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AphidBase: a database for aphid genomic resources.

AphidBase aims to (i) store recently acquired genomic resources on aphids and (ii) compare them to other insect resources as functional annotation tools. For that, the Drosophila melanogaster genome has been loaded in the database using the GMOD open source software for a comparison with the 17 069 pea aphid unique transcripts (contigs) and the 13 639 gene transcripts of the Anopheles gambiae. Links to FlyBase and A.gambiae Entrez databases allow a rapid characterization of the putative functions of the aphid sequences. Text mining of the D.melanogaster literature was performed to construct a network of co-cited gene or protein names, which should facilitate functional annotation of aphid homolog sequences. AphidBase represents one of the first genomic databases for a hemipteran insect. AVAILABILITY: http://w3.rennes.inra.fr/AphidBase.

Pubmed ID: 17237053

Authors

  • Gauthier JP
  • Legeai F
  • Zasadzinski A
  • Rispe C
  • Tagu D

Journal

Bioinformatics (Oxford, England)

Publication Data

March 15, 2007

Associated Grants

None

Mesh Terms

  • Animals
  • Aphids
  • Chromosome Mapping
  • Database Management Systems
  • Databases, Genetic
  • Information Storage and Retrieval
  • Transcription Factors