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Table 5 Target recovery (direct target overlap with causal reasoning output nodes) averaged for each parameter level for the benchmark results for compound Diethylstilbestrol

From: Benchmarking causal reasoning algorithms for gene expression-based compound mechanism of action analysis

Platform

Gene Set

Cell Line

Algorithm

Network

LINCS

2.24

ALL

2.30

MCF7

2.32

CausalR (Results table)

1.54

Omnipath

1.75

CMap

2.33

LM

1.97

PC3

2.25

CARNIVAL

0.83

Metabase All

2.00

  

BING

2.59

  

CausalR (Network)

2.38

Metabase High

2.69

      

SigNet

4.40

Metabase Med

2.71

Range

0.09

 

0.63

 

0.07

 

3.56

 

0.96

  1. The range across parameter levels is given in bold
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BMC Bioinformatics

ISSN: 1471-2105

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