Background
Methods
Microarray data
Comparative analysis of chronic and refractory periodontitis samples from blood and saliva
Data preprocessing and identification of differentially expressed genes (DEGs)
Functional enrichment analysis of DEGs
Pathway analysis of DEGs
Searching for significantly associated microRNAs
Results
Identification of DEGs
Functional enrichment analysis of DEGs
a) Blood-chronic | ||
Term | Count |
P-value |
GO:0006414 ~ translational elongation | 11 | 8.07E-11 |
GO:0006412 ~ translation | 13 | 9.52E-08 |
GO:0006968 ~ cellular defense response | 6 | 1.42E-05 |
b) Blood-refractory | ||
Term | Count |
P-value |
GO:0006955 ~ immune response | 4 | 3.16E-02 |
c) Saliva-chronic | ||
Term | Count |
P-value |
GO:0042981 ~ regulation of apoptosis | 12 | 2.64E-03 |
GO:0043067 ~ regulation of programmed cell death | 12 | 2.85E-03 |
GO:0010941 ~ regulation of cell death | 12 | 2.93E-03 |
GO:0008202 ~ steroid metabolic process | 6 | 3.90E-03 |
d) Saliva-refractory | ||
Term | Count |
P-value |
GO:0010033 ~ response to organic substance | 5 | 8.71E-03 |
GO:0009617 ~ response to bacterium | 3 | 2.13E-02 |
GO:0019439 ~ aromatic compound catabolic process | 2 | 2.34E-02 |
GO:0008286 ~ insulin receptor signaling pathway | 2 | 4.29E-02 |
GO:0045787 ~ positive regulation of cell cycle | 2 | 6.54E-02 |
Pathway analysis of DEGs
a) Blood-chronic | |
Pathway |
P-value |
hsa03010:Ribosome | 2.24E-10 |
hsa05332:Graft-versus-host disease | 3.06E-02 |
b) Blood-refractory | |
Pathway |
P-value |
hsa04514:Cell adhesion molecules (CAMs) | 6.35E-03 |
hsa05330:Allograft rejection | 3.49E-02 |
hsa05332:Graft-versus-host disease | 3.78E-02 |
hsa04940:Type I diabetes mellitus | 4.06E-02 |
hsa05320:Autoimmune thyroid disease | 4.92E-02 |
c) Saliva-chronic | |
Pathway |
P-value |
hsa04612:Antigen processing and presentation | 1.24E-02 |
d) Saliva-refractory | |
Pathway |
P-value |
hsa00380:Tryptophan metabolism | 4.63E-02 |
hsa04960:Aldosterone-regulated sodium reabsorption | 4.74E-02 |
MiRNA-target gene analysis
a) Blood chronic | |||
MiRNA | ID |
P-value | Target genes |
hsa_CTTGTAT,MIR-381 | DB_ID:731 | 4.20E-02 | ETS1, MTSS1 |
hsa_TGTGTGA,MIR-377 | DB_ID:845 | 4.07E-02 | CD24, ETS1 |
hsa_CAGCAGG,MIR-370 | DB_ID:682 | 2.73E-02 | SLAMF6, MTSS1 |
hsa_ATACTGT,MIR-144 | DB_ID:702 | 4.47E-02 | ETS1, ALDH1A3 |
b) Saliva chronic | |||
MiRNA | ID |
P-value | Target genes |
hsa_ATGTTTC,MIR-494 | DB_ID:782 | 4.80E-03 | ING3, CCND2, SYNE2 |
hsa_ACCATTT,MIR-522 | DB_ID:749 | 4.80E-03 | ING3, YWHAZ, CCND2 |
hsa_AGGTGCA,MIR-500 | DB_ID:827 | 1.64E-02 | CREB1, POFUT1 |
hsa_AGGGCAG,MIR-18A | DB_ID:668 | 3.35E-02 | YWHAZ, CREB1 |
hsa_TAATGTG,MIR-323 | DB_ID:724 | 4.38E-02 | CREB1, TGFA |