Dear Lorenzo,
Why not using the T1w images directly?
Cheers,
/Eugenio
--
Juan Eugenio Iglesias
http://www.jeiglesias.com
From: Diana Lorenzo <lorenzo.di...@paraplegie.ch>
Date: Thursday, June 26, 2025 at 5:16 AM
To: freesurfer@nmr.mgh.harvard.edu <freesurfer@nmr.mgh.harvard.edu>
Subject: [Freesurfer] SynthSR - T1 3D post-gadoinium vs. T2 FSE 4mm
External Email - Use Caution
Dear All,
we are running a project on brain morphometry in a clinical sample without
brain injury.
For most patients, we have both:
* T1W isotropic 1mm post-gadolinium
* T2W TSE with 4mm axial slices
We would like to obtain high-resolution T1 images with SynthSR followed by
standard voxel-based and surface-based processing in CAT12.
I am wondering which contrast is best suited for our purpose, also considering
that our clinical sample has no brain injury and the only blood vessels are
enhanced in post-gadolinium sequences.
I made some attempts on both sequences for a couple participants and segmented
them with CAT12.
The overall image quality rating is almost identical. So is the estimate of
total intracranial volume, with some differences in grey matter volume
estimation (generally smaller in synthetized post-gado sequences vs synthetized
T2) and CSF (generally bigger in synthetized post-gado). I haven't checked
surface-based metrics.
I am quite new to the field, and I really appreciate your help!
Best,
Lorenzo
Lorenzo Diana, PhD
PostDoc
Advanced Imaging Research (AIR) Group
Swiss Paraplegic Research
Guido A. Zäch Strasse 4
6207 Nottwil, Switzerland
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