Table 3

State vectors used for reconstructing the phosphate regulatory network

Exp. #

1

2

3

4

5

6

7

8

State vectors (compiled from time-series)

Vector #

0

1

2

3

4

5

6

7

8

9

10

11

12

13

14

15

16

17

18

19

20

21

22

23

24

25

26

27

28

29

30

31

32

33

34


pi-pp

1

0

0

0

0

0

0

0

1

1

1

1

0

0

0

0

0

0

0

0

0

0

0

0

0

0

0

0

0

1

0

0

0

0

0

pi-cp

0

1

1

1

1

1

1

1

1

1

1

1

0

0

0

0

0

0

0

0

0

0

0

0

0

0

0

0

0

0

0

0

0

0

0

po-pp

1

1

1

1

1

1

1

1

0

0

0

0

0

0

0

0

0

0

0

0

0

1

1

1

1

1

1

0

1

1

0

0

0

0

0

Pst-P

1

1

0

0

0

0

0

0

0

1

1

1

1

0

0

0

0

0

0

0

0

1

0

0

0

0

0

0

0

0

1

0

1

0

0

Pst

0

0

1

1

1

1

1

1

1

0

0

0

0

1

1

1

1

1

1

1

1

0

1

1

1

1

1

0

0

0

0

1

0

1

1

PhoU-I

1

1

1

0

0

0

0

0

0

0

1

1

1

1

0

0

0

0

0

0

0

1

1

0

0

0

0

1

1

1

0

0

1

1

0

PhoU-A

0

0

0

1

1

1

1

1

1

1

0

0

0

0

1

1

1

1

1

1

1

0

0

1

1

1

1

0

0

0

0

0

0

0

1

PhoR

1

1

1

1

0

1

1

1

1

1

1

1

1

1

1

0

1

1

1

1

0

1

1

1

0

1

0

1

1

1

1

1

0

0

0

PhoR-P

0

0

0

0

1

0

0

0

0

0

0

0

0

0

0

1

0

0

0

0

1

0

0

0

1

0

1

0

0

0

0

0

0

0

0

PhoR-S

1

1

1

1

1

1

1

1

1

1

1

1

1

1

1

1

1

1

1

1

1

1

1

1

1

1

1

1

1

1

1

1

1

1

1

PhoB

1

1

1

1

1

0

0

0

0

0

0

1

1

1

1

1

0

0

0

0

0

1

1

1

1

0

0

1

1

1

1

1

1

1

1

PhoB-P

0

0

0

0

0

1

1

1

1

1

1

0

0

0

0

0

1

1

1

1

1

0

0

0

0

1

1

0

0

0

0

0

0

0

0

PhoB-S

1

1

1

1

1

1

1

1

1

1

1

1

1

1

1

1

1

1

1

1

1

1

1

1

1

1

1

1

1

1

1

1

1

1

1

PhoA-T

1

1

1

1

1

1

1

1

1

1

1

1

1

1

1

1

1

1

1

1

1

0

0

0

0

0

0

1

1

1

1

1

1

1

1

PhoA

0

0

0

0

0

0

1

0

0

0

0

0

0

0

0

0

0

1

0

1

1

0

0

0

0

0

0

0

0

0

0

0

0

0

0

PhoA-pp

0

0

0

0

0

0

0

1

1

1

1

1

0

0

0

0

0

0

1

1

1

0

0

0

0

0

0

0

0

0

0

0

0

0

0


Term. state

T

T

T

T

T

T

T


States are assigned to the experiments during which they occurred. The state vectors of experiments 1 to 8 are shown in this table, the state vectors of experiments 9 to 11 are shown in Table 4. States of Pst, PhoU, PhoR, and PhoB were considered as P-invariants. Phosphate, PhoR, PhoRP and the cytoplasmic PhoA protein were excluded as catalytic factors based on biological knowledge.

Durzinsky et al. BMC Systems Biology 2011 5:113   doi:10.1186/1752-0509-5-113

Open Data