Figure 17
Concentration dependence and hook representation of the washing effect: Part a and b: PM- and MM-probe intensities before (t = 0) and after (t > 0) washing (part a) and the respective hook plots (part b, Eq. (20)). The initial intensities in the limit of small and large specific transcript concentrations decrease by the 'survival' factors wP,h(t) (P = PM,MM; h = N,S) after washing. These trends transform into a 'deformation' and shift of the hook curve: Washing increases its the height (α) and the width (β) by the increments δα≈δαS and δβ = δβS+δβN, respectively (see Eqs. (23), (27) and (28)). The 'start' (R = 0) and 'end' (R = ∞) coordinates are indicated in the figure. The dashed curve is the 'standard' hook approximation (Eq. (30)). Part c and d: Occupancies of the PM- and MM-probes before washing and the respective limiting survival fractions (part c) and the respective log-intensity hook (Δ(t = 0), Eqs. (19) and (20)) and hook-presentation of the asymptotic washing level (Δw(R,∞), Eqs. (37) and (38); part d). Note the asymmetric shape of the latter curve and its limiting height at R→∞ (Eq. (39)). The height-parameters αw and α are related to different hybridization characteristics, namely the non-specific binding strength and the PM/MM-gain, respectively (see text).