Improving sequence alignments for intrinsically disordered proteins.

Predrag Radivojac, Zoran Obradovic, Celeste J. Brown, A. Keith Dunker

Research output: Contribution to journalArticle

24 Scopus citations

Abstract

Here we analyze sequence alignments for intrinsically disordered proteins. For 55 disordered protein families we measure the performance of different scoring matrices and propose one adjusted to disordered regions. An iterative algorithm of realigning sequences and recalculating matrices is designed and tested. For each matrix we also test a wide range of gap penalties. Results show an improvement in the ability to detect and discriminate related disordered proteins whose average sequence identity with the other family members is below 50%.

Original languageEnglish (US)
Pages (from-to)589-600
Number of pages12
JournalPacific Symposium on Biocomputing. Pacific Symposium on Biocomputing
StatePublished - 2002
Externally publishedYes

ASJC Scopus subject areas

  • Biomedical Engineering
  • Computational Theory and Mathematics

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