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Table 2 Summary of Gene Ontology terms associated with positive and negative ageCGs affiliated with genes across tissues a

From: Differential DNA methylation with age displays both common and dynamic features across human tissues that are influenced by CpG landscape

GO termb

Tissue

Count

P-value

q-value

Fold

Positive unique

     

GO:0030054 - cell junction

Blood

42

5.2 × 10-10

7.0 × 10-7

3.1

GO:0048754 - branching morphogenesis of a tube

Brain

18

1.6 × 10-7

3.0 × 10-4

5.0

GO:0048878 - chemical homeostasis

Kidney

87

4.9 × 10-15

9.0 × 10-12

2.6

GO:0003713 - transcription coactivator activity

Muscle

15

6.6 × 10-7

1.0 × 10-3

5.6

Positive two-way shared

     

GO:0000902 - cell morphogenesis

Blood

37

2.3 × 10-14

4.0 × 10-11

4.9

GO:0003002 - regionalization

Brain

41

5.3 × 10-15

9.6 × 10-12

4.6

GO:0000902 - cell morphogenesis

Kidney

73

2.9 × 10-16

6.1 × 10-13

3.1

GO:0003712 - transcription cofactor activity

Muscle

23

3.2 × 10-9

4.9 × 10-6

4.9

Positive three-way shared

     

GO:0007267 - cell-cell signaling

Blood

56

8.9 × 10-28

1.6 × 10-24

6.5

GO:0007267 - cell-cell signaling

Brain

64

4.3 × 10-21

7.8 × 10-18

4.2

GO:0030182 - neuron differentiation

Kidney

117

4.5 × 10-37

8.2 × 10-34

4.1

GO:0016563 - transcription activator activity

Muscle

29

5.0 × 10-10

7.5 × 10-7

4.2

Positive four-way shared

     

GO:0005886 - plasma membrane

Blood

169

1.2 × 10-23

1.6 × 10-20

2.1

GO:0031226 - intrinsic to plasma membrane

Brain

119

1.7 × 10-36

2.5 × 10-33

3.8

GO:0031226 - intrinsic to plasma membrane

Kidney

209

1.3 × 10-60

1.9 × 10-57

3.7

GO:0006350 - transcription

Muscle

102

1.5 × 10-18

2.6 × 10-15

2.6

Negative unique c

     

GO:0006952 - defense response

Kidney

58

5.8 × 10-30

1.0 × 10-26

6.8

GO:0005887 - integral to plasma membrane

Kidney

68

2.0 × 10-22

2.7 × 10-19

4.0

GO:0006954 - inflammatory response

Kidney

30

7.3 × 10-15

1.3 × 10-11

6.5

GO:0009611 - response to wounding

Kidney

39

2.2 × 10-14

3.8 × 10-11

4.6

GO:0005886 - plasma membrane

Kidney

138

9.1 × 10-14

1.2 × 10-10

1.8

GO:0006936 - muscle contraction

Muscle

15

1.5 × 10-11

2.5 × 10-8

13.0

GO:0003012 - muscle system process

Muscle

15

7.6 × 10-11

1.3 × 10-7

11.5

GO:0006941 - striated muscle contraction

Muscle

10

1.3 × 10-9

2.2x10-6

21.3

GO:0015629 - actin cytoskeleton

Muscle

15

3.6 × 10-6

4.7 × 10-3

4.8

GO:0003009 - skeletal muscle contraction

Muscle

5

5.0 × 10-6

8.3 × 10-3

44.3

Negative two-way shared (kidney and blood only) d

     

GO:0006955 - immune response

Kidney

66

2.6 × 10-32

4.5 × 10-29

6.3

GO:0031226 - intrinsic to plasma membrane

Kidney

69

2.1 × 10-22

2.7 × 10-19

4.0

GO:0005576 - extracellular region

Kidney

105

1.8 × 10-15

2.3 × 10-12

2.2

GO:0044459 - plasma membrane part

Kidney

95

7.5 × 10-13

9.9 × 10-10

2.1

GO:0002684 - positive regulation of immune

     

system process

Kidney

24

1.3 × 10-10

2.3 × 10-7

5.5

  1. aDAVID v6.7 was used with all genes represented on the Methylation27 beadchip as background and gene lists associated for each tissue according to minimum age-associated P-value and positive or negative ageCGs. Enrichment tests were done independently for each tissue. Complete results are shown in supplemental data. All results shown are below q < 0.05 as generated by DAVID analysis [27, 28].
  2. bResults were first sorted by shared GO terms among tissues according to whether they overlapped among all four tissues (four-way), among three tissues (three-way), between two tissues (two-way), or unique in only one tissue. GO terms were then sorted by tissue and lowest q-values. The top GO term is shown for each tissue using this sorting scheme.
  3. cThe top five genes affiliated with unique negative ageCGs in each tissue shown here do not include genes from brain because results did not meet q < 0.05for blood tissue see below.
  4. dAll genes affiliated with negative ageCGs in blood were shared with kidney. Results are only shown here for kidney tissue.