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ReDU: a framework to find and reanalyze public mass spectrometry data
(Nature Publishing Group, 2020-01-01) Jarmusch A.K.; Wang M.; Aceves C.M.; Advani R.S.; Aguirre S.; Aksenov A.A.; Aleti G.; Aron A.T.; Bauermeister A.; Bolleddu S.; Bouslimani A.; Caraballo Rodriguez A.M.; Chaar R.; Coras R.; Elijah E.O.; Ernst M.; Gauglitz J.M.; Gentry E.C.; Husband M.; Jarmusch S.A.; Jones K.L.; II; Kamenik Z.; Le Gouellec A.; Lu A.; McCall L.-I.; McPhail K.L.; Meehan M.J.; Melnik A.V.; Menezes R.C.; Montoya Giraldo Y.A.; Nguyen N.H.; Nothias L.F.; Nothias-Esposito M.; Panitchpakdi M.; Petras D.; Quinn R.A.; Sikora N.; van der Hooft J.J.J.; Vargas F.; Vrbanac A.; Weldon K.C.; Knight R.; Bandeira N.; Dorrestein P.C.; Universidad EAFIT. Departamento de Ciencias; Ciencias Biológicas y Bioprocesos (CIBIOP)
We present ReDU (https://redu.ucsd.edu/), a system for metadata capture of public mass spectrometry-based metabolomics data, with validated controlled vocabularies. Systematic capture of knowledge enables the reanalysis of public data and/or co-analysis of one’s own data. ReDU enables multiple types of analyses, including finding chemicals and associated metadata, comparing the shared and different chemicals between groups of samples, and metadata-filtered, repository-scale molecular networking. © 2020, The Author(s), under exclusive licence to Springer Nature America, Inc.