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Table 1 Results of the samples to profiles classification. 1,464 samples from healthy tissues and cells including 15,931 genes from 35 anatomical classes were classified. Anatomical classes, number of samples and number of different array generations within each of the classes are listed in the table. The percentages of correctly classified samples are calculated with each normalization method.

From: Comparison of Affymetrix data normalization methods using 6,926 experiments across five array generations

 

# samples

# array gens

MAS

Z

HK

Q

WBL

MASAGC

ZAGC

HKAGC

QAGC

WBLAGC

TOTAL

1464

5

74.2%

77.9%

75.5%

77.6%

76.1%

86.7%

89.6%

89.7%

89.8%

89.3%

Aorta

24

1

100%

100%

100%

100%

100%

100%

100%

100%

100%

100%

Bronchus

94

2

81.9%

81.9%

81.9%

81.9%

81.9%

86.2%

86.2%

86.2%

86.2%

86.2%

Lung

117

4

47.9%

46.2%

46.2%

46.2%

46.2%

91.5%

88.0%

89.7%

86.3%

83.8%

Alveolus

34

1

100%

100%

100%

100%

100%

100%

100%

100%

100%

100%

Bone marrow

104

3

53.8%

53.8%

53.8%

52.9%

52.9%

86.5%

84.6%

86.5%

85.6%

86.5%

Peripheral blood

260

3

53.1%

70.8%

61.2%

70.8%

61.2%

62.7%

82.3%

82.3%

83.5%

82.3%

Tonsil

16

2

100%

100%

100%

100%

100%

100%

100%

100%

100%

100%

Colon

18

3

88.9%

88.9%

88.9%

88.9%

88.9%

88.9%

94.4%

88.9%

94.4%

88.9%

Liver

12

3

100%

100%

100%

100%

100%

100%

100%

100%

100%

100%

Pancreas

21

4

76.2%

81.0%

81.0%

76.2%

81.0%

95.2%

95.2%

95.2%

95.2%

95.2%

Kidney

49

3

73.5%

75.5%

73.5%

73.5%

75.5%

89.8%

87.8%

89.8%

87.8%

87.8%

Testis

13

3

92.3%

92.3%

92.3%

92.3%

92.3%

92.3%

92.3%

92.3%

92.3%

92.3%

Prostate

70

4

80.0%

75.7%

80.0%

75.7%

75.7%

98.6%

95.7%

98.6%

95.7%

95.7%

Foreskin

30

2

100%

100%

100%

100%

100%

100%

100%

100%

100%

100%

Ovary

14

2

57.1%

64.3%

57.1%

64.3%

57.1%

78.6%

78.6%

78.6%

78.6%

78.6%

Uterus

12

3

83.3%

75.0%

83.3%

75.0%

83.3%

100%

91.7%

100%

91.7%

91.7%

Endometrium

12

1

50.0%

83.3%

50.0%

66.7%

83.3%

100%

100%

100%

100%

100%

Placenta

28

3

67.9%

67.9%

64.3%

67.9%

67.9%

82.1%

75.0%

75.0%

75.0%

75.0%

Breast

25

4

64.0%

64.0%

64.0%

64.0%

64.0%

84.0%

96.0%

84.0%

96.0%

100%

Thyroid

16

2

87.5%

100%

88%

100%

100%

100%

93.8%

93.8%

93.8%

87.5%

Thymus

12

2

66.7%

75.0%

75.0%

75.0%

75.0%

83.3%

75.0%

83.3%

83.3%

83.3%

Muscle

11

2

90.9%

100%

90.9%

100%

100%

54.5%

54.5%

54.5%

54.5%

54.5%

Skin cuticle

85

3

91.8%

91.8%

91.8%

91.8%

91.8%

96.5%

97.6%

97.6%

97.6%

97.6%

Brain

35

3

54.3%

60.0%

54.3%

60.0%

60.0%

88.6%

88.6%

85.7%

85.7%

85.7%

Cerebral cortex

34

1

55.9%

61.8%

55.9%

61.8%

58.8%

58.8%

61.8%

52.9%

61.8%

58.8%

Frontal lobe

33

1

93.9%

93.9%

93.9%

93.9%

93.9%

93.9%

93.9%

93.9%

93.9%

93.9%

Hypothalamus

25

1

100%

100%

100%

100%

100%

100%

96.0%

96.0%

96.0%

96.0%

Cerebellum

33

2

84.8%

84.8%

84.8%

84.8%

84.8%

97.0%

97.0%

97.0%

97.0%

97.0%

Lens

11

1

100%

100%

100%

100%

100%

100%

100%

90.9%

100%

100%

Optic nerve

44

1

93.2%

93.2%

93.2%

93.2%

93.2%

93.2%

93.2%

93.2%

93.2%

93.2%

Striated skeletal muscle

92

2

100%

100%

100%

100%

100%

100%

100%

100%

100%

100%

Umbilical vein

38

1

97.4%

97.4%

97.4%

97.4%

97.4%

97.4%

97.4%

97.4%

97.4%

97.4%

Intervertebral disc

11

1

100%

100%

100%

100%

100%

100%

100%

100%

100%

100%

Ventricle myocardium

18

2

61.1%

61.1%

61.1%

61.1%

61.1%

100%

100%

100%

100%

100%

Atrium myocardium

13

1

100%

100%

100%

100%

100%

76.9%

76.9%

84.6%

76.9%

76.9%