Table 2

KEGG pathways enriched by DEGs, all DEmiRNA target genes and all DEmiRNA target DEGs.

All DEGs

All DEmiRNA predicted targets

DEGs that are DEmiRNA predicted targets


KEGG pathway

Up-regulated DEGs

Down-regulated DEGs

All targets of down-regulated DEmiRNAs

All targets of up-regulated DEmiRNAs

DEG targets of down-regulated DEmiRNAs

DEG targets of up-regulated DEmiRNAs


Signal Transduction

Calcium signaling pathway

4.0E-01

1.0E + 00

4.6E-04

2.7E-03

4.1E-02

9.5E-01

ErbB signaling pathway

3.4E-01

3.5E-01

9.3E-05

6.4E-08

1.3E-01

4.2E-01

Hedgehog signaling pathway

4.2E-02

4.7E-01

2.8E-02

6.2E-04

8.1E-03

6.1E-01

Jak-STAT signaling pathway

6.0E-01

3.9E-01

7.6E-02

7.6E-02

1.0E-01

2.5E-01

MAPK signaling pathway

2.0E-01

9.5E-02

1.7E-08

1.3E-16

1.3E-01

1.6E-01

mTOR signaling pathway

5.3E-01

2.0E-01

1.1E-02

2.6E-07

1.0E + 00

5.3E-02

Notch signaling pathway

7.2E-02

1.6E-01

1.4E-01

5.4E-03

2.9E-01

5.4E-01

Phosphatidylinositol signaling system

2.5E-01

8.6E-01

8.2E-05

3.9E-06

1.1E-01

3.6E-01

TGF-beta signaling pathway

3.4E-01

5.5E-01

4.3E-08

1.9E-06

4.8E-01

1.0E + 00

VEGF signaling pathway

2.5E-01

1.2E-01

7.4E-02

2.2E-03

4.3E-01

3.6E-02

Wnt signaling pathway

4.9E-03

7.4E-03

1.4E-05

1.3E-14

7.2E-04

3.3E-03


Signaling Molecules and interactions

Cell adhesion molecules (CAMs)

8.1E-02

9.4E-01

8.4E-01

2.9E-01

7.4E-02

6.5E-01

ECM-receptor interaction

5.7E-07

9.0E-01

2.7E-04

9.3E-06

3.1E-03

1.0E + 00


Behavior

Circadian rhythm - mammal

1.0E + 00

1.1E-01

3.1E-02

1.6E-02

1.0E + 00

1.9E-01


Cell Communication

Adherens junction

1.2E-01

9.7E-01

1.1E-04

1.1E-09

4.3E-01

1.0E + 00

Focal adhesion

9.6E-09

5.5E-01

1.4E-07

8.8E-17

3.1E-03

8.5E-01

Gap junction

3.7E-01

1.0E + 00

1.1E-02

4.7E-06

2.8E-02

1.0E + 00

Tight junction

4.7E-01

3.9E-01

8.3E-03

3.9E-06

6.3E-01

1.8E-01


Cell Growth and Death

Apoptosis

8.1E-01

4.4E-02

2.7E-02

6.5E-03

1.0E + 00

4.3E-01

Cell cycle

9.4E-01

3.5E-01

7.3E-03

1.4E-01

6.2E-01

8.9E-01

p53 signaling pathway

6.8E-01

8.6E-02

1.5E-02

4.4E-03

4.0E-01

3.1E-01


Cell Motility

Regulation of actin cytoskeleton

1.9E-01

5.0E-01

2.2E-05

1.4E-12

4.7E-01

4.8E-01


Circulatory System

Vascular smooth muscle contraction

5.6E-06

1.0E + 00

3.0E-03

1.0E-03

1.6E-04

1.0E + 00


Development

Axon guidance

6.8E-02

6.9E-01

1.2E-08

3.9E-15

6.7E-02

3.6E-01

Dorso-ventral axis formation

5.8E-01

1.0E + 00

4.0E-04

1.3E-02

1.0E + 00

1.0E + 00


Endocrine System

Adipocytokine signaling pathway

3.9E-01

1.5E-04

2.0E-02

2.3E-05

3.9E-01

7.4E-04

GnRH signaling pathway

2.6E-01

4.8E-01

4.8E-03

1.6E-04

3.8E-02

2.4E-01

Insulin signaling pathway

2.2E-03

1.9E-02

2.6E-03

7.0E-11

7.9E-02

2.5E-02

Melanogenesis

6.8E-01

9.9E-01

2.9E-03

1.2E-06

1.7E-01

8.2E-01

PPAR signaling pathway

1.0E + 00

1.9E-01

6.6E-01

8.1E-01

1.0E + 00

2.6E-02


With genes in each module of the network, pathway enrichment analysis was performed using one-sided Fisher exact test. The significance level of p-value is represented by regular (0.01~0.1), bold (0.0001~0.01) and bold-italic (<0.0001) fonts.

Cho et al. BMC Medical Genomics 2011 4:8   doi:10.1186/1755-8794-4-8

Open Data