I downloaded the FSL-ROI toolbox and was able to get the regions you
mentioned roi004. You said that this represented the Left DLPFC, but the
HarvardOxford-combo-labels.txt file states that this is the Left Middle Frontal
Gyrus. Is the Left DLPFC in fact the Left Middle Frontal Gyrus? I know they
are in a similar area in the brain, but I need to know if this includes the entire
Left DLPFC. I am trying to compute the total number of activated volxels in
On Thu, 6 Aug 2009 13:02:23 -0700, Nestor, Liam (Contractor)
<[log in to unmask]> wrote:
>On your system, navigate to where the "HarvardOxford-combo-maxprob-
>When you get there, type "fslview" at the command line.
>You need to select "openstandard" and then select "avg152T1_brain.nii.gz".
>Then select "Tools", "Toolbars", "Atlas tools".
>When you have these open, you can start overlaying (by selecting "Add")
the different roi.nii.gz files, to see which ones represent the regions you would
like to look at.
>For example, I know that roi004 = left DLPFC and roi052 = right DLPFC. I
don't know the numbers for the other regions you are looking for. Therefore,
you will just have to play around and take note of which roi number represents
>Hope this helps,
>Liam Nestor, Ph.D
>Laboratory for Molecular Neuroimaging
>Semel Institute for Neuroscience and Human Behavior
>760 Westwood Plaza
>Los Angeles 90024
>E-mail: [log in to unmask]
>From: FSL - FMRIB's Software Library [[log in to unmask]] On Behalf Of
Eric Zalusky [[log in to unmask]]
>Sent: Thursday, August 06, 2009 12:22 PM
>To: [log in to unmask]
>Subject: Re: [FSL] Mask for region of interest activation analysis
>Steve, thanks for the reply. I am completely new to fsl and fMRI processing.
>I greatly appreciate your advice.
>I have looked through the atlases in FSLView, but I'm unable to find these
>regions. Specifically I need to find:
>1. Left Dorsolateral Prefrontal Cortex (LDLPFC)
>2. Left Ventrolateral Prefrontal Cortex (LVLPFC)
>3. Left Posterior Parietal Cortex (LPPC)
>Are these named differently in the atlases? If so, how would I find the
>On Wed, 5 Aug 2009 06:56:18 +0100, Steve Smith <[log in to unmask]>
>>Hi - many of these regions are covered in one or more of the atlases -
>>have a look at these inside FSLView.
>>On 3 Aug 2009, at 01:07, Eric Zalusky wrote:
>>> I am trying to run a regional brain activation analysis in FSL. In
>>> order to
>>> calculate the number of activated voxels in these regions, I know
>>> that I
>>> need to have a mask for each specific ROI. The problem is that I am
>>> to find these specific masks:
>>> 1. Left Dorsolateral Prefrontal Cortex (LDLPFC)
>>> 2. Left Ventrolateral Prefrontal Cortex (LVLPFC)
>>> 3. Left SMA involved in the right SMA (Supplementary Motor Area)
>>> 4. Left Posterior Parietal Cortex (LPPC)
>>> 5. Left Thalamus
>>> 6. Left Cerebellum
>>> 7. Right Dorsolateral Prefrontal Cortex (RDLPFC)
>>> 8. Right Ventrolateral Prefrontal Cortex (RVLPFC)
>>> 9. Right Posterior Parietal Cortex (RPPC)
>>> 10. Right Thalamus
>>> 11. Right Premotor Area
>>> If you know where I can find these masks, please let me know.
>>> Otherwise, if
>>> you know how to create these masks, please let me know.
>>> Eric Zalusky
>>Stephen M. Smith, Professor of Biomedical Engineering
>>Associate Director, Oxford University FMRIB Centre
>>FMRIB, JR Hospital, Headington, Oxford OX3 9DU, UK
>>+44 (0) 1865 222726 (fax 222717)
>>[log in to unmask] http://www.fmrib.ox.ac.uk/~steve
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