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

doi:10.1038/s41592-020-0916-7

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ReDU: a framework to find and reanalyze public mass spectrometry data

2020

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
et al.

Published Web Location

https://doi.org/10.1038/s41592-020-0916-7

Abstract

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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ReDU: a framework to find and reanalyze public mass spectrometry data

Published Web Location