Correlation between anatomical compartments used for microarray analysis with molecular compartments revealed via SISH.

<p>The 3 major tissue compartments of the kidney are represented by the top row of painted bars (yellow, purple, blue). Below this, the second row indicates the anatomical subdivision of these into 14 compartments. The 11 compartments profiled by microarray are painted and the method used to isolate each is indicated below the bar <a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0017286#pone.0017286-Brunskill1" target="_blank">[25]</a>. PI and EDT were not isolated for microarray, and CI and NI were isolated as one compartment. The bars in the rows below these indicate the regional gene expression patterns observed by high resolution SISH. The expression patterns are shown from broadest (top) to the most restricted (bottom) and the genes observed with each of these patterns are listed below the bar. The painted gene expression bars (yellow, purple, blue) indicate restricted expression in only one compartment and the genes listed below each of these are the anchor genes (bold type). PI, MI, CI and NI = perihilar, renal medullary, renal cortical and nephrogenic interstitium; CM = cap mesenchyme; RV = renal vesicle; SSB = S-shaped body; RC = renal corpuscle (StageIII-IV); EPT = early proximal tubule; LoH = immature and anlage of loop of Henle; EDT = early distal tubule; MCD and CCD = medullary and cortical collecting duct; UT = ureteric tip. Below each of the interstitial/mesenchyme expression bars, MI: and CI: indicate the microarrary compartment used to identify the genes. Some genes identified in the renal interstitium were also expressed in the vasculature of the kidney and/or the mesangial tissue of renal corpuscles and these genes are listed (bottom, left).</p>