What are virus variation databases?

Virus variation resources are an extension of the Influenza virus resource to other organisms. These resources provide
  1. an alternative interface to find and download sequence sets of selected virus species. Sequences can be found based on fields that may not be present or searchable in Entrez (such as genotype, disease severity, collection year, and others)
  2. analysis tools such as alignements and phylogenetic analysis for sequences retrieved from the database.
  3. an FTP site for bulk data retrieval
  4. virus specific BLAST sites
  5. genome annotation pipelines

Which virus species?

Currently, there are dedicated resources for
  1. Influenza virus
  2. Dengue virus  [new]
  3. West Nile virus  [coming soon]

Which sequences are available through the virus variation databases?

All Dengue and West Nile sequences deposited in DDBJ/EMBL/GenBank are assesed for inclusion in the virus variation resources. Two classes of sequences are currently excluded:

  1. Patent sequences
  2. Sequences found to be defective in some way. This may include sequences with frameshifts or vector sequence contamination.

Note that West Nile virus is not available yet.

Our publications

To cite the Influenza Virus Resource, please refer to:

Bao Y., P. Bolotov, D. Dernovoy, B. Kiryutin, L. Zaslavsky, T. Tatusova, J. Ostell, and D. Lipman. The Influenza Virus Resource at the National Center for Biotechnology Information. J. Virol. 2008 Jan;82(2):596-601.


To cite the Dengue Virus Resource, please refer to:

Resch W., L. Zaslavsky, B. Kiryutin, M. Rozanov, Y. Bao, and T. A. Tatusova. The virus variation resources at the National Center for Biotechnology Information: dengue virus. BMC Microbiology 2009, 9:65.



Other publications:

Zaslavsky L, Y. Bao and T. A. Tatusova. Visualization of large influenza virus sequence datasets using adaptively aggregated trees with sampling-based subscale representation. BMC Bioinformatics, 2008;9:237.


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