title: The Saccharomyces Genome Database Variant Viewer.
abstract: 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.
authors.affiliation: Department of Genetics, Stanford University School of Medicine, Stanford, CA 94305, USA.
authors.forename: Travis K
authors.initials: TK
authors.lastname: Sheppard
authors.affiliation: Department of Genetics, Stanford University School of Medicine, Stanford, CA 94305, USA.
authors.forename: Benjamin C
authors.identifier: http://orcid.org/0000-0003-3361-3594
authors.initials: BC
authors.lastname: Hitz
authors.affiliation: Department of Genetics, Stanford University School of Medicine, Stanford, CA 94305, USA.
authors.forename: Stacia R
authors.initials: SR
authors.lastname: Engel
authors.affiliation: Department of Genetics, Stanford University School of Medicine, Stanford, CA 94305, USA.
authors.forename: Giltae
authors.initials: G
authors.lastname: Song
authors.affiliation: Department of Genetics, Stanford University School of Medicine, Stanford, CA 94305, USA.
authors.forename: Rama
authors.initials: R
authors.lastname: Balakrishnan
authors.affiliation: Department of Genetics, Stanford University School of Medicine, Stanford, CA 94305, USA.
authors.forename: Gail
authors.initials: G
authors.lastname: Binkley
authors.affiliation: Department of Genetics, Stanford University School of Medicine, Stanford, CA 94305, USA.
authors.forename: Maria C
authors.initials: MC
authors.lastname: Costanzo
authors.affiliation: Department of Genetics, Stanford University School of Medicine, Stanford, CA 94305, USA.
authors.forename: Kyla S
authors.initials: KS
authors.lastname: Dalusag
authors.affiliation: Department of Genetics, Stanford University School of Medicine, Stanford, CA 94305, USA.
authors.forename: Janos
authors.initials: J
authors.lastname: Demeter
authors.affiliation: Department of Genetics, Stanford University School of Medicine, Stanford, CA 94305, USA.
authors.forename: Sage T
authors.initials: ST
authors.lastname: Hellerstedt
authors.affiliation: Department of Genetics, Stanford University School of Medicine, Stanford, CA 94305, USA.
authors.forename: Kalpana
authors.initials: K
authors.lastname: Karra
authors.affiliation: Department of Genetics, Stanford University School of Medicine, Stanford, CA 94305, USA.
authors.forename: Robert S
authors.initials: RS
authors.lastname: Nash
authors.affiliation: Department of Genetics, Stanford University School of Medicine, Stanford, CA 94305, USA.
authors.forename: Kelley M
authors.initials: KM
authors.lastname: Paskov
authors.affiliation: Department of Genetics, Stanford University School of Medicine, Stanford, CA 94305, USA.
authors.forename: Marek S
authors.initials: MS
authors.lastname: Skrzypek
authors.affiliation: Department of Genetics, Stanford University School of Medicine, Stanford, CA 94305, USA.
authors.forename: Shuai
authors.initials: S
authors.lastname: Weng
authors.affiliation: Department of Genetics, Stanford University School of Medicine, Stanford, CA 94305, USA.
authors.forename: Edith D
authors.initials: ED
authors.lastname: Wong
authors.affiliation: Department of Genetics, Stanford University School of Medicine, Stanford, CA 94305, USA cherry@stanford.edu.
authors.forename: J Michael
authors.identifier: http://orcid.org/0000-0001-9163-5180
authors.initials: JM
authors.lastname: Cherry
mesh_terms: D030541:Databases, Genetic; D014644:Genetic Variation; D016681:Genome, Fungal; D058977:Molecular Sequence Annotation; D012441:Saccharomyces cerevisiae / Q000235:genetics*; D016415:Sequence Alignment; D017422:Sequence Analysis, DNA; D020539:Sequence Analysis, Protein; D014584:User-Computer Interface