URL: http://avia.abcc.ncifcrf.gov/apps/site/index
Proper Citation: AVIA (RRID:SCR_005172)
Description: An interactive web-based tool to explore and interpret large sets of genomic variations (single nucleotide variations and insertion/deletions) to help guide and summarize genomic experiments. The tool is based on coupling a comprehensive annotation pipeline with a flexible visualization method. They leveraged the ANNOVAR (Wang et. al, 2010) framework for assigning functional impact to genomic variations by extending its list of reference annotation databases (RefSeq, UCSC, SIFT, Polyphen etc.) with additional in-house developed sources (Non-B DB, PolyBrowse). Further, because many users also have their own annotation sources, they have added the ability to supply their own files as well. The results can be obtained in tabular format or as tracks in whole genome circular views generated by the Circos application (Krzywinski et. al, 2009). Users can also select different sets of pre-computed tracks, including whole genome distributions of different genomic features (genes, exons, repeats), as well as variations analysis tracks for the 69 CGI public genomes for reference.
Abbreviations: AVIA
Synonyms: Annotation Visualization and Impact Analysis
Resource Type: service resource, analysis service resource, production service resource, data analysis service
Defining Citation: PMID:24215028
Keywords: genomic variation, single nucleotide variation, insertion, deletion, indel, genome, annotation, visualization, impact analysis, mirna snp, mirna, snp, subtractive analysis, protein coding
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