Table 2

Top-ranked 50 genes (25 pairs) for colon tumor/normal class separation using AP (all pairs) ranking

Pair rank

Gene ID

Pair t-score

Gene t-score

Gene rank

Gene annotation

1

M63391

10.02

5.57

2

Human desmin gene, complete cds

1

H08393

10.02

5.47

4

Collagen alpha 2(XI) chain (H. sapiens)

2

X12671

9.85

5.37

5

Human gene for heterogeneous nuclear ribonucleoprotein (hnRNP) core protein A1

2

Z50753

9.85

5.09

9

H. sapiens mRNA for GCAP-II/uroguanylin precursor

3

R87126

9.58

6.37

1

Myosin heavy chain, nonmuscle (Gallus gallus)

3

X63629

9.58

4.86

12

H. sapiens mRNA for p cadherin

4

M36634

9.27

4.65

15

Human vasoactive intestinal peptide (VIP) mRNA, complete cds

4

H11084

9.27

3.55

65

Vascular endothelial growth factor (Cavia porcellus)

5

J05032

8.96

5.2

8

Human aspartyl-tRNA synthetase alpha-2 subunit mRNA, complete cds

5

U19969

8.96

3.05

132

Human two-handed zinc finger protein ZEB mRNA, partial cds

6

J02854

8.94

5.28

7

Myosin regulatory light chain 2, smooth muscle isoform (human) (contains element TAR1 repetitive element)

6

R54097

8.94

3.93

46

Translational initiation factor 2 beta subunit (human)

7

H06524

8.89

4.18

29

Gelsolin precursor, plasma (human)

7

U22055

8.89

3.77

51

Human 100 kDa coactivator mRNA, complete cds

8

M76378

8.74

4.81

13

Human cysteine-rich protein (CRP) gene, exons 5 and 6

8

T62947

8.74

4.12

34

60S ribosomal protein L24 (Arabidopsis thaliana)

9

D21261

8.67

3.46

76

SM22-alpha homolog (human)

9

H20709

8.67

2.69

203

Myosin light chain alkali, smooth-muscle isoform (human)

10

X86693

8.64

4.16

30

H. sapiens mRNA for hevin like protein

10

D14812

8.64

2.66

211

Human mRNA for ORF, complete cds

11

H09719

8.35

2.57

237

Tubulin alpha-6 chain (Mus musculus)

11

L07648

8.35

2.31

321

Human MXI1 mRNA, complete cds

12

X12369

8.25

3.27

97

Tropomyosin alpha chain, smooth muscle (human)

12

R98842

8.25

3.05

131

Prothymosin alpha (H. sapiens)

13

J04102

8.11

3.06

128

Human erythroblastosis virus oncogene homolog 2 (ets-2) mRNA, complete cds

13

U14631

8.11

2.84

164

Human 11 beta-hydroxysteroid dehydrogenase type II mRNA, complete cds

14

T63133

8.06

2.85

160

Thymosin beta-10 (human)

14

T61661

8.06

2.51

255

Profilin I (human)

15

T92451

8.06

4.12

33

Tropomyosin, fibroblast and epithelial muscle-type (human)

15

U09587

8.06

3.46

74

Human glycyl-tRNA synthetase mRNA, complete cds

16

T71025

8.0

4.34

24

Human

16

L11706

8.0

3.18

104

Human hormone-sensitive lipase (LIPE) gene, complete cds

17

Z48541

7.96

3.14

120

H. sapiens mRNA for protein tyrosine phosphatase

17

D25217

7.96

2.54

249

Human mRNA (KIAA0027) for ORF, partial cds

18

M76378

7.94

5.04

10

Human cysteine-rich protein (CRP) gene, exons 5 and 6

18

T56604

7.94

3.89

48

Tubulin beta chain (Haliotis discus)

19

X54942

7.93

4.42

23

H. sapiens ckshs2 mRNA for Cks1 protein homolog

19

R44301

7.93

3.36

85

Mineralocorticoid receptor (H. sapiens)

20

T90280

7.86

3.52

70

Ribophorin II precursor (human)

20

T51534

7.86

3.01

137

Cystatin C precursor (human)

21

R96357

7.81

2.89

156

Polyadenylate-binding protein (Xenopus laevis)

21

R46753

7.81

2.64

216

Cyclin-dependent kinase inhibitor 1 (H. sapiens)

22

M76378

7.75

4.51

20

Human cysteine-rich protein (CRP) gene, exons 5 and 6

22

D00860

7.75

3.38

81

Ribose-phosphate pyrophosphokinase I (human)

23

X14958

7.56

4.53

19

Human hmgI mRNA for high mobility group protein Y

23

X87159

7.56

2.63

221

H. sapiens mRNA for beta subunit of epithelial amiloride-sensitive sodium channel

24

T51023

7.55

4.12

32

Heat shock protein HSP 90-beta (human)

24

D31716

7.55

2.83

168

Human mRNA for GC box binding protein, complete cds

25

M26383

7.52

5.53

3

Human monocyte-derived neutrophil-activating protein (MONAP) mRNA, complete cds

25

T47377

7.52

4.11

35

S-100P protein (human)

Bø and Jonassen Genome Biology 2002 3:research0017.1   doi:10.1186/gb-2002-3-4-research0017