior horn of the lateral ventricles are not included 
within the pial surface while the posterior lateral ventricles are and wonder 
how one should go about when making corrections for the pial surface. This was 
observed in the subjects that I have worked with and also with the Freesurfer 
tutorial sample data. For the sample data, it appears that the hippocampus 
provides a clear delineation of the inferior and posterior lateral ventricles 
in the sagittal view (see attached image "bert") which was not observed with 
our subjects (see attached images "sub"). The segmentation of the lateral 
ventricles, however, looks correct (by using the segmentation label function), 
so I am unsure if this discrepancy affects the measurements at all. However, it 
is worth confirming. I look forward to reading your responses.

Thank you very much,


Vy T.U. Dinh
Research Assistant, Neurological Sciences
Rush University Medical Center
Phone: (312) 563-3853
Fax: (312) 563-4660
Email: vy_d...@rush.edu
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Re: [Freesurfer] Inclusion of lateral ventricle in pial surface

[Bruce Fischl]

Hi Vy,

no, it shouldn't. The pial surfaces are not trustworthy near the 
hippocampus, and we don't use them there.


Bruce
On Wed, 28 Sep 2011, Vy Dinh wrote:


Dear Experts,
I noticed that the inferior horn of the lateral ventricles are not included 
within the pial surface while the posterior lateral
ventricles are and wonder how one should go about when making corrections for 
the pial surface. This was observed in the subjects that
I have worked with and also with the Freesurfer tutorial sample data. For the 
sample data, it appears that the hippocampus provides a
clear delineation of the inferior and posterior lateral ventricles in the sagittal view 
(see attached image "bert") which was not
observed with our subjects (see attached images "sub"). The segmentation of the 
lateral ventricles, however, looks correct (by using
the segmentation label function), so I am unsure if this discrepancy affects 
the measurements at all. However, it is worth confirming.
I look forward to reading your responses. 

Thank you very much,


Vy T.U. Dinh
Research Assistant, Neurological Sciences
Rush University Medical Center
Phone: (312) 563-3853
Fax: (312) 563-4660
Email: vy_d...@rush.edu

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The information in this e-mail is intended only for the person to whom it is
addressed. If you believe this e-mail was sent to you in error and the e-mail
contains patient information, please contact the Partners Compliance HelpLine at
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Re: [Freesurfer] Inclusion of lateral ventricle in pial surface

[Vy Dinh]

Thank you for the swift response Bruce. 


Vy T.U. Dinh
Research Assistant, Neurological Sciences
Rush University Medical Center
Phone: (312) 563-3853
Fax: (312) 563-4660
Email: vy_d...@rush.edu


From: Bruce Fischl [fis...@nmr.mgh.harvard.edu]
Sent: Wednesday, September 28, 2011 4:16 PM
To: Vy Dinh
Cc: freesurfer@nmr.mgh.harvard.edu; jennifer.g.gold...@gmail.com
Subject: Re: [Freesurfer] Inclusion of lateral ventricle in pial surface

Hi Vy,

no, it shouldn't. The pial surfaces are not trustworthy near the
hippocampus, and we don't use them there.

Bruce
On Wed, 28 Sep 2011, Vy Dinh wrote:

> Dear Experts,
> I noticed that the inferior horn of the lateral ventricles are not included 
> within the pial surface while the posterior lateral
> ventricles are and wonder how one should go about when making corrections for 
> the pial surface. This was observed in the subjects that
> I have worked with and also with the Freesurfer tutorial sample data. For the 
> sample data, it appears that the hippocampus provides a
> clear delineation of the inferior and posterior lateral ventricles in the 
> sagittal view (see attached image "bert") which was not
> observed with our subjects (see attached images "sub"). The segmentation of 
> the lateral ventricles, however, looks correct (by using
> the segmentation label function), so I am unsure if this discrepancy affects 
> the measurements at all. However, it is worth confirming.
> I look forward to reading your responses.
>
> Thank you very much,
>
>
> Vy T.U. Dinh
> Research Assistant, Neurological Sciences
> Rush University Medical Center
> Phone: (312) 563-3853
> Fax: (312) 563-4660
> Email: vy_d...@rush.edu
>
>


The information in this e-mail is intended only for the person to whom it is
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contains patient information, please contact the Partners Compliance HelpLine at
http://www.partners.org/complianceline . If the e-mail was sent to you in error
but does not contain patient information, please contact the sender and properly
dispose of the e-mail.

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