Email updates

Keep up to date with the latest news and content from BMC Research Notes and BioMed Central.

Open Access Research article

The illusion of specific capture: surface and solution studies of suboptimal oligonucleotide hybridization

Jaishree Garhyan1, Raad Z Gharaibeh12, Stephen McGee3 and Cynthia J Gibas1*

Author Affiliations

1 Department of Bioinformatics and Genomics, The University of North Carolina at Charlotte, Charlotte, NC, USA

2 Bioinformatics Services Division, University of North Carolina at Charlotte, North Carolina Research Campus, Kannapolis, NC, USA

3 Greenwood Genetic Center, Greenwood, SC, USA

For all author emails, please log on.

BMC Research Notes 2013, 6:72  doi:10.1186/1756-0500-6-72

Published: 27 February 2013

Additional files

Additional file 1: Figure S1:

Results of OMP simulation of hybridization between a probe and a partially matched target. The X axis value is the starting position of the complementary stretch in the sequence; the Y axis is fraction bound (FB). In all simulations, the probe is present in excess of the target; the perfectly matched target is present in equal concentration as the partially matched target. The orange line in each plot shows the fraction of partially matched target bound to the probe (FB), while the red and green lines show the absolute ΔG and absolute Tm difference between the mismatch and perfect match pairs, respectively. Parts A-T show the change in binding of the mismatch as the complementary stretch length increases from 6 to 25. The complementary stretch length is shown under each panel’s label.

Format: EPS Size: 59KB Download file

Open Data