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Table 1 Proportion of Hepatitis C virus-binding proteins in top ranked gene seeds

From: Dynamic protein interaction modules in human hepatocellular carcinoma progression

Top levela

Gene set

HCC transitionb

  

N-C

C-D

D-E

E-A

0.1%

DEG

0/11

1/11

0/11

1/11

 

DCG

7/63*

9/65***

10/60***

4/63

0.5%

DEG

3/55

2/55

2/55

4/55

 

DCG

25/290***

36/279***

27/287***

27/288***

1.0%

DEG

6/110

3/110

5/110

6/110

 

DCG

47/524***

51/538***

36/523***

41/559***

  1. In each cell, the proportion is shown as ″x/y″, with y for top-ranked genes and × for genes of interest. Enrichment p-value < 0.01 (*) or < 0.0001 (***) are marked.
  2. aTop-level is the fraction of the top-ranked genes/pairs in the total network nodes/edges. For differential expression genes (DEG), we used the node-wise fraction; for differential co-expression genes (DCGs) deriving from pairs, we used the edge-wise fraction. A same fraction of pairs involve a greater number of genes.
  3. bTransition names: Normal to Cirrhosis (N-C), Cirrhosis to Dysplasia (C-D), Dysplasia to Early HCC (D-E), and Early HCC to Advanced HCC (E-A).