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To estimate projection lengths we calculated distances between center-of-mass coordinates for each connected pair of brain regions using the Caret macaque cortex surface map (http://brainmap.wustl.edu/caret; [32]), as previously described [15].
Total RNA was extracted from brain regions using the Ambion PureLink RNA Mini Kit (Life Technologies, Grand Island, NY, USA).
Total RNA was extracted from selected brain regions using the TRIzol (Invitrogen) homogenization method as in the manufacturer's instructions.
We stained labeled sections with cresyl violet acetate to identify the diencephalic, mesencephalic, and telencephalic brain regions, using the perch fish atlas (Cerdá-Reverter et al. 2001a, 2001b).
For example, Surget et al. [ 45] showed specific transcriptome changes in different brain regions using the unpredictable chronic mild stress paradigm, a model of depression based on socioenvironmental stressors.
Ultimately, given these facts, we believe that our observations on adult whole-brain tissue are a substantial contribution to the literature and will help to focus future research into specific brain regions using the biomarkers identified.
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These genes were visualized as separate networks, according to the brain region, using the Cytoscape software (3.0) [ 13] and physical and genetic interactions between genes were inferred by use of the GeneMania plugin [ 14].
At P21, detectable signals for PLD4 mRNA were not identified in any brain regions using these methods (Fig. 4A-b).
However, most clustering approaches have clustered over brain regions, using a parcellation of the cortex in a number of fixed regions, making the spatial resolution of these methods limited to a regional scale.
Carefully, the neurosurgeon places the electrodes in the desired brain regions using a set of coordinates determined by an image of the patient's brain.
Under such conditions, the expression of eNpHR in specific brain regions using viral vectors should be quite useful.
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