Biomedical Engineering Reference
In-Depth Information
Fiche et al. (2007
) performed hybridization experiments at different temperatures and target
concentrations. All their probes had at their 5
0
end a 10-thyminespacer and a pyrrole (Py)
moiety for the electropolymerization grafting method.
Figure 11.1a
shows the binding and dis-
sociation of the target T1 to the probe P14 (5
0
-Py-(T
10
)-GCC.TGG.ACG.ATA.CA-3
0
)
immobilized on the DNA chip. 14 refers to the number of hybridizing bases. A dual-fractal
analysis is required to adequately describe the binding kinetics. A single-fractal analysis is ade-
quate to describe the dissociation kinetics. The values of (a) the binding rate coefficient,
k
, and
the fractal dimension,
D
f
, for a single-fractal analysis, (b) the binding rate coefficients,
k
1
and
k
2
,
and the fractal dimensions,
D
f1
and
D
f2
, for a dual-fractal analysis, and the dissociation rate
coefficient,
k
d
and the fractal dimension for dissociation,
D
fd
are given in
Table 11.1
. The values
of the binding and the dissociation rate coefficients, and the fractal dimensions for the binding
and the dissociation phase presented in
Table 11.1
were obtained from a regression analysis
1.2
1.4
1
1.2
1
0.8
0.8
0.6
0.6
0.4
0.4
0.2
0.2
0
0
0
5
10
15
20
0
5
10
15
20
A
B
Time (min)
Time (min)
0.6
0.6
0.5
0.5
0.4
0.4
0.3
0.3
0.2
0.2
0.1
0.1
0
0
0
5
10
15
20
0
5
10
15
20
D
C
Time (min)
Time (min)
Figure 11.1
Binding and dissociation (hybridization) of different targets (400 nM) in solution to a probe
immobilized on a DNA chip surface at 32.5
C(
Fiche et al., 2007
): (a) P14. (b) P12. (c) P10.
(d) P9. When only a solid line (--) is used then a single-fractal analysis applies. When both a
dashed (- - -) and a solid (--) line are used then the dashed line represents a single-fractal analysis
and the solid line represents a dual-fractal analysis.
