Author: Noh, Heeju; Shoemaker, Jason E; Gunawan, Rudiyanto
Title: Network perturbation analysis of gene transcriptional profiles reveals protein targets and mechanism of action of drugs and influenza A viral infection Document date: 2018_4_6
ID: j80hnhpb_33
Snippet: For DeMAND analysis, we employed the public R subroutines available from the website: http://califano.c2b2. columbia.edu/demand. Following the procedure detailed in the original publication (23), we computed the RMA (Robust Multi-array Average) normalized gene expression values as inputs to the analysis. In DeMAND analysis, we used the same cell type-specific PGRNs as those in ProTINA. For each candidate protein target, DeMAND evaluated the P-val.....
Document: For DeMAND analysis, we employed the public R subroutines available from the website: http://califano.c2b2. columbia.edu/demand. Following the procedure detailed in the original publication (23), we computed the RMA (Robust Multi-array Average) normalized gene expression values as inputs to the analysis. In DeMAND analysis, we used the same cell type-specific PGRNs as those in ProTINA. For each candidate protein target, DeMAND evaluated the P-value of the deviations in the gene expression relationship between the protein target and each of the genes connected to this protein in the PGRN. The drug targets were ranked in increasing magnitude of the combined P-values.
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