External Email - Use Caution When MPF images are registered on T1 images, I think the intensity represents the MPF values, not the T1 values. This is because the registration process only transforms the spatial coordinates of the MPF images to match the T1 images, but does not alter the signal intensity or contrast of the MPF images. Therefore, the registered MPF images still reflect the macromolecular proton fraction of the brain tissue, which is independent of the T1 values.
Just wanna confirm. This is from a colleague. On Wed, Jan 24, 2024 at 6:50 PM ERNEST KISSI <ernestkissi...@gmail.com> wrote: > I want to use the intensity of the macromolecular proton fraction (MPF). I > want to compare the intensity of the MPF of the various brain regions or > structures between two groups. I am not using the volumes. The MPF was > registered on the T1 so does it mean that the intensity is from the MPF. > > On Wed, Jan 24, 2024 at 6:44 PM ERNEST KISSI <ernestkissi...@gmail.com> > wrote: > >> I want to use the intensity of the macromolecular proton fraction (MPF). >> I want to compare the intensity of the MPF between two groups. >> >> On Wed, Jan 24, 2024 at 6:11 PM Fischl, Bruce R.,PHD < >> bfis...@mgh.harvard.edu> wrote: >> >>> It is whatever volume you gave as input to recon-all. If you tell us >>> which statistics you want to regenerate for another volume we can tell you >>> know what commands to run. >>> >>> >>> cheers >>> >>> Bruce >>> >>> >>> >>> *From:* freesurfer-boun...@nmr.mgh.harvard.edu < >>> freesurfer-boun...@nmr.mgh.harvard.edu> *On Behalf Of *ERNEST KISSI >>> *Sent:* Wednesday, January 24, 2024 9:05 AM >>> *To:* Freesurfer support list <freesurfer@nmr.mgh.harvard.edu> >>> *Subject:* [Freesurfer] Freesurfer Intensity representation >>> >>> >>> >>> * External Email - Use Caution * >>> >>> Hi, >>> >>> >>> >>> Please I made an initial enquiry about using freesurfer for MPF maps. >>> The feedback was that I register the MPF maps on their corresponding T1 >>> images using multimodal registration. I used FSL to do the multimodal >>> registration and then use recon-all in freesurfer. >>> >>> Now I want to know what the intensity and the volume of the output in >>> the aseg file represent. Is it the intensity of the MPF or the TI and MPF? >>> _______________________________________________ >>> Freesurfer mailing list >>> Freesurfer@nmr.mgh.harvard.edu >>> https://secure-web.cisco.com/1-Dxrl_-x4Yd3V-s0Vf1Oi4anAE_wdHWlH5xo27sC0H4tYGTEobi1PAT3LR55y0g5yFFp1XphyPVudSMRPAqKK2boyeK7AAu9v_LGm6VEu-jfkyuwXYHRnXi4oo_1RA2LVqXWtjBRcO_32YTM4A24m-k3DDTOXf4Lu0hYO7F-4C2bgnWOgWSI-pPAZ3Www8nSYD8d8OOvL0CxEXyM_sLgvB5p87RDel7nyUKIA2EyoHfHM1pSJSsNa6c8aNFzlAD8D5eA_BbjevyV-xzPdP2tsu7N9e_cwkFA8EAnImTpAPCopsFtaO13Z6KHab8-vlB9/https%3A%2F%2Fmail.nmr.mgh.harvard.edu%2Fmailman%2Flistinfo%2Ffreesurfer >>> 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 Mass General >>> Brigham Compliance HelpLine at >>> https://secure-web.cisco.com/19QzXjDVsgPllI8ahg7jN6dJoe6qCCGt3HPg15J4WNNo_KtdX-jIxfAseHHMWugju0_yReTxzavj5YGbZl_0nd5OMws2zbWLq1mH0GIfMq-b1qeGP5sLmMPSbTMobRmBE-V8imzXCdtwZ3-E4mll2eacKp4Ryvpi50DQZTYrWs_gMOdmEY2fGheuPUmjUbk9l3FricN-d-M6ylhgFV66WsW3IRb9u9pJiEDfcJEDrV9ItUtNwwA-re9jXbojlIE5RWVCoBMretXpBLwki6bvAFEsOjIw_VT2ds3i4__A4mlGck81PpJ3s3GzzCykLbzVd/https%3A%2F%2Fwww.massgeneralbrigham.org%2Fcomplianceline >>> < >>> https://secure-web.cisco.com/19QzXjDVsgPllI8ahg7jN6dJoe6qCCGt3HPg15J4WNNo_KtdX-jIxfAseHHMWugju0_yReTxzavj5YGbZl_0nd5OMws2zbWLq1mH0GIfMq-b1qeGP5sLmMPSbTMobRmBE-V8imzXCdtwZ3-E4mll2eacKp4Ryvpi50DQZTYrWs_gMOdmEY2fGheuPUmjUbk9l3FricN-d-M6ylhgFV66WsW3IRb9u9pJiEDfcJEDrV9ItUtNwwA-re9jXbojlIE5RWVCoBMretXpBLwki6bvAFEsOjIw_VT2ds3i4__A4mlGck81PpJ3s3GzzCykLbzVd/https%3A%2F%2Fwww.massgeneralbrigham.org%2Fcomplianceline> >>> . >>> >>
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