title: A database and API for variation, dense genotyping and resequencing data.
abstract: BACKGROUND
  Advances in sequencing and genotyping technologies are leading to the widespread availability of multi-species variation data, dense genotype data and large-scale resequencing projects. The 1000 Genomes Project and similar efforts in other species are challenging the methods previously used for storage and manipulation of such data necessitating the redesign of existing genome-wide bioinformatics resources.
  
  
  RESULTS
  Ensembl has created a database and software library to support data storage, analysis and access to the existing and emerging variation data from large mammalian and vertebrate genomes. These tools scale to thousands of individual genome sequences and are integrated into the Ensembl infrastructure for genome annotation and visualisation. The database and software system is easily expanded to integrate both public and non-public data sources in the context of an Ensembl software installation and is already being used outside of the Ensembl project in a number of database and application environments.
  
  
  CONCLUSIONS
  Ensembl's powerful, flexible and open source infrastructure for the management of variation, genotyping and resequencing data is freely available at http://www.ensembl.org.
authors.affiliation: European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, CB10 1SD, UK.
authors.forename: Daniel
authors.initials: D
authors.lastname: Rios
authors.forename: William M
authors.initials: WM
authors.lastname: McLaren
authors.forename: Yuan
authors.initials: Y
authors.lastname: Chen
authors.forename: Ewan
authors.initials: E
authors.lastname: Birney
authors.forename: Arne
authors.initials: A
authors.lastname: Stabenau
authors.forename: Paul
authors.initials: P
authors.lastname: Flicek
authors.forename: Fiona
authors.initials: F
authors.lastname: Cunningham
mesh_terms: D016208:Databases, Factual; D016678:Genome; D023281:Genomics / Q000379:methods*; D005838:Genotype; D010641:Phenotype; D017422:Sequence Analysis, DNA / Q000379:methods*
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