Figure 5

Beads neighbouring clusters of non-decoded beads. Illustrated are 8 segments from various sections of the expression data, each showing a cluster of non-decoded beads (orange) surrounded by a distinct region of high intensity (blue) beads. Within-bead-type residual intensities (log-intensity minus median log-intensity for that bead-type) have been averaged over beads in 20 × 20 pixel squares, and the colour scale for each segment is calculated separately (in each case going from yellow for the lowest value to blue for the highest). Clusters of non-decoding beads are a feature of array manufacture rather than processing, with the implication that the regions of high intensity are similarly so. Images are indexed in the form A_B_C S D, where A is the chip name, B the sample name, C the section number, and D the segment number.