weird volumes values for hippocampus, ventricles... in ADNIMERGE

[Mathilde Bateson]

Hello,

I have a question regarding how noisy are the freesurfer volume data ?
I have found 16 of patients that have an *increase* bigger than 10% of Hippocampus vol between 2 consecutive visits. 

See below for consecutive visits:

months Hippocampus

m0 9405
m3 8709
m6 7465
m12 8546

m24 8848

In some cases as above, the values go up and down again...

See below for ventricle/icv:

is this normal ??? How can such noisy dtta be used ? Is there referejnce / literature on such levels of noise ?

Thanks !

Mathilde

[Babak Ardekani]

Hi Mathilde,

In my experience the hippocampal parenchymal fraction (HPF) is much more sensitive than FreeSurfer (or otherwise) hippocampus volumes for tracking subtle hippocampal changes over time.  It takes less than a minute to compute it, as opposed to several hours it takes to run FreeSurfer.  

Babak

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[Mathilde Bateson]

Hello Babak

Thank you for your quick reply.
I have been able to find the paper introducing the HPF, I think it is:
https://journals.sagepub.com/doi/epub/10.3233/JAD-150780

But no code :/

How would one go about to calculate this HPF? Is there code available somewhere, a software ? 
Thanks a lot !

Mathilde Bateson​​​​ |  Senior Data Scientist Confidentiality – Restricted Dissemination This email and any attachments are confidential and shall be processed by the recipient with the same level of protection as receiving recipient confidential information. If received in error, please do not disclose the contents to anyone, but notify the sender by return email and delete this email (and any attachments) from your email inbox. ​ ​Data privacy Owkin processes personal data, including data relating to email communications, in accordance with the terms of its Privacy Policy available by clicking to the link in the footer of Owkin's website.

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[Babak Ardekani]

Hi Mathilde,

The program KAIBA is available at: https://www.nitrc.org/projects/art

Let me know if you have any questions.

Best

Babak

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