Pathway Activity Profiling (PAPi): A Tool for Metabolic Pathway Analysis

  • Raphael B. M. AggioEmail author
Part of the Methods in Molecular Biology book series (MIMB, volume 1152)


Pathway Activity Profiling (PAPi) is a method developed to correlate levels of metabolites to the activity of metabolic pathways operating within biological systems. Based solely on a metabolomics data set and the Kyoto Encyclopedia of Genes and Genomes, PAPi predicts and compares the activity of metabolic pathways across experimental conditions, which considerably improves the hypothesis generation process for achieving the biological interpretation of biological studies. In this chapter, we describe how to apply PAPi to a metabolomics data set using the R-software.

Key words

Metabolic pathway activity Metabolomics and systems biology 


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Copyright information

© Springer Science+Business Media, LLC 2014

Authors and Affiliations

  1. 1.Institute of Translational Medicine, University of LiverpoolLiverpoolUK

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