Nature Communications (Dec 2022)

Benchmarking tools for detecting longitudinal differential expression in proteomics data allows establishing a robust reproducibility optimization regression approach

  • Tommi Välikangas,
  • Tomi Suomi,
  • Courtney E. Chandler,
  • Alison J. Scott,
  • Bao Q. Tran,
  • Robert K. Ernst,
  • David R. Goodlett,
  • Laura L. Elo

DOI
https://doi.org/10.1038/s41467-022-35564-z
Journal volume & issue
Vol. 13, no. 1
pp. 1 – 18

Abstract

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Longitudinal proteomics holds great promise for biomarker discovery, but the data interpretation has remained a challenge. Here, the authors evaluate several tools to detect longitudinal differential expression in proteomics data and introduce RolDE, a robust reproducibility optimization approach.