Hybridization thermodynamics of NimbleGen Microarrays

BMC Bioinformatics

Table 2 Variation of thermodynamic properties for probes of similar effective interaction energies or binding strengths.

Variation of properties for probes with similar free energies
	Variation range within ± 1 unit of the median
	fixed Δ G	fixed Δ G _h	fixed T _m	all probes
-ΔG	44 ... 46	26 ... 62	22 ... 66	19 ... 66
-ΔG_p	0.5 ... 18	0.1 ... 16	0.3 ... 16	0.1 ... 22
-ΔG_t	2.2 ... 23	2.3 .... 26	1.7 ... 22	0.6 ... 32
T _m	36 ... 64	40 ... 60	46 .... 48	33 ... 66
-ΔG_h	54 ... 84	65 ... 67	49 ... 89	45 ... 89

Caption: Variation of thermodynamic properties for probes of similar effective interaction energies or similar probe-target duplex binding strengths. Probes similar in certain thermodynamic properties were selected from an interval of ± 1 of the median values of ΔG (column 1), ΔG_h(column 2), and T_m (column 3). Intervals are printed in bold face. These intervals contained 13460, 9806 and 10494 probe-target pairs, respectively. The last column, labelled 'all probes', shows the variation range for all probes matching clearly expressed genes. Less than 2% of all probes had unstable probe-probe interactions.

ISSN: 1471-2105