Universal Spectrum Explorer: A Standalone (Web-)Application for Cross-Resource Spectrum Comparison

Tobias Schmidt, Patroklos Samaras, Viktoria Dorfer, Christian Panse, Tobias Kockmann, Leon Bichmann, Bart Van Puyvelde, Yasset Perez-Riverol, Eric W. Deutsch, Bernhard Kuster, Mathias Wilhelm

Publikation: Beitrag in FachzeitschriftArtikelBegutachtung

18 Zitate (Scopus)

Abstract

Here, we present the Universal Spectrum Explorer (USE), a web-based tool based on IPSA for cross-resource (peptide) spectrum visualization and comparison (https://www.proteomicsdb.org/use/). Mass spectra under investigation can be either provided manually by the user (table format) or automatically retrieved from online repositories supporting access to spectral data via the universal spectrum identifier (USI), or requested from other resources and services implementing a newly designed REST interface. As a proof of principle, we implemented such an interface in ProteomicsDB thereby allowing the retrieval of spectra acquired within the ProteomeTools project or real-time prediction of tandem mass spectra from the deep learning framework Prosit. Annotated mirror spectrum plots can be exported from the USE as editable scalable high-quality vector graphics. The USE was designed and implemented with minimal external dependencies allowing local usage and integration into other web sites (https://github.com/kusterlab/universal_spectrum_explorer).

OriginalspracheEnglisch
Seiten (von - bis)3388-3394
Seitenumfang7
FachzeitschriftJournal of Proteome Research
Jahrgang20
Ausgabenummer6
DOIs
PublikationsstatusVeröffentlicht - 4 Juni 2021

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