Affordable Access

Scoring schemes of palindrome clusters for more sensitive prediction of replication origins in herpesviruses

Authors
  • David S. H. Chew
  • Kwok Pui Choi
  • Ming-Ying Leung
Publisher
Oxford University Press
Publication Date
Jan 01, 2005
Source
PMC
Keywords
Disciplines
  • Biology
  • Computer Science
License
Unknown

Abstract

Many empirical studies show that there are unusual clusters of palindromes, closely spaced direct and inverted repeats around the replication origins of herpesviruses. In this paper, we introduce two new scoring schemes to quantify the spatial abundance of palindromes in a genomic sequence. Based on these scoring schemes, a computational method to predict the locations of replication origins is developed. When our predictions are compared with 39 known or annotated replication origins in 19 herpesviruses, close to 80% of the replication origins are located within 2% of the genome length. A list of predicted locations of replication origins in all the known herpesviruses with complete genome sequences is reported.

Report this publication

Statistics

Seen <100 times