Raghava, G.P.S. and Searle, Stephen M J and Audley, Patrick C and Barber, Jonathan D and Barton, Geoffrey J (2003) OXBench: a benchmark for evaluation of protein multiple sequence alignment accuracy. BMC bioinformatics, 4. p. 47. ISSN 1471-2105
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Abstract
The OXBench suite of reference alignments, evaluation software and results database provide a convenient method to assess progress in sequence alignment techniques. Evaluation measures that were dependent on comparison to a reference alignment were found to give good discrimination between methods. The STAMP Sc Score which is independent of a reference alignment also gave good discrimination. Application of OXBench in this paper shows that with the exception of T-COFFEE, the majority of the improvement in alignment accuracy seen since 1985 stems from improved pair-score matrices rather than algorithmic refinements. The maximum theoretical alignment accuracy obtained by pooling results over all methods was 94.5% with 52.5% accuracy for alignments in the 0-10 percentage identity range. This suggests that further improvements in accuracy will be possible in the future.
| Item Type: | Article |
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| Additional Information: | OPEN ACCESS |
| Subjects: | Q Science > QR Microbiology |
| Depositing User: | Dr. K.P.S.Sengar |
| Date Deposited: | 10 Jan 2012 08:06 |
| Last Modified: | 10 Jan 2012 08:06 |
| URI: | http://crdd.osdd.net/open/id/eprint/93 |
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