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Table 1 Comparison of different gene and network analysis methods for the reconstruction of drug response networks

From: Reconstructing cancer drug response networks using multitask learning

Control MT Cell 1 Cell 2 MT-Diff Diff-Cell1 Diff-Cell2
  CGC 13.33 8.5 8.66 6.33 4.66 6.5
  GO 72.33 33.66 41.5 47.66 43.16 29.5
  Oncogenic 7.66 3 3.33 10.33 10.33 4.83
Breast & Prostate       
  CGC 14.66 8.33 10 2.66 3.33 1.83
  GO 77.5 70.66 64.83 18.16 25.66 18.33
  Oncogenic 8.66 4.33 5.16 2.66 2.5 2.5
Prostate       
  CGC 15 10.16 10.33 3.33 2.33 3.83
  GO 82.33 85.83 88.66 23 26.83 18.5
  Oncogenic 11 8.33 7.66 3 4.5 3.16
  1. Values for each gene set and learning method denote the average number of genes (across six drugs) selected by each method which are also contained in the corresponding validation set. MT: multi-task, Cell 1, Cell 2: single task analysis (cell type based) for the two cells. “Diff” columns show genes selected only by differential expression (DE); MT-Diff: DE set for the two cell types, selecting genes that are differentially expressed in both cells, Diff-Cell1/2: cell type specific DE set