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Table 1 Summary of landscape features identified for the complete (GE) dataset.

From: ExprAlign - the identification of ESTs in non-model species by alignment of cDNA microarray expression profiles

GE Mountain i.d.

No. of identified clones

Best represented gene identities

No. of relatable unknown clones

  

Protein description

No. in mountain

% of the identified clones in mountain

% of clones in mountain

No. in carpBASE 2.1

p to the carpBASE 2.1

 

125

48

14 kDa apolipoprotein

34

70.8

27.2

65

3.2E-60

77

123

53

Ribosomal proteins

39

73.6

31.7

339

5.9E-38

70

113

55

Glyceraldehyde-3-phosphate dehydrogenase

50

90.9

44.2

70

6.3E-101

58

95

23

Ribosomal proteins

19

82.6

20

339

1.2E-20

72

91

46

Skeletal alpha-actin

36

78.3

39.6

71

6.5E-65

45

79

39

Apolipoproteins

33

84.6

41.8

113

3.9E-53

40

57

24

Creatine kinases

20

83.3

35.1

74

5.9E-36

33

35

15

Apolipoprotein A-I

13

86.7

37.1

47

8.9E-27

20

33

28

Fructose-bisphosphate aldolase B

26

92.9

78.8

30

4.1E-65

5

28

26

ADP/ATP translocases

26

100

92.9

43

1.7E-60

2

26

16

Fibrinogen

14

87.5

53.8

35

4.0E-31

10

24

6

Creatine kinases

4

66.7

16.7

74

3.E-07

18

17

9

Transferrin variant A

8

88.9

47.1

44

4.1E-17

8

17b

15

Fructose-bisphosphate aldolase A

13

86.7

76.5

30

7.6E-30

2

17c

13

Fatty acid-binding protein

13

100

76.5

28

2.3E-32

4

16

9

Parvalbumins

8

88.9

50

114

1.4E-13

7

15

6

Vitellogenin

6

100

40

10

3.6E-18

9

14

5

Apolipoprotein Eb precursor

5

100

35.7

19

2.0E-13

9

14b

14

Parvalbumins

14

100

100

114

4.5E-25

0

13

9

Transferrin variant A

7

77.8

53.8

44

2.8E-14

4

13b

7

Acidic mammalian chitinase precursor

7

100

53.8

11

6.8E-21

6

13c

10

Carp Desaturase 2 (CDS2)

10

100

76.9

15

2.2E-28

3

12

9

Troponin T, fast skeletal muscle isoforms

9

100

75

22

2.1E-23

3

11

9

Apolipoprotein C-I precursor

9

100

81.8

24

5.6E-23

2

10

5

Myoglobin

5

100

50

6

1.0E-16

5

10b

8

Warm-temperature-acclimation-related-65 kDa-protein

5

62.5

50

15

2.8E-12

2

10c

9

Uncoupling protein 1

9

100

90

10

4.3E-28

1

9

8

C-type lectin

8

100

88.9

19

2.1E-21

1

9b

9

Invariant chain like protein 2

9

100

100

20

7.1E-24

0

9c

6

Elongation factor 1-alpha; EF-1-alpha

6

100

66.7

13

3.0E-17

3

8

6

Alcohol dehydrogenase

6

100

75

24

2.3E-15

2

5

4

RING finger protein 28

4

100

80

6

3.0E-13

1

Total

549

      

522

  1. Column 1 represents the number of gene probes included within the landscape feature indicated in Figure 2, and this is also used to denote the identity. Column 2 indicates how many of these were BLAST identified as indicated in column 3. The number of the best-represented identified gene in a mountain must be >2, and its percentage of clones in mountain must be over 20%. P represents the significance (Fishers Exact test) of the gene being over-represented in the mountain comparing to the whole clone set included within carpBASE 2.1.
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BMC Genomics

ISSN: 1471-2164

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