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Network Reconstitution for Quantitative Subnetwork Interaction Analysis

  • Fumiaki KatagiriEmail author
Protocol
Part of the Methods in Molecular Biology book series (MIMB, volume 1578)

Abstract

A fundamental task in systems biology is to quantify the contributions of the systems’ parts and their interactions. Here I describe a powerful concept and tool for this purpose: network reconstitution. Genotypes of an organism that represent all possible combinations of the subnetworks in question will be quantitatively phenotyped. The quantitative phenotype data is analyzed using an R script to obtain estimates for single subnetwork contributions and their interactions.

Key words

Subnetwork interactions Network reconstitution Signaling allocation Combinatorial genotypes Quantitative phenotype 

Notes

Acknowledgments

I thank Rachel Hillmer for critical reading of the manuscript. This work was supported by grants from National Science Foundation, MCB-0918908, IOS-1121425, and MCB-1518058.

References

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Copyright information

© Springer Science+Business Media LLC 2017

Authors and Affiliations

  1. 1.Department of Plant and Microbial Biology, Microbial and Plant Genomics InstituteUniversity of MinnesotaSt. PaulUSA

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