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Table 4 The rank list of the metabolic networks which encompass differentially expressed genes between ROP-Os/+ and C57-Os/+

From: Identification of nephropathy candidate genes by comparing sclerosis-prone and sclerosis-resistant mouse strain kidney transcriptomes

ID

Score

Focus Molecules

Top Functions

1

61

32

Energy Production, Small Molecule Biochemistry, Genetic Disorder

2

55

30

Molecular Transport, Small Molecule Biochemistry, Cellular Function and Maintenance

3

44

26

Cellular Compromise, Cellular Assembly and Organization, Cellular Function and Maintenance

4

39

24

Cell-To-Cell Signaling and Interaction, Nervous System Development and Function, Cellular Assembly and Organization

5

33

21

Genetic Disorder, Neurological Disease, Metabolic Disease

6

23

17

Cellular Assembly and Organization, RNA Post-Transcriptional Modification, Protein Synthesis

7

19

14

Cellular Development, DNA Replication, Recombination, and Repair, Nucleic Acid Metabolism

8

19

14

Gene Expression, Genetic Disorder, Metabolic Disease

9

7

13

Carbohydrate Metabolism, Molecular Transport, Small Molecule Biochemistry

10

16

13

RNA Post-Transcriptional Modification, Cell Death, Post-Translational Modification

11

15

12

RNA Post-Transcriptional Modification, Cellular Function and Maintenance, Carbohydrate Metabolism

12

15

12

Carbohydrate Metabolism, Nucleic Acid Metabolism, Small Molecule Biochemistry

13

15

12

Genetic Disorder, Hepatic System Disease, Liver Cholestasis

14

14

11

Gene Expression, Lipid Metabolism, Molecular Transport

15

2

10

Cell Signaling, Infection Mechanism, Cell Death

16

2

1

Genetic Disorder

17

2

1

Genetic Disorder, Metabolic Disease, Lipid Metabolism

18

2

1

Molecular Transport, Protein Trafficking

19

2

1

Lipid Metabolism, Nucleic Acid Metabolism, Small Molecule Biochemistry

20

2

1

Cell Morphology, Cancer, Reproductive System Disease

21

2

1

Cancer, Cellular Development, Skeletal and Muscular System Development and Function

22

2

1

Genetic Disorder, Neurological Disease, Small Molecule Biochemistry

23

2

1

Lipid Metabolism, Small Molecule Biochemistry

24

1

1

Cancer, Genetic Disorder, Hepatic System Disease

25

1

1

DNA Replication, Recombination, and Repair, Cellular Compromise, Cell Death

  1. Genes from the SAGE kidney libraries, which met the 2-fold difference in expression level cut-off between ROP-Os/+ and C57-Os/+ were assigned biological functions using the Ingenuity Pathways Knowledge Base. A right-tailed Fisher’s exact test was used to calculate a p-value describing the probability that each biological function assigned to that network is due to chance alone. Networks were ranked according to the combinatorial p-value of differentially expressed genes represented in the network. Corresponding network diagrams are shown as supplemental figures S3-S14.
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BMC Nephrology

ISSN: 1471-2369

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