On 8/10/18 3:26 PM, Fotiadis, Panagiotis wrote:
Hi Doug,
Thanks for your response! I had a couple follow-up questions:
1) If I used mri_fit_parms to calculate the T1 maps, then created a
surface mid-cortex (with mris_expand) with that T1 map as a reference,
and uploaded that file into MATLAB through MRIread, would the
resulting values represent absolute "pure" T1 values?
If by "pure" you mean quantitative (ie, values in milisec), then yes.
2) Even though we are scanning on a Siemens scanner we have been
acquiring a tfl_mgh_multiecho_4E_P2_1MM_ISO sequence. Do you think I
could do T1 mapping based on that sequence (with the same method as
the one described in the previous question)?
Multiecho does not help for measuring T1. But if you have multiple flip
angles or multiple inversions with you rmultiecho, then you can use the
multiecho data to compute T1
Thanks again, and I apologize for the potential triviality of the
questions!
Best,
Panos
Panagiotis Fotiadis
Senior Imaging Research Technologist
J. P. Kistler Stroke Research Center, Department of Neurology
Massachusetts General Hospital, Boston, MA
T: (617) 643-3869
------------------------------------------------------------------------
*From:* freesurfer-boun...@nmr.mgh.harvard.edu
<freesurfer-boun...@nmr.mgh.harvard.edu> on behalf of Douglas Greve
<dgr...@mgh.harvard.edu>
*Sent:* Friday, August 10, 2018 1:59:47 PM
*To:* freesurfer@nmr.mgh.harvard.edu
*Subject:* Re: [Freesurfer] T1 mapping
mri_fit_parms should do it. BTW, if you are using a siemens scanner,
you should just collect an MP2RAGE. That automatically outputs a
quantitative T1 map using the two inversion technique. The results are
much more accurate than using multiple flip angles
On 8/8/18 5:00 PM, Fotiadis, Panagiotis wrote:
Hello,
I am interested in doing some T1-mapping analyses on some ex vivo
brains. We have collected flash sequences under multiple flip angles
(5, 10, 15, 20, 25 and 30). How would you suggest that I proceed?
Should I use the mri_ms_fitparms to come up with the T1 maps for each
subject and then maybe calculate the signal intensity 1mm into the
cortex, or is there another way that you would recommend?
Thanks in advance for any advice!
Best,
Panos
Panagiotis Fotiadis
Senior Imaging Research Technologist
J. P. Kistler Stroke Research Center, Department of Neurology
Massachusetts General Hospital, Boston, MA
T: (617) 643-3869
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