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Table 3 Discriminative reactions from a t-test. .

From: Using gene expression data and network topology to detect substantial pathways, clusters and switches during oxygen deprivation of Escherichia coli

Rank

Reaction

Regulation

P-value

Found also with our technique

1

formate hydrogenlyase complex

1

2.99E-19

Yes

2

FocA formate FNT transporter

1

3.18E-16

Yes

3

pyruvate formate-lyase

1

7.29E-15

Yes

4

aminomethyltransferase

-1

3.33E-14

Yes

5

gcv system

-1

1.67E-12

Yes

6

3-methyl-2-oxobutanoate hydroxymethyltransferase

1

3.92E-12

Yes

7

glycine dehydrogenase (decarboxylating)

-1

5.52E-12

Yes

8

PFL-deactivase

1

2.01E-11

Yes

9

acetaldehyde dehydrogenase

1

2.01E-11

Yes

10

pyruvate kinase

1

2.55E-11

No

11

fumarate reductase

1

2.69E-11

Yes

12

enolase

1

2.87E-11

Yes

13

N-acetylmuramyl-L-alanine amidase

1

3.10E-11

No

14

formate dehydrogenase

1

3.30E-11

Yes

15

glutamate dehydrogenase (NADP+)

1

4.21E-11

No

16

mannonate dehydratase

-1

7.97E-11

Yes

17

pyruvate formate-lyase activating enzyme

1

1.91E-10

Yes

18

pyruvate formate-lyase activating enzyme

1

1.91E-10

Yes

19

triose phosphate isomerase

1

2.25E-10

Yes

20

glutamyl-tRNA reductase

1

3.21E-10

Yes

21

histidine-phosphate aminotransferase

1

3.35E-10

Yes

22

2-keto-4-hydroxyglutarate aldolase

1

7.98E-10

Yes

23

2-keto-3-deoxy-6-phosphogluconate aldolase

1

7.98E-10

Yes

24

oxaloacetate decarboxylase

1

7.98E-10

Yes

25

putative NAD+ kinase

1

1.29E-09

No

26

6-phosphofructokinase-1

1

1.29E-09

Yes

27

mannose-6-phosphate isomerase

1

1.37E-09

Yes

28

Outer Membrane Ferrichrome Transport System

-1

1.57E-09

Yes

29

NADH oxidoreductase

1

2.19E-09

No

30

isocitrate dehydrogenase kinase

-1

4.61E-09

Yes

31

isocitrate dehydrogenase phosphatase

-1

4.61E-09

Yes

32

RhtB homoserine Rht Transporter

1

5.70E-09

No

33

histidinol-phosphatase

1

7.39E-09

Yes

34

imidazoleglycerol-phosphate dehydratase

1

7.39E-09

Yes

35

Outer Membrane Ferric Enterobactin Transport System

-1

1.49E-08

Yes

36

phosphoenolpyruvate carboxylase

1

2.38E-08

Yes

37

tetrahydrodipicolinate succinylase

1

2.90E-08

Yes

38

imidazole glycerol phosphate synthase

1

3.36E-08

Yes

39

3-hydroxy acid dehydrogenase

1

3.59E-08

Yes

40

branched chain amino acids ABC transporter

-1

4.83E-08

Yes

  1. The 40 first ranking reactions when applying a mutant and multiple testing corrected t-test directly without any network information. Shaded rows were found only by this standard method (see text)