URL: http://autosnpdb.appliedbioinformatics.com.au
Proper Citation: autoSNPdb (RRID:SCR_001927)
Description: We have developed an integrated SNP discovery pipeline, which identifies SNPs from assembled EST sequences. The results are maintained in a custom relational database along with EST source and annotation information. The current database hosts data for the important crops rice, barley and Brassica. Users may rapidly identify polymorphic sequences of interest through BLAST sequence comparison, keyword searches of annotations derived from UniRef90 and GenBank comparisons, GO annotations or in genes corresponding to syntenic regions of reference genomes. In addition, SNPs between specific varieties may be identified for targeted mapping and association studies. SNPs are viewed using a user-friendly graphical interface. The implementation of autoSNPdb allows researchers to query the results of SNP analysis to characterize SNPs between specific groups of individuals or within genes with predicted function. The system is flexible and researchers may add additional levels of annotation, and perform novel queries specific to their area of interest. If you have sequence data you'd like to include please contact Dave Edwards.
Abbreviations: autoSNPdb
Resource Type: data or information resource, storage service resource, service resource, database, data repository
Defining Citation: PMID:18854357, PMID:19386041
Keywords: gene, gene function, single nucleotide polymorphism
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