Jones, P., et al. 2020., Metabolic Engineering Lab Protocol Series

Network modeling of complex data sets

Piet Jones, Deborah Weighill, Manesh Shah, Sharlee Climer, Jeremy Schmutz, Avinash Sreedasyam, Gerald Tuskan and Daniel Jacobson
November 2020,Techniques in Metabolic Engineering Lab Protocol series; doi: 10.1007/978-1-0716-0195-2_15


We demonstrate a selection of network and machine learning techniques useful in the analysis of complex datasets, including 2-way similarity networks, Markov clustering, enrichment statistical networks, FCROS differential analysis, and random forests. We demonstrate each of these techniques on the Populus trichocarpa gene expression atlas.


Jones P. et al. (2020) Network Modeling of Complex Data Sets. In: Himmel M., Bomble Y. (eds) Metabolic Pathway Engineering. Methods in Molecular Biology, vol 2096. Humana, New York, NY.