sure. Let me know how it goes Bruce On Wed, 12 May 2010, Laluz, Victor wrote:

Thank you for the prompt answer, as always Bruce!!

I would be very interested in the techniques for multispectral measurement of hyperintensities, as we have a pretty sizeable database of T1 images with corresponding T2 flairs for which we are very interested in accurate measures of white matter changes.

Thank you for directing me to Koen Van Leemput. Take care,

-Victor

-----Original Message----- From: Bruce Fischl [mailto:fischl@nmr.mgh.harvard.edu] Sent: Wednesday, May 12, 2010 5:06 PM To: Laluz, Victor Cc: Nick Schmansky; freesurfer@nmr.mgh.harvard.edu; Koen Van Leemput Subject: Re: Methods for white matter hypointensities measure

Hi Victor

we treat it as any other label - it's manually labeled in the training subjects and propagated into the aseg. Koen Van Leemput (ccd) has some tools for segmenting them from multi-spectral data that probably works better though (they aren't that well defined only on a T1).

cheers Bruce

On Wed, 12 May 2010, Laluz, Victor wrote:

...

Hello guys,

I am curious as to how white matter hypointensities (on T1 mprage) are measured automatically for the aseg.stats file in FS? A group at UCSF is interested in using this measure for a study and would like to have a nice explanation or citation to describe how it is generated.

I have looked through what I think the likely citations would be on the Freesurfer techniques article listing and came up empty.

Thanks!

Victor

Victor Laluz : Imaging Coordinator : UCSF Memory and Aging Center

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Hi guys,

We did some work on this topic that may be of interest to you. Basically we set up a K-Nearest-Neighbour classification system to automatically identify periventricular and deep WHMs. The algorithm is described in the paper.

Wei Wen http://www.npi.unsw.edu.au/Contact/Wen/index.htm, Perminder S. Sachdev http://www.npi.unsw.edu.au/Contact/Sachdev/index.htm, Jason J. Li, Xiaohua Chen and KaarinJ. Ansteyhttp://cmhr.anu.edu.au/people/staff.php#Anstey , *White matter hyperintensities in the forties: Their prevalence and topography in an epidemiological sample aged 44-48*. *Human Brain Mapping*, Vol. 30, Issue 4, pages 1155-1167, ISSN 1097-0193, Wiley-Liss Inc., April 2008.

Best Regards, Jason Li

On Thu, May 13, 2010 at 5:15 AM, Martin Kavec martin.kavec@gmail.comwrote:

Hi guys,

I am exactly in the same shoes (T1s and T2 FLAIRs), so could you please also keep me in the club?

Many thanks,

Martin

On Thursday 13 May 2010 02:22:06 Laluz, Victor wrote:

...

Thank you for the prompt answer, as always Bruce!!

I would be very interested in the techniques for multispectral

measurement

...

of hyperintensities, as we have a pretty sizeable database of T1 images with corresponding T2 flairs for which we are very interested in accurate measures of white matter changes.

Thank you for directing me to Koen Van Leemput. Take care,

-Victor

---

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Hi Irene,

Sorry for the delay. I wrote some tools almost 10 years ago that do lesions/wm/gm/csf segmentations from multi-spectral data; the code is very much outdated (runs on SPM99!) but if you are technically skilled you can certainly still get it running: http://www.medicalimagecomputing.com/downloads/ems.php.

We have been working on recent code to do this as well, but unfortunately that is nowhere near completion yet...

Koen

On Monday 26 July 2010 09:29:22 Irene Altarelli wrote:

Hi Freesurfers,

I heard about tools for segmenting wm hypotensities from multi-spectral data. We have various sequences (T1, T2 and Flair) from a group of patients and controls and would be interested in looking at hypointensities. So I was wondering if these tools are accessible somewhere.

Thanks very much in advance, Irene

Le mercredi 12 mai 2010 à 20:06 -0400, Bruce Fischl a écrit :

...

Hi Victor

we treat it as any other label - it's manually labeled in the training subjects and propagated into the aseg. Koen Van Leemput (ccd) has some tools for segmenting them from multi-spectral data that probably works better though (they aren't that well defined only on a T1).

cheers Bruce

On Wed, 12 May 2010, Laluz,

Victor wrote:

...

Hello guys,

I am curious as to how white matter hypointensities (on T1 mprage) are measured automatically for the aseg.stats file in FS? A group at UCSF is interested in using this measure for a study and would like to have a nice explanation or citation to describe how it is generated.

I have looked through what I think the likely citations would be on the Freesurfer techniques article listing and came up empty.

Thanks!

Victor

Victor Laluz : Imaging Coordinator : UCSF Memory and Aging Center

---

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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 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.