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Integrated DiffErential Expression and Differential network analysis INDEED

Builds a sparse differential network based on partial correlation for better visualization, and integrates differential expression (DE) and differential network (DN) analyses for biomarker discovery. INDEED includes four steps: (i) performing DE analysis to obtain p-value for each biomolecule, (ii) building a differential network, (iii) computing the activity score for each biomolecule and, (iv) prioritizing the biomolecules with the activity score. Future work includes developing an R package and extending it to integrate multiple omic data of various types for biomarker discovery.

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Department of Electrical and Computer Engineering, Virginia Polytechnic Institute and State University, Arlington, VA, USA; Department of Radiation Oncology, Stanford University, Palo Alto, CA, USA; Lombardi Comprehensive Cancer Center, Georgetown University, Washington, DC, USA

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