title: Panorama: a targeted proteomics knowledge base.
abstract: Panorama is a web application for storing, sharing, analyzing, and reusing targeted assays created and refined with Skyline,1 an increasingly popular Windows client software tool for targeted proteomics experiments. Panorama allows laboratories to store and organize curated results contained in Skyline documents with fine-grained permissions, which facilitates distributed collaboration and secure sharing of published and unpublished data via a web-browser interface. It is fully integrated with the Skyline workflow and supports publishing a document directly to a Panorama server from the Skyline user interface. Panorama captures the complete Skyline document information content in a relational database schema. Curated results published to Panorama can be aggregated and exported as chromatogram libraries. These libraries can be used in Skyline to pick optimal targets in new experiments and to validate peak identification of target peptides. Panorama is open-source and freely available. It is distributed as part of LabKey Server,2 an open source biomedical research data management system. Laboratories and organizations can set up Panorama locally by downloading and installing the software on their own servers. They can also request freely hosted projects on https://panoramaweb.org , a Panorama server maintained by the Department of Genome Sciences at the University of Washington.
authors.affiliation: University of Washington , Seattle, Washington 98195, United States.
authors.forename: Vagisha
authors.initials: V
authors.lastname: Sharma
authors.forename: Josh
authors.initials: J
authors.lastname: Eckels
authors.forename: Greg K
authors.initials: GK
authors.lastname: Taylor
authors.forename: Nicholas J
authors.initials: NJ
authors.lastname: Shulman
authors.forename: Andrew B
authors.initials: AB
authors.lastname: Stergachis
authors.forename: Shannon A
authors.initials: SA
authors.lastname: Joyner
authors.forename: Ping
authors.initials: P
authors.lastname: Yan
authors.forename: Jeffrey R
authors.initials: JR
authors.lastname: Whiteaker
authors.forename: Goran N
authors.initials: GN
authors.lastname: Halusa
authors.forename: Birgit
authors.initials: B
authors.lastname: Schilling
authors.forename: Bradford W
authors.initials: BW
authors.lastname: Gibson
authors.forename: Christopher M
authors.initials: CM
authors.lastname: Colangelo
authors.forename: Amanda G
authors.initials: AG
authors.lastname: Paulovich
authors.forename: Steven A
authors.initials: SA
authors.lastname: Carr
authors.forename: Jacob D
authors.initials: JD
authors.lastname: Jaffe
authors.forename: Michael J
authors.initials: MJ
authors.lastname: MacCoss
authors.forename: Brendan
authors.initials: B
authors.lastname: MacLean
mesh_terms: D030562:Databases, Protein; D020407:Internet; D051188:Knowledge Bases; D013058:Mass Spectrometry; D040901:Proteomics / Q000379:methods*; D012984:Software
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