Samantha Rodriguez | PubMed Health

PubMed2004

Comparison of different probe-level analysis techniques for oligonucleotide microarrays.

Three different software packages for the probe-level analysis of high-density oligonucleotide microarray data were compared using an experiment-derived data set that was validated using real-time PCR. The efficiency with which these three programs could identify true positives in this data set was assessed. In addition, estimates of false-positive and false-negative rates were determined. The performance of the programs using very small data sets was also compared, and recommendations for use are suggested.

Animals↗

PubMed2003

Concordant expression of KChIP2 mRNA, protein and transient outward current throughout the canine ventricle.

Expression of the transient outward K+ current (Ito) was analysed in nine different regions of the canine ventricle. In addition to the previously described transmural gradients in the right and left ventricular free walls, an inverted U-shaped pattern of Ito expression was observed in the interventricular septum. The mRNA and protein expression for the K+ channel beta subunit KChIP2 were examined in the same tissues. The KChIP2 protein levels closely matched mRNA expression in all regions of the ventricle and paralleled the density of Ito. The global pattern of gene expression in human epicardial and endocardial tissue was examined using microarrays. Only 0.1 % of the genes expressed in the human ventricle displayed the same expression pattern as the KChIP2 gene in left ventricle. It is unlikely, therefore, that the reported distribution of KChIP2 protein within the ventricle can be explained by a cross-reaction of the anti-KChIP2 antibody with a different protein. It is concluded that transcriptional regulation of the KChIP2 gene is a primary determinant of Ito expression in heart.

Animals↗