Table 1

Overall path statistics on pathways. The table shows the top-ranked pathways from the NCI PID database [12] when sorting paths by the maximum number of non-targeted paths that also contain siRNA genes after applying a filter to only include pathways with alternative paths that contain at least one HIV-1 target, at least one drug target and at least one si-RNA target.

Pathway Name

Number of end points

Number of paths

Non-targeted

Number of proteins

SiRNA

Group 1

Group 2

Predicted

Expert validated targets 1

Expert validated targets 2

Non-targeted

+ SiRNA genes

Number of drug targets


Activated AMPK stimulates fatty acid oxidation in muscle

6

17

16

5

1

1

1

1

0

0

4

2

1Generation of second

Messenger molecules

8

34

30

12

2

7

7

9

2

1

2

3

Phosphorylation of Emi1

3

10

8

4

1

1

2

2

0

0

2

1

Activation of BAD and

translocation to mitochondria

2

8

3

7

1

1

7

4

0

0

1

2

Mitotic Prometaphase

2

4

2

78

12

4

5

10

1

0

1

1

Polo like kinase mediated events

3

6

2

4

1

2

1

3

2

0

1

1

Notch HLH transcription

2

11

5

3

1

2

1

3

0

0

1

1

Global Genomic NER

GG NER

10

13

9

20

5

10

7

13

1

0

1

1

Intrinsic Pathway

2

4

4

17

2

4

2

5

0

0

0

10

Orc1 removal from

Chromatin

3

11

1

57

13

43

0

54

1

1

0

8

...

2Cholesterol biosynthesis

7

140

140

8

1

0

0

1

0

0

7

2

3EGFR downregulation

12

88

5

17

4

6

4

11

3

1

0

4


1Ranked 177th in Figure 2 and shown in Figures 3 and 4.

2Ranked 673rd in Figure 2 and shown in Figure 6.

3Ranked 185th in Figure 2 and shown in Figure 5C.

Balakrishnan et al. BMC Genomics 2009 10(Suppl 3):S30   doi:10.1186/1471-2164-10-S3-S30

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