Abstract
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.
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Aggio RBM, Ruggiero K, Villas-Boas SG (2010) Pathway Activity Profiling (PAPi): from the metabolite profile to the metabolic pathway activity. Bioinformatics 26:2969–2976
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Aggio, R.B.M. (2014). Pathway Activity Profiling (PAPi): A Tool for Metabolic Pathway Analysis. In: Mapelli, V. (eds) Yeast Metabolic Engineering. Methods in Molecular Biology, vol 1152. Humana Press, New York, NY. https://doi.org/10.1007/978-1-4939-0563-8_14
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DOI: https://doi.org/10.1007/978-1-4939-0563-8_14
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Publisher Name: Humana Press, New York, NY
Print ISBN: 978-1-4939-0562-1
Online ISBN: 978-1-4939-0563-8
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