Detecting remote homolog by protein similarity network

Chan Seok Jeong, Minho Lee, Dongsup Kim

Research output: Chapter in Book/Report/Conference proceedingConference contributionpeer-review

1 Scopus citations

Abstract

Homolog search is the central approach to find out the characteristics of given sequence since homologs share the similar biological role. However it is not easy to detect remote homolog because they do not show distinct sequence identity. We constructed the protein similarity network weighted by sequence and structural similarity, and utilized it to identify homologs. When comparing the ROC50 curve, our method detected twice more homologs at the SCOP superfamily level than PSI-BLAST. Our study demonstrates that exploiting protein structure similarity network improves remote homolog search by reflecting global information in protein space which cannot be detected by conventional localized search methods.

Original languageEnglish
Title of host publicationIFMBE Proceedings
EditorsSun I. Kim, Tae Suk Suh
PublisherSpringer Verlag
Pages171-173
Number of pages3
Edition1
ISBN (Print)9783540368397
DOIs
StatePublished - 2007
Event10th World Congress on Medical Physics and Biomedical Engineering, WC 2006 - Seoul, Korea, Republic of
Duration: 27 Aug 20061 Sep 2006

Publication series

NameIFMBE Proceedings
Number1
Volume14
ISSN (Print)1680-0737
ISSN (Electronic)1433-9277

Conference

Conference10th World Congress on Medical Physics and Biomedical Engineering, WC 2006
Country/TerritoryKorea, Republic of
CitySeoul
Period27/08/061/09/06

Keywords

  • Protein similarity network
  • Remote homolog detection

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