Dissemin is shutting down on January 1st, 2025

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Nature Research, Nature Communications, 1(12), 2021

DOI: 10.1038/s41467-021-26111-3

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A proteomics sample metadata representation for multiomics integration and big data analysis

This paper is made freely available by the publisher.
This paper is made freely available by the publisher.

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Abstract

AbstractThe amount of public proteomics data is rapidly increasing but there is no standardized format to describe the sample metadata and their relationship with the dataset files in a way that fully supports their understanding or reanalysis. Here we propose to develop the transcriptomics data format MAGE-TAB into a standard representation for proteomics sample metadata. We implement MAGE-TAB-Proteomics in a crowdsourcing project to manually curate over 200 public datasets. We also describe tools and libraries to validate and submit sample metadata-related information to the PRIDE repository. We expect that these developments will improve the reproducibility and facilitate the reanalysis and integration of public proteomics datasets.