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- Title
Spectroscape enables real-time query and visualization of a spectral archive in proteomics.
- Authors
Wu, Long; Hoque, Ayman; Lam, Henry
- Abstract
In proteomics, spectral archives organize the enormous amounts of publicly available peptide tandem mass spectra by similarity, offering opportunities for error correction and novel discoveries. Here we adapt an indexing algorithm developed by Facebook for organizing online multimedia resources to tandem mass spectra and achieve practically instantaneous retrieval and clustering of approximate nearest neighbors in a large spectral archive. An interactive web-based graphical user interface enables the user to view a query spectrum in its clustered neighborhood, which facilitates contextual validation of peptide identifications and exploration of the dark proteome. Proteomics data repositories are deluged with data that is scarcely reused. Here, the authors developed Spectroscape, an interactive web-based tool for efficient similarity search of a query spectrum against a repository-scale spectral archive, and real-time visualization of its neighborhood.
- Subjects
META Platforms Inc.; WEB-based user interfaces; GRAPHICAL user interfaces; DATA visualization; DATA libraries; PROTEOMICS
- Publication
Nature Communications, 2023, Vol 14, Issue 1, p1
- ISSN
2041-1723
- Publication type
Article
- DOI
10.1038/s41467-023-42006-x