ArrayStar’s Variant comparison workflow provides tools to simplify the discovery and analysis of variants in multiplexed data generated by all major next-gen sequencing platforms.
•Perform variant analysis for a variety of project types, including whole genome sequencing, exome and targeted sequencing, gene panels, and RNA-Seq.
•Group data into appropriate categories (e.g. Disease vs. Control) in the Experiment List to facilitate subsequent analysis.
•View and analyze SNP data at both the SNP/small indel and gene levels.
•Use the Advanced Filtering dialog to flexibly search for variations of interest amongst the sample panel.
•Compare SNP and gene sets created by filtering or selection in Venn Diagrams or analyze them in the Gene Ontology view. At the gene level, weighted values for the number and types of SNPs in each gene are used to calculate a faux signal intensity so that the other ArrayStar tools can be used to further investigate the data. This also allows projects with both SNP data and gene expression and/or regulation data to be analyzed together.
•Utilize DNASTAR's new human Variant Annotation Database, which bundles together data from dbNSFP as well as 1000 Genomes and ESP's Exome Variant Server.
•Perform large-scale comparisons of variants across individuals and groups of individuals and determine the level of disruption to each gene caused by the variants present.
•Send genes or variants of interest to SeqMan Pro to view the read alignment at that position, or send to GenVision Pro to view the assembly coverage for all sample simultaneously.