VectorBase: a data resource for invertebrate vector genomics

VectorBase (http://www.vectorbase.org) is an NIAID-funded Bioinformatic Resource Center focused on invertebrate vectors of human pathogens. VectorBase annotates and curates vector genomes providing a web accessible integrated resource for the research community. Currently, VectorBase contains genome information for three mosquito species: Aedes aegypti, Anopheles gambiae and Culex quinquefasciatus, a body louse Pediculus humanus and a tick species Ixodes scapularis. Since our last report VectorBase has initiated a community annotation system, a microarray and gene expression repository and controlled vocabularies for anatomy and insecticide resistance. We have continued to develop both the software infrastructure and tools for interrogating the stored data.

[1]  E. Birney,et al.  EnsMart: a generic system for fast and flexible access to biological data. , 2003, Genome research.

[2]  Peili Zhang,et al.  Using Chado to store genome annotation data. , 2006, Current protocols in bioinformatics.

[3]  Evgeny M. Zdobnov,et al.  VectorBase: a home for invertebrate vectors of human pathogens , 2006, Nucleic Acids Res..

[4]  Colin N. Dewey,et al.  Analyses of deep mammalian sequence alignments and constraint predictions for 1% of the human genome. , 2007, Genome research.

[5]  Albert Burger,et al.  Anatomy Ontologies for Bioinformatics, Principles and Practice , 2010, Anatomy Ontologies for Bioinformatics.

[6]  P Topalis,et al.  Anatomical ontologies of mosquitoes and ticks, and their web browsers in VectorBase , 2008, Insect molecular biology.

[7]  S. Batzoglou,et al.  Distribution and intensity of constraint in mammalian genomic sequence. , 2005, Genome research.

[8]  P Topalis,et al.  SHORT NOTE: AnoBase: a genetic and biological database of anophelines , 2005, Insect molecular biology.

[9]  José L. V. Mejino,et al.  CARO - The Common Anatomy Reference Ontology , 2008, Anatomy Ontologies for Bioinformatics.

[10]  W. J. Kent,et al.  BLAT--the BLAST-like alignment tool. , 2002, Genome research.

[11]  Hagen Blankenburg,et al.  Integrating biological data – the Distributed Annotation System , 2008, BMC Bioinformatics.

[12]  Ewan Birney,et al.  Automated generation of heuristics for biological sequence comparison , 2005, BMC Bioinformatics.

[13]  Andreas Prlic,et al.  Ensembl 2008 , 2007, Nucleic Acids Res..

[14]  E. Birney,et al.  Apollo: a sequence annotation editor , 2002, Genome Biology.

[15]  Rick L. Stevens,et al.  National Institute of Allergy and Infectious Diseases Bioinformatics Resource Centers: New Assets for Pathogen Informatics , 2007, Infection and Immunity.

[16]  Pantelis Topalis,et al.  How can ontologies help vector biology? , 2008, Trends in parasitology.