Sensitivity analysis of boosting PSI-BLAST with case study on subcellular localization

F. Mai, Man Wai Mak, Y. S. Hung, S. Y. Kung

Research output: Chapter in book / Conference proceedingConference article published in proceeding or bookAcademic researchpeer-review

Abstract

This paper studies the sensitivity of PSI-BLAST with respect to the 'h' parameter. Observing that the standard PSI-BLAST is sensitive to parameter 'h' in the high-value region, we propose a new technique, called Boosting PSI-BLAST, to reduce the sensitivity, By constraining 'h' to a small value first so as to reduce the chance of early corruption and then relaxing it gradually to increase divergence, the boosting PSI-BLAST not only can reduce the sensitivity to h-value, but also may strike a good balance between corruption and divergence in profiles. Tests on Reinhardt and Hubbard's eukaryotic protein dataset verify that our method is better in reducing the sensitivity of profile alignment scores to h-value than the standard PSI-BLAST.
Original languageEnglish
Title of host publicationMachine Learning for Signal Processing 17 - Proceedings of the 2007 IEEE Signal Processing Society Workshop, MLSP
Pages39-44
Number of pages6
DOIs
Publication statusPublished - 1 Dec 2007
Event17th IEEE International Workshop on Machine Learning for Signal Processing, MLSP-2007 - Thessaloniki, Greece
Duration: 27 Aug 200729 Aug 2007

Conference

Conference17th IEEE International Workshop on Machine Learning for Signal Processing, MLSP-2007
CountryGreece
CityThessaloniki
Period27/08/0729/08/07

ASJC Scopus subject areas

  • Computer Science(all)
  • Signal Processing

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