Table 6

Evaluation using gene/protein name snippets from MEDLINE abstracts

Dictionary
Lookup performance
Iter.
 Ambiguity
 Variability
 Rule
 Precision
 Recall
0
 5.797
 12.479
 (convert capital letters to lower case)
 0.782
 0.582
1
 5.807
 12.161
 ‘-’ → ‘’
 0.766
 0.603
2
 5.811
 12.025
 ‘ precursor’ → ‘’
 0.767
 0.611
3
 5.812
 11.941
 ‘,’ → ‘’
 0.767
 0.611
4
 5.812
 11.907
 ‘inc finger protein’ → ‘nf’
 0.767
 0.611
5
 5.812
 11.868
 ‘ isoform 1’ → ‘’
 0.767
 0.611
6
 5.813
 11.832
 ‘ isoform 2’ → ‘’
 0.766
 0.611
7
 5.813
 11.806
 ‘ isoform a’ → ‘’
 0.766
 0.611
8
 5.813
 11.781
 ‘ isoform b’ → ‘’
 0.766
 0.611
9
 5.813
 11.748
 ‘ containing protein’ → ‘containing’
 0.766
 0.611
10
 5.813
 11.730
 ‘ variant’ → ‘’
 0.766
 0.611
:
 :
 :
 :
 :
 :
21
 5.815
 11.597
 ‘nterleukin’ → ‘l’
 0.767
 0.613
:
 :
 :
 :
 :
 :
24
 5.816
 11.566
 ‘specific’ → ‘’
 0.767
 0.615
:
 :
 :
 :
 :
 :
33
 5.816
 11.450
 ‘protein’ → ‘gene’
 0.765
 0.616
34
 5.828
 11.056
 ‘ gene’ → ‘’
 0.765
 0.619
:
 :
 :
 :
 :
 :
38
 5.829
 11.016
 ‘ recepto’ → ‘’
 0.767
 0.623
:
 :
 :
 :
 :
 :
44
 5.830
 10.970
 ‘ alph’ → ‘’
 0.765
 0.625
:
 :
 :
 :
 :
 :
75
 5.831
 10.838
 ‘ i’ → ‘1’
 0.766
 0.626
:
 :
 :
 :
 :
 :
84
 5.831
 10.790
 ‘ lpha’ → ‘’
 0.766
 0.627
:
 :
 :
 :
 :
 :
86
 5.831
 10.782
 ‘ beta’ → ‘b’
 0.767
 0.630
:
 :
 :
 :
 :
 :
100
 5.832
 10.732
 ‘ type’ → ‘’
 0.767
 0.633

Tsuruoka et al. BMC Bioinformatics 2008 9(Suppl 3):S2   doi:10.1186/1471-2105-9-S3-S2