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Table 6 Evaluation of metadata contribution

From: Ranking relations between diseases, drugs and genes for a curation task

PharmGKB data set TAP-10

setting

mean

sd

Δ

Δabs

Δrel

p value

ΔCI l

Δrel bs

t-e1-r1-m1-n3-c6-s1

0.40

0.011

      

tc-e1-r1-m1-n3-c6-s1

0.41

0.010

tc

+0.006

+1.4

9.8-4

+0.004

+1.4

tm-e1-r1-m1-n3-c6-s1

0.41

0.011

tm

+0.008

+2.0

2.0-3

+0.005

+3.4

tmc-e1-r1-m1-n3-c6-s1

0.42

0.009

tmc

+0.004

+1.1

2.0-3

+0.002

+4.5

PharmGKB data set AUCiP/R

setting

mean

sd

Δ

Δabs

Δrel

p value

ΔCI l

Δrel bs

t-e1-r1-m1-n3-c0-s1

0.53

0.015

      

tc-e1-r1-m1-n3-c0-s1

0.53

0.014

tc

+0.007

+1.4

2.0-3

+0.004

+1.4

tm-e1-r1-m1-n3-c0-s1

0.54

0.015

tm

+0.010

+1.8

2.0-3

+0.006

+3.2

CTD data set TAP-10

setting

mean

sd

Δ

Δabs

Δrel

p value

ΔCI l

Δrel bs

t-r1-m1-n3-c3-s1

0.31

0.006

      

tc-r1-m1-n3-c3-s1

0.33

0.005

tc

+0.022

+7.0

9.8-4

+0.019

+7.0

tm-r1-m1-n3-c3-s1

0.34

0.004

tm

+0.007

+2.0

9.8-4

+0.005

+9.2

tmc-r1-m1-n3-c3-s1

0.35

0.005

tmc

+0.011

+3.3

9.8-4

+0.010

+12.8

CTD data set AUCiP/R

setting

mean

sd

Δ

Δabs

Δrel

p value

ΔCI l

Δrel bs

t-r1-m1-n3-c3-s1

0.40

0.008

      

tc-r1-m1-n3-c3-s1

0.43

0.007

tc

+0.030

+7.5

9.8-4

+0.027

+7.5

tm-r1-m1-n3-c3-s1

0.45

0.006

tm

+0.014

+3.3

9.8-4

+0.012

+11.1

tmc-r1-m1-n3-c3-s1

0.46

0.007

tmc

+0.014

+3.0

9.8-4

+0.011

+14.5

  1. This table shows the increase of performance for each step of inclusion of metadata as applied to best settings of TAP-10 and AUCiP/R. See Table 4 for a detailed explanation on the interpretation of the columns.