A general computational model for predicting ribosomal frameshifts in genome sequences

Yanga Byun, Sanghoon Moon, Kyungsook Han

Research output: Contribution to journalArticlepeer-review

11 Scopus citations

Abstract

Programmed ribosomal frameshifts are frequently used by RNA viruses to synthesize a single fusion protein from two or more overlapping open reading frames. We previously developed a program called FSFinder for predicting - 1 and + 1 frameshifts for Windows systems. With our new web application and web service called FSFinder2, users can predict frameshifts of any type from any web browser and operating system. We tested it on Shewanella oneidensis MR-1, for which exact frameshift sites are not known. FSFinder2 is the first program capable of finding frameshifts of general type and it is a powerful tool for predicting and analyzing genes that utilize frameshifts for their expression. FSFinder2 is available at http://wilab.inha.ac.kr/FSFinder.

Original languageEnglish
Pages (from-to)1796-1801
Number of pages6
JournalComputers in Biology and Medicine
Volume37
Issue number12
DOIs
StatePublished - Dec 2007

Bibliographical note

Funding Information:
This work was supported by the Korea Science and Engineering Foundation (KOSEF) under Grant R01-2003-000-10461-0.

Keywords

  • Bioinformatics
  • Programmed ribosomal frameshift
  • Recoding
  • Shewanella

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