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ReDU: a framework to find and reanalyze public mass spectrometry data
- Jarmusch, Alan K;
- Wang, Mingxun;
- Aceves, Christine M;
- Advani, Rohit S;
- Aguirre, Shaden;
- Aksenov, Alexander A;
- Aleti, Gajender;
- Aron, Allegra T;
- Bauermeister, Anelize;
- Bolleddu, Sanjana;
- Bouslimani, Amina;
- Caraballo Rodriguez, Andres Mauricio;
- Chaar, Rama;
- Coras, Roxana;
- Elijah, Emmanuel O;
- Ernst, Madeleine;
- Gauglitz, Julia M;
- Gentry, Emily C;
- Husband, Makhai;
- Jarmusch, Scott A;
- Jones, Kenneth L;
- Kamenik, Zdenek;
- Le Gouellec, Audrey;
- Lu, Aileen;
- McCall, Laura-Isobel;
- McPhail, Kerry L;
- Meehan, Michael J;
- Melnik, Alexey V;
- Menezes, Riya C;
- Montoya Giraldo, Yessica Alejandra;
- Nguyen, Ngoc Hung;
- Nothias, Louis Felix;
- Nothias-Esposito, Mélissa;
- Panitchpakdi, Morgan;
- Petras, Daniel;
- Quinn, Robert A;
- Sikora, Nicole;
- van der Hooft, Justin JJ;
- Vargas, Fernando;
- Vrbanac, Alison;
- Weldon, Kelly C;
- Knight, Rob;
- Bandeira, Nuno;
- Dorrestein, Pieter C
Published Web Location
https://doi.org/10.1038/s41592-020-0916-7Abstract
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.
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