The Chado Natural Diversity module: a new generic database schema for large-scale phenotyping and genotyping data

Journal article

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

Authors: Jung, S; Menda, N; Redmond, S; Buels, RM; Friesen, M

• Publication status: Published
• Peer review status: Peer reviewed
• Publisher: Oxford University Press
• Journal: Database: The Journal of Biological Databases and Curation
• Volume: 2011
• Issue: 0
• Pages: bar051-bar051
• Publication date: 2011-11-26
• DOI: 10.1093/database/bar051
• EISSN: 1758-0463
• ISSN: 1758-0463
• Language: English
• Keywords: Schema (genetic algorithms); Bioinformatics; Relational database; Modular design; Genotype; Computer science; Genotyping; Data mining; Biological database; Programming language; Information retrieval; Biology; Database