Background
Methods
Data source
Data preprocessing and differentially expressed genes (DEGs) screening
Functional annotation and pathway enrichment of DEGs
Construction of protein-protein interaction (PPI) network
Module detection
Transcription regulatory network
Results
Identification of DEGs
Functional analysis and pathway enrichment for DEGs
GO-ID | Description | Counts |
P value |
---|---|---|---|
Up-regulated genes | |||
GO:0009611 | Response to wounding | 23 | 3.65E−09 |
GO:0006952 | Defense response | 20 | 1.82E−07 |
GO:0006954 | Inflammatory response | 15 | 2.29E−07 |
GO:0010033 | Response to organic substance | 29 | 2.52E−06 |
GO:0000267 | Cell fraction | 30 | 6.97E−06 |
GO:0042330 | Taxis | 9 | 5.29E−06 |
GO:0006935 | Chemotaxis | 9 | 5.29E−06 |
Down-regulated genes | |||
GO:0019935 | Cyclic-nucleotide-mediated signaling | 11 | 3.49E−05 |
GO:0031410 | Cytoplasmic vesicle | 27 | 3.23E−04 |
GO:0051046 | Regulation of secretion | 16 | 2.58E−04 |
GO:0031982 | Vesicle | 28 | 3.44E−04 |
GO:0019932 | Second-messenger-mediated signaling | 13 | 2.80E−04 |
GO:0007187 | G-protein signaling, coupled to cyclic nucleotide second messenger | 9 | 3.04E−04 |
GO:0031988 | Membrane-bounded vesicle | 25 | 4.69E−04 |
GO:0016023 | Cytoplasmic membrane-bounded vesicle | 24 | 6.11E−04 |
GO:0044421 | Extracellular region part | 29 | 6.64E−04 |
Term | Count |
P value |
---|---|---|
Up DEGs | ||
rno04020: Calcium signaling pathway | 10 | 0.001065 |
rno04080: Neuroactive ligand-receptor interaction | 12 | 0.001143 |
rno04610: Complement and coagulation cascades | 6 | 0.003097 |
rno04062: Chemokine signaling pathway | 7 | 0.034971 |
rno05322: Systemic lupus erythematosus | 5 | 0.039347 |
rno04620: Toll-like receptor signaling pathway | 5 | 0.039347 |
Down DEGs | ||
rno05200: Pathways in cancer | 15 | 0.008138 |
rno04020: Calcium signaling pathway | 10 | 0.016627 |
rno04340: Hedgehog signaling pathway | 5 | 0.025443 |
rno04010: MAPK signaling pathway | 12 | 0.028372 |
Construction of PPI network
Significant module analysis
GO-ID |
P value | corr P value |
x
| Description |
---|---|---|---|---|
Module A | ||||
19934 | 1.47E−06 | 8.16E−04 | 2 | cGMP-mediated signaling |
6916 | 7.95E−06 | 2.21E−03 | 3 | Anti-apoptosis |
48856 | 6.61E−05 | 8.68E−03 | 5 | Anatomical structure development |
43066 | 1.13E−04 | 8.68E−03 | 3 | Negative regulation of apoptosis |
43069 | 1.17E−04 | 8.68E−03 | 3 | Negative regulation of programmed cell death |
1936 | 1.19E−04 | 8.68E−03 | 2 | Regulation of endothelial cell proliferation |
51239 | 1.26E−04 | 8.68E−03 | 4 | Regulation of multicellular organismal process |
60548 | 1.31E−04 | 8.68E−03 | 3 | Negative regulation of cell death |
10646 | 1.49E−04 | 8.68E−03 | 4 | Regulation of cell communication |
32502 | 1.56E−04 | 8.68E−03 | 5 | Developmental process |
Module B | ||||
6811 | 2.28E−07 | 1.94E−05 | 5 | Ion transport |
6813 | 2.82E−06 | 1.20E−04 | 3 | Potassium ion transport |
55085 | 9.85E−06 | 2.79E−04 | 4 | Transmembrane transport |
15672 | 4.56E−05 | 9.69E−04 | 3 | Monovalent inorganic cation transport |
51899 | 6.14E−05 | 1.01E−03 | 2 | Membrane depolarization |
6810 | 7.76E−05 | 1.01E−03 | 5 | Transport |
51234 | 8.34E−05 | 1.01E−03 | 5 | Establishment of localization |
30001 | 1.42E−04 | 1.50E−03 | 3 | Metal ion transport |
51179 | 1.67E−04 | 1.58E−03 | 5 | Localization |
6812 | 2.86E−04 | 2.43E−03 | 3 | Cation transport |
Module C | ||||
35023 | 3.21E−08 | 7.84E−06 | 4 | Regulation of Rho protein signal transduction |
46578 | 6.27E−07 | 5.06E−05 | 4 | Regulation of Ras protein signal transduction |
6917 | 8.14E−07 | 5.06E−05 | 4 | Induction of apoptosis |
12502 | 8.29E−07 | 5.06E−05 | 4 | Induction of programmed cell death |
51056 | 1.58E−06 | 7.73E−05 | 4 | Regulation of small GTPase-mediated signal transduction |
8624 | 2.74E−06 | 1.12E−04 | 3 | Induction of apoptosis by extracellular signals |
43065 | 6.29E−06 | 1.59E−04 | 4 | Positive regulation of apoptosis |
43068 | 6.50E−06 | 1.59E−04 | 4 | Positive regulation of programmed cell death |
6915 | 6.64E−06 | 1.59E−04 | 4 | Apoptosis |
10942 | 7.15E−06 | 1.59E−04 | 4 | Positive regulation of cell death |