A base pairing model of duplex formation I: Watson-Crick pairing geometries
| dc.creator | Bashford, J. D. | |
| dc.creator | Jarvis, P. D. | |
| dc.date | 2005-07-28 | |
| dc.date.accessioned | 2026-06-02T21:41:25Z | |
| dc.description | We present a base-pairing model of oligonuleotide duplex formation and show in detail its equivalence to the Nearest-Neighbour dimer methods from fits to free energy of duplex formation data for short DNA-DNA and DNA-RNA hybrids containing only Watson Crick pairs. In this approach the connection between rank-deficient polymer and rank-determinant oligonucleotide parameter, sets for DNA duplexes is transparent. The method is generalised to include RNA/DNA hybrids where the rank-deficient model with 11 dimer parameters in fact provides marginally improved predictions relative to the standard method with 16 independent dimer parameters ($ΔG$ mean errors of 4.5 and 5.4 % respectively). | |
| dc.description | Latex file, 13 pages, no figures. Refereed draft of manuscript submitted to Biopolymers | |
| dc.identifier | https://arxiv.org/abs/q-bio/0507041 | |
| dc.identifier | http://arxiv.org/abs/q-bio/0507041 | |
| dc.identifier | Biopolymers 78: 287-297, 2005 | |
| dc.identifier | doi:10.1002/bip.20282 | |
| dc.identifier.uri | https://demo.dspace.org/handle/10673/1759 | |
| dc.subject | Biomolecules | |
| dc.title | A base pairing model of duplex formation I: Watson-Crick pairing geometries | |
| dc.type | text |