At least by my reading of the Duvernoy Human Hippocampus atlas, the most anterior and posterior extents of the hippocmapus (perhaps just a slice at the tips in most scans) are almost entirely composed of the CA1 subfield. Thoughts?
Joshua - Joshua Lee Graduate Student Center for Mind and Brain & Department of Psychology University of California, Davis On Thu, Nov 17, 2011 at 6:46 AM, Alan Francis <alandarkene...@gmail.com>wrote: > Thanks Koen. > > > On Thu, Nov 17, 2011 at 6:14 AM, Koen Van Leemput < > k...@nmr.mgh.harvard.edu> wrote: > >> The answer is close to what Shashwath suggested, except that the >> "Hippocampus" segmentation is really computed at the same time as all >> the other subfields. For unfortunate reasons, the tail of the >> hippocampus that is not further subdivided in our manual training >> segmentations was called "Hippocampus" for lack of other good names - >> it really should have been "Part of the Hippocampus Tail that We >> Didn't Subdivide Manually". >> >> If you want to compute the total volume of the hippocampus, you'll >> need to add the volume of this part, though.. >> >> Hope this helps, >> >> Koen >> >> >> On Wed, Nov 16, 2011 at 2:10 PM, Alan Francis <alandarkene...@gmail.com> >> wrote: >> > Thanks Shashwath. >> > >> > On Wed, Nov 16, 2011 at 2:04 PM, Shashwath <shashwath...@gmail.com> >> wrote: >> >> >> >> Alan- I believe the label "hippocampus" here refers to the remaining >> hippo >> >> segment after the algorithm has completed labelling of all subfields. >> In >> >> essence this would not be a measure that conveys very meaningful info. >> >> >> >> Sent from my iPhone >> >> >> >> On Nov 16, 2011, at 1:01 PM, Alan Francis <alandarkene...@gmail.com> >> >> wrote: >> >> >> >> > Hi Koen and FreeSurfers: >> >> > >> >> > I have a 3T dataset that has undergone processing using 5.1. I have >> also >> >> > run the Hippo sub fields command. Here are my results: >> >> > >> >> > [root@NeuroImage-Gamma mri]# kvlQuantifyPosteriorProbabilityImages >> >> > $FREESURFER_HOME/data/GEMS/compressionLookupTable.txt >> posterior_right_* >> >> > posterior_Right-Hippocampus.mgz >> >> > >> >> > volumeInVoxels: >> >> > right_CA1: 2473.34 >> >> > right_CA2-3: 7530.08 >> >> > right_CA4-DG: 4160.99 >> >> > right_fimbria: 520.14 >> >> > right_hippocampal_fissure: 376.772 >> >> > right_presubiculum: 2780.65 >> >> > right_subiculum: 4230.04 >> >> > Right-Hippocampus: 2277.69 >> >> > >> >> > My question is : Since these are "subfields" of the Hippocampus, >> should >> >> > not the sum of all subregions be equal the volume of the Right >> Hippocampus? >> >> > >> >> > Thanks so much! >> >> > >> >> > Alan Francis >> >> > >> >> > Beth Israel Deaconess Medical Center, BOSTON >> >> > >> >> > _______________________________________________ >> >> > Freesurfer mailing list >> >> > Freesurfer@nmr.mgh.harvard.edu >> >> > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer >> >> > >> >> > >> >> > 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. >> > >> > >> > _______________________________________________ >> > Freesurfer mailing list >> > Freesurfer@nmr.mgh.harvard.edu >> > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer >> > >> > >> > 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. >> > >> > >> > > > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > > > 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. > >
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