AphidBase: a database for aphid genomic resources | Zendy

JeanPierre Gauthier | Zendy; Fabrice Legeai | Zendy; Alain Zasadzinski | Zendy; Claude Rispe | Zendy; Denis Tagu | Zendy

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AphidBase: a database for aphid genomic resources

Author(s) -

JeanPierre Gauthier,

Fabrice Legeai,

Alain Zasadzinski,

Claude Rispe,

Denis Tagu

Publication year - 2007

Publication title -

bioinformatics

Language(s) - English

Resource type - Journals

SCImago Journal Rank - 3.599

H-Index - 390

eISSN - 1367-4811

pISSN - 1367-4803

DOI - 10.1093/bioinformatics/btl682

Subject(s) - annotation , biology , genome , drosophila melanogaster , contig , computational biology , functional genomics , gene , aphid , melanogaster , genomics , genetics , botany

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.

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