Literature DB >> 15215470

A web-based genotyping resource for viral sequences.

Mikhail Rozanov1, Uwe Plikat, Colombe Chappey, Andrey Kochergin, Tatiana Tatusova.   

Abstract

The Genotyping tool at the National Center for Biotechnology Information is a web-based program that identifies the genotype (or subtype) of recombinant or non-recombinant viral nucleotide sequences. It works by using BLAST to compare a query sequence to a set of reference sequences for known genotypes. Predefined reference genotypes exist for three major viral pathogens: human immunodeficiency virus 1 (HIV-1), hepatitis C virus (HCV) and hepatitis B virus (HBV). User-defined reference sequences can be used at the same time. The query sequence is broken into segments for comparison to the reference so that the mosaic organization of recombinant sequences could be revealed. The results are displayed graphically using color-coded genotypes. Therefore, the genotype(s) of any portion of the query can quickly be determined. The Genotyping tool can be found at: http://www.ncbi.nih.gov/projects/genotyping/formpage.cgi.

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Year:  2004        PMID： 15215470      PMCID： PMC441557          DOI： 10.1093/nar/gkh419

Source DB:  PubMed          Journal:  Nucleic Acids Res        ISSN： 0305-1048            Impact factor:   16.971


  16 in total

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Journal:  Nucleic Acids Res       Date:  1997-09-01       Impact factor: 16.971

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