VectorBase: Improvements to a bioinformatics resource for invertebrate vector genomics

Karine Megy, Scott J. Emrich, Daniel Lawson, David Campbell, Emmanuel Dialynas, Daniel S T Hughes, Gautier Koscielny, Christos Louis, Robert M. MacCallum, Seth N. Redmond, Andrew Sheehan, Pantelis Topalis, Derek Wilson, Ewan Birney, Martin Hammond, Paul Kersey, Nick Langridge, Kathy S. Campbell, Madeline Corby, David EmmertWilliam M. Gelbart, Pinglei Zhou, George K. Christophides, Fotis C. Kafatos, Travis Collier, Gregory C Lanzaro, Yoosook Lee, Charles E. Taylor, Phillip Baker, Margaret Werner-Washburne, Nora J. Besansky, Ryan Butler, Rory Carmichael, David Cieslak, Nathan Konopinski, Andrew Thrasher, Gregory Madey, Frank H. Collins

Research output: Contribution to journalArticle

125 Scopus citations

Abstract

VectorBase (http://www.vectorbase.org) is a NIAID-supported bioinformatics resource for invertebrate vectors of human pathogens. It hosts data for nine genomes: mosquitoes (three Anopheles gambiae genomes, Aedes aegypti and Culex quinquefasciatus), tick (Ixodes scapularis), body louse (Pediculus humanus), kissing bug (Rhodnius prolixus) and tsetse fly (Glossina morsitans). Hosted data range from genomic features and expression data to population genetics and ontologies. We describe improvements and integration of new data that expand our taxonomic coverage. Releases are bi-monthly and include the delivery of preliminary data for emerging genomes. Frequent updates of the genome browser provide VectorBase users with increasing options for visualizing their own high-throughput data. One major development is a new population biology resource for storing genomic variations, insecticide resistance data and their associated metadata. It takes advantage of improved ontologies and controlled vocabularies. Combined, these new features ensure timely release of multiple types of data in the public domain while helping overcome the bottlenecks of bioinformatics and annotation by engaging with our user community.

Original languageEnglish (US)
JournalNucleic Acids Research
Volume40
Issue numberD1
DOIs
StatePublished - Jan 2012

ASJC Scopus subject areas

  • Genetics

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    Megy, K., Emrich, S. J., Lawson, D., Campbell, D., Dialynas, E., Hughes, D. S. T., Koscielny, G., Louis, C., MacCallum, R. M., Redmond, S. N., Sheehan, A., Topalis, P., Wilson, D., Birney, E., Hammond, M., Kersey, P., Langridge, N., Campbell, K. S., Corby, M., ... Collins, F. H. (2012). VectorBase: Improvements to a bioinformatics resource for invertebrate vector genomics. Nucleic Acids Research, 40(D1). https://doi.org/10.1093/nar/gkr1089