Attached in a separate email is an OHBM abstract from last year with some guidelines. Those datasets are publicly available at:
http://sumsdb.wustl.edu/sums/directory.do?id=6653275. Those datasets are aligned to the Saleem/Logothetis atlas that also has histology and good landmark references.
However, I'm not sure how different the vervet brain is from rhesus. The best option is to build a template as described in that abstract (paper will be submitted soon, I hope) using a standard atlas (e.g. something comparable to Paxinos or Saleem/Logothetis). Choosing a reference space is important. I'd recommend one with landmarks and histology, if possible. The ideal would be one that is digital.
Once you have a template, then you should be good to go. As far as I know, most of the SPM scripts will work for non-human primates (or at least the ones that I have used; not sure about Gaussian Random Field Theory).
Segmentation --> Use FSL, SPM2 or another program that does not have a unified segmentation program to segment that images after they are aligned to the atlas. These can be averaged to form priors. Since priors do not exist, SPM5 can't be used for segmentation. We currently are testing a set of priors for rhesus monkeys.
On Feb 8, 2008 11:53 AM, Buyean Lee <
[log in to unmask]> wrote:
Dear SPM users,
I have been reading SPM emails and searching email lists to understand how to use SPM5 in analysis of vervet monkey brain images (PET and 1.5 T MRI).
First of all, do SPM users believe SPM can be effectively used in analysis of nonhuman images (e.g., monkey brain image)?
If this is true, can someone help me to find a kind of guideline?
I just don't know where I need to start with.
For example, if I want to normalize monkey brain images, I think I need a vervet brain template as like the MNI template.
How to generate the segmented templates from this average vervet brain image?
Are these too difficult tasks for a person with limited experience in brain image analysis?
Assuming that I have all templates, are there any other specifics that I need to pay attention.
I know that the sizes of image and voxel will be different from those of humans, but I don't know if I need to change something in SPM because of this difference.
Any comment will be very welcomed.
Thank you,
Buyean
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D.G. McLaren
University of Wisconsin - Madison
Neuroscience Training Program
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