Table 3

Analysis of processes that are changed significantly upon treatment with dietary cholesterol

Differentially expressed (%)


Master process

Subprocess (child terms)

Number of genes measured

LC

HC


Lipid metabolism

264

8.7*

24.2*

Fatty acid metabolism, fatty acid beta-oxidation

8

0.0

50.0*

Triacylglycerol metabolism

7

0.0

57.1*

Cholesterol metabolism

27

33.3*

33.3*

Cholesterol biosynthesis

7

71.4*

57.1*

Lipoprotein metabolism

18

16.7*

44.4*

Lipid biosynthesis

105

11.4*

23.8*

Immune response

297

3.0

12.1*

Antigen presentation, exogenous antigen

10

10.0

70.0*

Antigen processing

17

5.9

35.3*

Acute-phase response

11

9.1

36.4*

General metabolism

3,600

3.3

13.1*

Cellular polysaccharide metabolism

19

5.3

26.3*

Polysaccharide biosynthesis

9

0.0

33.3*

Cofactor metabolism

116

5.2

21.6*

Regulation of translational initiation

9

0.0

44.4*

Amino acid metabolism

103

2.9

20.4*

Transport

1,119

2.9

14.3*

Intracellular protein transport

161

3.7

19.9*

Golgi vesicle transport

16

6.3

37.5*

Mitochondrial transport

11

18.2*

54.5*


Master processes and their subprocesses (child terms) are listed together with the number of genes measured (third column). Percentages reflect the fraction of genes differentially expressed (within a specific process or pathway) in the LC and HC groups compared to the Con group. Relevant biological processes were identified in GenMAPP by comparison of the set of differentially expressed genes (ANOVA; P < 0.01 and FDR < 0.05) with all genes present on the array. *Biological processes with a Z-score >2 and a PermuteP < 0.05.

Kleemann et al. Genome Biology 2007 8:R200   doi:10.1186/gb-2007-8-9-r200

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