Figure 2

Hybridization ranges of the raw (lower part) and the corrected (upper part) hook-curves calculated from hybridizations of the HG-U95 (left) and DG-1 (right) Gene Chips (see also Figure 1). The dotted lines indicate the hybridization ranges characterized by predominantly non-specific (N) and specific (S) binding, by a mixture of significant S- and N-contributions (mix), by the progressive saturation of the probe spots with bound transcripts (sat) and by almost completely saturated probes (as). Affinity correction considerably changes the shape of the hook-curve and the extent of the hybridization ranges. The corrected hook-curve and the fit are characterized by their geometrical dimensions; width (β), height (~α), start- (Σ(0), Δ(0)) and end- (Σ(∞)) positions; which in turn characterize the particular hybridization in terms of the mean non-specific background contribution, the PM/MM-gain etc. (see Table 2 for details). Compare also with Figure 1: The HG-U95 data were taken from different experiment series (Affymetrix spiked-in series here [3] and Genelogic dilution series [1] in Figure 1).