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There were several redundant samples and more than one microarray performed on each tissue, which reduced the number of unique samples to 39 benign bladder and 91 bladder tumors.
In the first technique, deformations were tracked in a grid that was photobleached on each tissue sample (Bruehlmann et al., 2004).
On each tissue section we focussed on epithelium and lamina propria of the mucosa.
Briefly, a region of interest was drawn around the entire DG on each tissue section.
Expression of MHC II, CD68, GFAP and gp41 in the brain were quantitated using 20 separate measures on each tissue sample; the mean was used for analyses.
Global effects of gender were tested on each tissue type with mean voxel values as dependent variable using two-way ANOVAs (with gender and sexual orientation as grouping factors).
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Tissue blocks were infected by application of 5 7.5 µl of HIV stock (0.5 1.0 ng of p24) on top of each tissue block as described previously [11], [98].
To determine the percentage of tumour cells H&E staining was carried out on sections of each tissue.
Sinapinic acid and 2,5-dihydroxybenzoic acid/α-cyano-4-hydroxycinnamic acid were manually deposited on areas of each tissue section enriched in epithelial cells to identify lipid profiles, and mass spectra were acquired using a MALDI-time of flight instrument.
Slides were interpreted semi-quantitatively by assessing the intensity and extent of staining on the entirety of each tissue section present on the slides, as described previously (Acs et al, 2003).
Immunohistochemistry (IHC) was performed on a piece of each tissue specimen.
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