Good afternoon,
 I am new to using PLS and am having difficulty interpreting my seed-PLS results. 

As a quick background:  I have an event related fMRI paradigm with 3 task conditions and a baseline (or standard) condition that I am trying to perform a functional connectivity analysis on.  I followed the directions in the PLS manual and began by performing a mean-centering PLS analysis.  I then used the multiple voxel extraction tool to extract data from active voxels in the mean centering PLS analysis to define my seed regions.  Finally, I input the data from one of those seeds, the left amygdala, into a regular behavior PLS analysis and am now trying to interpret the data from that analysis.

When I look at the brain score correlation plot for LV 3 from this analysis, I see that there is a positive correlation between my left amygdala activity, the brain scores, and 2 of my conditions and a negative correlation with my 3rd condition. I understand the relationship between the positive-saliency voxels and the 2 conditions with the positive seed-saliency to be that: The activity in the positive-saliency regions increases along with the amygdala (my seed) during the 2 conditions which showed the positive correlation in the brain score plot. My questions are:

1) Is that a correct interpretation? 

2) I am slightly confused as to what this means with respect to the negative-saliency condition.  Is activity in the amygdala decreasing to this condition and do the positive-saliency regions also decrease to this condition?  

3) Is the relationship opposite for the negative-saliency regions? Namely, does the activity in these regions decrease while activity in the amygdala is increasing in the positive-saliency conditions and vice versa for the negative-saliency condition?

Sorry if that is terribly confusing! I’ve been struggling with this for a couple of days now and have done an excellent job of confusing myself!

 Many thanks for any help you can give,

 Kim