Abstract

The Papillomavirus Episteme (PaVE) is a database of curated papillomavirus genomic sequences, accompanied by web-based sequence analysis tools. This update describes the addition of major new features. The papillomavirus genomes within PaVE have been further annotated, and now includes the major spliced mRNA transcripts. Viral genes and transcripts can be visualized on both linear and circular genome browsers. Evolutionary relationships among PaVE reference protein sequences can be analysed using multiple sequence alignments and phylogenetic trees. To assist in viral discovery, PaVE offers a typing tool; a simplified algorithm to determine whether a newly sequenced virus is novel. PaVE also now contains an image library containing gross clinical and histopathological images of papillomavirus infected lesions. Database URL: https://pave.niaid.nih.gov/.

Keywords

BiologyGenomePhylogenetic treeSequence databaseComputational biologySequence (biology)GeneticsHuman papillomavirusPapillomaviridaeSequence analysisGeneDatabaseComputer science

MeSH Terms

Computational BiologyDatabasesNucleic AcidGenomeViralGenomicsMolecular Sequence AnnotationPapillomaviridaePhylogenyWeb Browser

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Publication Info

Year
2016
Type
article
Volume
45
Issue
D1
Pages
D499-D506
Citations
405
Access
Closed

External Links

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Cite This

Koenraad Van Doorslaer, Zhiwen Li, Sandhya Xirasagar et al. (2016). The Papillomavirus Episteme: a major update to the papillomavirus sequence database. Nucleic Acids Research , 45 (D1) , D499-D506. https://doi.org/10.1093/nar/gkw879

Identifiers

DOI
10.1093/nar/gkw879
PMID
28053164
PMCID
PMC5210616

Data Quality

Data completeness: 86%