Table 1

Overall quality of the retrieved gene lists

Query

GO/ MIM gene count

GLAD4U gene count

EBIMed gene count

GLAD4U

EBIMed


Apoptosis

1039

6037 (958)

1469 (387)

Precision

0.1587

0.2634


[195715]

[10000]

Recall

0.9220

0.3725


F-measure

0.2708

0.3086


Cell adhesion

785

4195 (691)

1725 (305)

Precision

0.1647

0.1769


[125144]

[10000]

Recall

0.8802

0.3885


F-measure

0.2775

0.2431


DNA repair

282

2476 (263)

1100 (180)

Precision

0.1062

0.1636


[60952]

[10000]

Recall

0.9326

0.6383


F-measure

0.1907

0.2605


Hypertension

87

2046 (77)

135 (27)

Precision

0.0376

0.2000


[323818]

[10000]

Recall

0.8851

0.3103


F-measure

0.0721

0.2432


Obesity

111

1778 (110)

350 (59)

Precision

0.0619

0.1686


[141615]

[10000]

Recall

0.9910

0.5315


F-measure

0.1165

0.2560


Schizophrenia

94

1725 (90)

382 (44)

Precision

0.0522

0.1152


[91194]

[10000]

Recall

0.9574

0.4681


F-measure

0.0990

0.1849


Numbers in parentheses indicate the number of genes overlapping between the GLAD4U or EBIMed lists and the corresponding gold standard, numbers in square brackets indicate the number of publications retrieved by the query.

Jourquin et al. BMC Genomics 2012 13(Suppl 8):S20   doi:10.1186/1471-2164-13-S8-S20

Open Data