Table 2 Number of (TF, treatment) associations discovered by the GENMi method and the baseline method that does not use expression data, at varying FPR thresholds

From: Computational discovery of transcription factors associated with drug response

FPR

1

0.2

0.002

0.0002

0.00002

Baseline

1932

75

16

2

0

GENMi

2736

943

211

33

14

  1. Abbreviations: FPR, false positive rate; GENMi, Gene Expression iN the Middle; TF, transcription factor.
  2. The FPR is estimated by running either method on 5000 randomized data sets where transcription factor-binding site (TFBS) locations have been shuffled genome wide.
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