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From NeuroLex
| Abbrev
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AphidBase +
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| Address
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UMR BiO3P +,
Domaine de la Motte +,
BP 35327 +,
35653 Le Rheu cedex +,
FRANCE Phone: +33(0)2 23 48 51 68 Fax : + 33(0)2 23 48 51 50 +
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| CurationStatus
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curated +
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| DefiningCitation
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http://www.aphidbase.com/aphidbase/ +
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| Definition
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AphidBase is a centralized bioinformatic r … AphidBase is a centralized bioinformatic resource that was developed to facilitate community annotation of the pea aphid genome by the International Aphid Genomics Consortium (IAGC). The AphidBase Information System designed to organize and distribute genomic data and annotations for a large international community was constructed using open source software tools from the Generic Model Organism Database (GMOD). The system includes Apollo and GBrowse utilities as well as a wiki, blast search capabilities and a full text search engine.<br />
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.<br />
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.<br /> bases for a hemipteran insect.<br />
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| ExampleImage
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AphidBase.PNG +
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| Has default formThis property is a special property in this wiki.
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Resource +
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| Has role
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Database +,
Data analysis service +
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| Id
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nif-0000-02554 +
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| Is part of
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INRA Rennes +
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| Keywords
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Aphid +,
Aphid gene sequence +,
Aphid genome +,
Aphid nervous system +,
Genome +,
BLAST +,
Annotate +,
Drosophila melanogaster +,
Annotation +,
Expressed sequence tag +,
Function +
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| Label
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Resource:APHIDBASE +
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| Modification dateThis property is a special property in this wiki.
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9 November 2012 00:23:06 +
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| ModifiedDate
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9 November 2012 +
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| PMID
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20482635, 17237053, +
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| Page has default formThis property is a special property in this wiki.
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Resource +
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| PublicationLink
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http://bioinformatics.oxfordjournals.org/content/23/6/783.long +
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| Species
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Pea aphid +,
Aphid +
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| SuperCategory
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Resource +
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| Supporting Agency
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Rennes Metropole +,
ANR Exdisum +,
ANR Genoplante 'GnpAnnot' +
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| Synonym
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Aphid Genome Database +
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| Categories |
Resource
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| | No properties link to this page. |
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