The Saccharomyces Genome Database Variant Viewer

• Published in: Nucleic acids research Vol. 44; no. D1; pp. D698 - D702
• Main Authors: Sheppard, Travis K, Hitz, Benjamin C, Engel, Stacia R, Song, Giltae, Balakrishnan, Rama, Binkley, Gail, Costanzo, Maria C, Dalusag, Kyla S, Demeter, Janos, Hellerstedt, Sage T, Karra, Kalpana, Nash, Robert S, Paskov, Kelley M, Skrzypek, Marek S, Weng, Shuai, Wong, Edith D, Cherry, J Michael
• Format: Journal Article
• Language: English
• Published: England Oxford University Press 04-01-2016
• Subjects: Database Issue; Databases, Genetic; Genetic Variation; Genome, Fungal; Molecular Sequence Annotation; Saccharomyces cerevisiae - genetics; Sequence Alignment; Sequence Analysis, DNA; Sequence Analysis, Protein; User-Computer Interface
• ISSN: 0305-1048; 1362-4962
• DOI: 10.1093/nar/gkv1250

The Saccharomyces Genome Database (SGD; http://www.yeastgenome.org) is the authoritative community resource for the Saccharomyces cerevisiae reference genome sequence and its annotation. In recent years, we have moved toward increased representation of sequence variation and allelic differences within S. cerevisiae. The publication of numerous additional genomes has motivated the creation of new tools for their annotation and analysis. Here we present the Variant Viewer: a dynamic open-source web application for the visualization of genomic and proteomic differences. Multiple sequence alignments have been constructed across high quality genome sequences from 11 different S. cerevisiae strains and stored in the SGD. The alignments and summaries are encoded in JSON and used to create a two-tiered dynamic view of the budding yeast pan-genome, available at http://www.yeastgenome.org/variant-viewer.