Table 1

TPF and FPF values for all the 60 GO terms in the training data

GO term

Positives

TP

FP

TPF

FPF

mitochondrion inheritance

10

6

4

0.6

0.005442177

mitochondrial genome maintenance

29

9

6

0.6

0.008219178

reproduction

9

7

2

0.777777778

0.002717391

biological process unknown

13

6

7

0.461538462

0.009562842

ribosomal chaperone activity

10

2

8

0.2

0.010884354

high affinity zinc uptake transporter activity

20

8

7

0.533333333

0.009589041

low-affinity zinc ion transporter activity

7

3

4

0.428571429

0.005420054

thioredoxin

19

0

15

0

0.020547945

alpha-1,6-mannosyltransferase activity

10

3

7

0.3

0.00952381

trans-hexaprenyltranstransferase activity

13

0

13

0

0.017759563

vacuole inheritance

10

7

3

0.7

0.004081633

single strand break repair

18

4

11

0.266666667

0.015068493

single-stranded DNA specific

7

5

2

0.714285714

0.002710027

phosphopyruvate hydratase complex

10

0

10

0

0.013605442

lactase activity

11

8

3

0.727272727

0.004087193

alpha-glucoside transport

17

3

12

0.2

0.016438356

regulation of DNA recombination

30

13

2

0.866666667

0.002739726

regulation of mitotic recombination

34

9

6

0.6

0.008219178

negative regulation of recombination

19

6

9

0.4

0.012328767

mitotic spindle elongation

10

2

8

0.2

0.010884354

maltose metabolism

7

4

3

0.571428571

0.004065041

maltose biosynthesis

9

0

9

0

0.012228261

maltose catabolism

16

13

2

0.866666667

0.002739726

alpha-1,2-mannosyltransferase activity

17

0

15

0

0.020547945

ribosomal large subunit assembly

22

4

11

0.266666667

0.015068493

ribosomal small subunit assembly

10

1

9

0.1

0.012244898

mannosyltransferase activity

26

9

6

0.6

0.008219178

mannosylphosphate transferase activity

14

5

9

0.357142857

0.012311902

cell wall mannoprotein biosynthesis

12

6

6

0.5

0.008185539

alpha-1,3-mannosyltransferase activity

7

4

3

0.571428571

0.004065041

adenine deaminase activity

23

9

6

0.6

0.008219178

acyl binding

21

7

8

0.466666667

0.010958904

acyl carrier activity

7

6

1

0.857142857

0.001355014

very-long-chain fatty acid metabolism

24

4

11

0.266666667

0.015068493

plasma membrane long-chain

12

7

5

0.583333333

0.006821282

low affinity iron ion transport

7

0

7

0

0.009485095

transition metal ion transport

32

7

8

0.466666667

0.010958904

protein targeting to Golgi

17

2

13

0.133333333

0.017808219

ascorbate stabilization

17

0

15

0

0.020547945

autophagic vacuole formation

21

6

9

0.4

0.012328767

autophagic vacuole fusion

14

3

11

0.214285714

0.01504788

Rieske iron-sulfur protein

17

1

14

0.066666667

0.019178082

peptidyltransferase activity

31

11

4

0.733333333

0.005479452

tRNA binding

14

2

12

0.142857143

0.016415869

urea cycle

9

0

9

0

0.012228261

urea cycle intermediate metabolism

31

6

9

0.4

0.012328767

citrulline metabolism

10

0

10

0

0.013605442

argininosuccinate metabolism

11

0

11

0

0.014986376

ribosome export from nucleus

11

9

2

0.818181818

0.002724796

ribosomal large subunit export

17

13

2

0.866666667

0.002739726

ribosomal small subunit export

9

1

8

0.111111111

0.010869565

citrulline metabolism

10

0

10

0

0.013605442

argininosuccinate metabolism

11

0

11

0

0.014986376

protein import into nucleus, docking

13

5

8

0.384615385

0.010928962

protein import into nucleus, translocation

18

0

15

0

0.020547945

protein import into nucleus, substrate release

9

6

3

0.666666667

0.004076087

acyl-CoA binding

8

3

5

0.375

0.006784261

L-ornithine transporter activity

7

5

2

0.714285714

0.002710027

mitochondrial ornithine transport

29

7

8

0.466666667

0.010958904

Vanteru et al. BMC Genomics 2008 9(Suppl 1):S10   doi:10.1186/1471-2164-9-S1-S10