Figure 9

Comparison of microarray degradation measures (d^kand 5′/3′-ratio of the hybridization controls) with the RNA integrity number (RIN, panel a and c) and with the mean length of the transcripts (panel b) obtained in the ratQC experiment. [10] The d^k parameter split into two branches for the two sample treatments when plotted as a function of RIN whereas the d^k data virtually merge into one branch if plotted as a function of transcript length. Panel d correlates the d^k and the 5′/3′- intensity ratio of the control probes in logarithmic scale. The vertical and horizontal orange lines indicate the respective quality thresholds. Good RNA-quality probes are found in direction of the arrows