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Table 3 Results obtained with the CESSM benchmarking tool

From: TopoICSim: a new semantic similarity measure based on gene ontology

Metrics

      

Methods

     

SimGIC

SimUI

RA

RM

RB

LA

LM

LB

JA

JM

JB

TopoICSim

MF

ECC

0.62

0.63

0.39

0.45

0.60

0.42

0.45

0.64

0.34

0.36

0.56

0.75

 

Pfam

0.63

0.61

0.44

0.18

0.57

0.44

0.18

0.56

0.33

0.12

0.49

0.62

 

SeqSim

0.71

0.59

0.50

0.12

0.66

0.46

0.12

0.60

0.29

0.10

0.54

0.55

BP

ECC

0.39

0.40

0.30

0.30

0.44

0.30

0.31

0.43

0.19

0.25

0.37

0.46

 

Pfam

0.45

0.45

0.32

0.26

0.45

0.28

0.20

0.37

0.17

0.16

0.33

0.51

 

SeqSim

0.77

0.73

0.40

0.30

0.73

0.34

0.25

0.63

0.21

0.23

0.58

0.68

  1. Pearson correlation coefficients are shown for the ECC, Pfam, and SeqSim datasets. The MF and BP annotations are used. Numbers in bold show the best correlation for each dataset. The column headings represent the following methods: SimGIC Similarity Graph Information Content, SimUI Union Intersection similarity, RA Resnick Average, RM Resnick Max, RB Resnick Best match, LA Lord Average, LM Lord Max, LB Lord Best match, JA Jaccard Average, JM Jaccard Max, JB Jaccard Best match
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BMC Bioinformatics

ISSN: 1471-2105

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