Skip to main content

Table 3 Ranking improvement for cancer-related KEGG signaling pathways with DS

From: THINK Back: KNowledge-based Interpretation of High Throughput data

Dataset

#Pways

GSA-DS

LRpath-DS

GSEA-DS

  

0 - 10

> 10

TOTAL

0 - 10

> 10

TOTAL

0 - 10

> 10

TOTAL

Breast GSE-2990

18

8

5

13

7

8

15

6

7

13

Breast GSE-3494

18

9

5

14

8

5

13

10

5

15

Lung Boston

18

4

4

8

4

9

13

5

6

11

Lung Michigan

18

6

7

13

4

6

10

7

7

14

AVERAGE

7

5

12

6

7

13

7

6

13

  1. This table presents the summary of improvement in rankings for 19 cancer-related KEGG signaling pathways, when using the DS-adjusted methods. We can observe that out of these 19 cancer-related pathways, DS-adjusted methods improve the rankings of more than half of the pathways, with LRpath-DS showing average improvements in the rankings of 78% of the mentioned signaling pathways. We also differentiate between large ranking improvements (greater than 10 ranks), and observe that GSEA-DS has an average rank improvement greater than ten ranks in 69% of the studied pathways.