Influenza A virus informatics: Genotype-centered database and genotype annotation

Guoqing Lu, Kashi Buyyani, Naresh Goty, Ruben Donis, Zhengxin Chen

Research output: Chapter in Book/Report/Conference proceedingConference contribution

4 Scopus citations

Abstract

Recant outbreaks of highly pathogenic avian influenza A virus infections in poultry and humans have caused considerable concerns about a future influenza pandemic in humans. In order to prepare such an unavoidable pandemic incident, effective methods for detecting and identifying dangerous virus strains that are lethal to human life, must be developed. For this purpose, we developed a Web tool called FluGenome for genotyping Influenza A viruses with genome sequences. This tool can effectively detect known virus strains and identify new ones. However, it does not provide any other biological meanings to the genotypes. To annotate influenza genotypes ejfectively, we developed a genotype-centered database that stores various information, including sequences, genotypes, outbreak information, as well as scientific literature, and applied information retrieval and text mining techniques at the term, sentence, and abstract levels. Here we report a genotype-centered database in its design and implementation, and describe the preliminary text-mining result of influenza genotype annotation. The preliminary result demonstrated that the information retrieval and text mining techniques are valuable for the discovery of the knowledge related to influenza genotypes.

Original languageEnglish (US)
Title of host publicationProceedings - 2nd International Multi-Symposiums on Computer and Computational Sciences, IMSCCS'07
Pages76-83
Number of pages8
DOIs
StatePublished - 2007
Event2nd International Multi-Symposiums on Computer and Computational Sciences 2007, IMSCCS'07 - Iowa City, IA, United States
Duration: Aug 13 2007Aug 15 2007

Publication series

NameProceedings - 2nd International Multi-Symposiums on Computer and Computational Sciences, IMSCCS'07

Conference

Conference2nd International Multi-Symposiums on Computer and Computational Sciences 2007, IMSCCS'07
CountryUnited States
CityIowa City, IA
Period8/13/078/15/07

ASJC Scopus subject areas

  • Computer Science(all)
  • Computer Science Applications
  • Theoretical Computer Science

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