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Protocol for Coexpression Network Construction and Stress-Responsive Expression Analysis in Brachypodium

  • Sanchari Sircar
  • Nita Parekh
  • Gaurav Sablok
Protocol
Part of the Methods in Molecular Biology book series (MIMB, volume 1667)

Abstract

Identifying functionally coexpressed genes and modules has increasingly become important to understand the transcriptional flux and to understand large scale gene association. Application of the graph theory and combination of tools has allowed to understand the genic interaction and to understand the role of hub and non-hub proteins in plant development and its ability to cope with stress. Association genetics has also been coupled with network modules to map these key genes as e-QTLs. High throughput sequencing approaches has revolutionized the mining of the gene behavior and also the association of the genes over time-series. The present protocol chapter presents a unified workflow to understand the transcriptional modules in Brachypodium distachyon using weighted coexpressed gene network analysis approach.

Key words

Brachypodium distachyon Drought stress Functional modules Network analysis Co-expression analysis 

Supplementary material

327621_1_En_16_MOESM1_ESM.docx (4.6 mb)
Supplementary Material (XLSX 2389 kb)

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Copyright information

© Springer Science+Business Media LLC 2018

Authors and Affiliations

  1. 1.International Institute of Information TechnologyHyderabadIndia
  2. 2.Department of Biodiversity and Molecular EcologyFondazione Edmund MachIASMAItaly
  3. 3.Plant Functional Biology and Climate Change Cluster (C3)University of Technology SydneySydneyAustralia

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