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Table 2 Panther classification of biological processes, molecular functions and pathways significantly enriched in the set of 103 genes

From: Microarray analysis identifies a common set of cellular genes modulated by different HCV replicon clones

 

Observed Genes•

Expected Genes••

p-value•••

p-value with

Bonferroni

correction

BIOLOGICAL PROCESSES

    

Immunity and defense

14

5.39

9.78E-04

3.03E-02

   Stress response

4

0.82

9.44E-03

 

   T-cell mediated immunity

3

0.79

4.58E-02

 

   Granulocyte-mediated immunity

2

0.26

2.86E-02

 

Blood circulation and gas exchange activity

    

   Other blood circulation and gas exchange activity

2

0.07

2.56E-03

 

Nucleoside. nucleotide and nucleic acid metabolism

    

   Chromatin packaging and remodeling

5

0.97

3.01E-03

 

Protein metabolism and modification

    

   Proteolysis

10

3.93

6.08E-03

 

   Protein glycosylation

3

0.79

4.52E-02

 

Developmental processes

    

   Skeletal development

3

0.50

1.43E-02

 

Amino acid metabolism

4

0.94

1.51E-02

 

Cell structure and motility

    

   Cell motility

5

1.44

1.51E-02

 

Oncogenesis

    

   Other oncogenesis

2

0.28

3.29E-02

 

Intracellular signaling cascade

    

   NF-kappaB cascade

2

0.29

3.46E-02

 

Carbohydrate metabolism

    

   Pentose-phosphate shunt

1

0.04

4.01E-02

 

Lipid. fatty acid and steroid metabolism

    

   Fatty acid metabolism

3

0.76

4.19E-02

 

Homeostasis

3

0.80

4.70E-02

 

   Growth factor homeostasis

1

0.03

2.82E-02

 

   Other homeostasis activities

2

0.28

3.29E-02

 

MOLECULAR FUNCTIONS

    

Nucleic acid binding

    

   Histone

5

0.35

3.08E-05

4.96E-03

Extracellular matrix

7

1.57

1.06E-03

3.08E-02

   Extracellular matrix glycoprotein

4

0.45

1.18E-03

 

   Other extracellular matrix

2

0.15

1.03E-02

 

Signaling molecule

10

3.25

1.60E-03

4.65E-02

   Chemokine

2

0.22

2.09E-02

 

Transferase

9

   

   Transaldolase

1

0.00

4.08E-03

 

Protease

6

2.28

2.72E-02

 

   Serine protease

4

0.77

7.79E-03

 

Select calcium binding protein

4

1.12

2.65E-02

 

   Annexin

2

0.29

3.46E-02

 

Miscellaneous function

 

.0

  

   Storage protein

1

0.04

3.61E-02

 

   Myelin protein

1

0.05

4.79E-02

 

PATHWAYS

    

Glutamine glutamate conversion

1

0.02

2.78E-05

2.02E-02

Blood coagulation

2

0.22

2.46E-02

2.17E-02

  1. • Number of genes. in the dataset of 103 genes, that map to the indicated Panther classification categories
  2. •• Expected number of genes in the dataset of 103, based on the NCBI reference list of human genome
  3. ••• p-value as determined by the binomial statistic. A cutoff of 0.05 has been applied
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BMC Genomics

ISSN: 1471-2164

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