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Table 4 Functional and pathway enrichment analyses of upregulated genes in chronic periodontitis

From: Investigation of molecular biomarker candidates for diagnosis and prognosis of chronic periodontitis by bioinformatics analysis of pooled microarray gene expression datasets in Gene Expression Omnibus (GEO)

Category

Term

Genes

p-value

FDR (%)

GOTERM_BP_FAT

GO:0006955~immune response

CSF3, ITGAL, ST6GAL1, IGLV1–44, ENPP2, C3, TNFRSF17, SLAMF7, IGHM, CXCL12, CCL18, RGS1, FCGR2B, LAX1, FCN1, MS4A1, IL1B, IL2RG, CD79A, IGKC, FCGR3B, IGLC1

1.50E-12

2.31E-09

GOTERM_BP_FAT

GO:0046649~lymphocyte activation

ITGAL, IKZF1, LAX1, MS4A1, IRF4, CD79A, SLAMF7, CXCL12

1.69E-05

0.025995389

GOTERM_BP_FAT

GO:0001775~cell activation

ITGAL, IKZF1, LAX1, MS4A1, IRF4, CD79A, SLAMF7, ENTPD1,

2.19E-05

0.033613816

  

CXCL12

  

GOTERM_BP_FAT

GO:0006935~chemotaxis

PROK2, RAC2, ENPP2, FPR1, IL1B, CXCL12, CCL18

4.96E-05

0.07634361

GOTERM_BP_FAT

GO:0042330~taxis

PROK2, RAC2, ENPP2, FPR1, IL1B, CXCL12, CCL18

4.96E-05

0.07634361

GOTERM_BP_FAT

GO:0002684~positive regulation of immune system process

CD19, IKZF1, C3, LAX1, IL1B, IL2RG, CD79A, CXCL12

5.32E-05

0.081770006

GOTERM_BP_FAT

GO:0045321~leukocyte activation

ITGAL, IKZF1, LAX1, MS4A1, IRF4, CD79A, SLAMF7, CXCL12

5.91E-05

0.090857027

GOTERM_BP_FAT

GO:0048584~positive regulation of response to stimulus

CD19, C3, LAX1, IL1B, FABP4, CD79A, CXCL12

4.14E-04

0.635505695

GOTERM_BP_FAT

GO:0007155~cell adhesion

ITGAL, SELL, ICAM2, ICAM3, PECAM1, COL15A1, NEDD9,

5.28E-04

0.809495344

  

CLDN10, SLAMF7, ENTPD1, CXCL12

  

GOTERM_BP_FAT

GO:0022610~biological adhesion

ITGAL, SELL, ICAM2, ICAM3, PECAM1, COL15A1, NEDD9,

5.34E-04

0.818570769

  

CLDN10, SLAMF7, ENTPD1, CXCL12

  

GOTERM_BP_FAT

GO:0007626~locomotory behavior

PROK2, RAC2, ENPP2, FPR1, IL1B, CXCL12, CCL18

9.08E-04

1.387461056

GOTERM_BP_FAT

GO:0050863~regulation of T cell activation

IKZF1, LAX1, IL1B, IL2RG, IRF4

0.00138016

2.10243667

GOTERM_BP_FAT

GO:0050778~positive regulation of immune response

CD19, C3, LAX1, IL1B, CD79A

0.00301947

4.54592016

GOTERM_BP_FAT

GO:0051249~regulation of lymphocyte activation

IKZF1, LAX1, IL1B, IL2RG, IRF4

0.00325016

4.885167435

GOTERM_CC_FAT

GO:0005576~extracellular region

CSF3, COL4A2, ST6GAL1, COL4A1, IGLV1–44, ENPP2, C3, MMP7, CECR1, COL15A1, IGHM, CXCL12, CCL18, PROK2, FCN1, PECAM1, IL1B, FCRLA, IGKC, ENTPD1, FCGR3B, IGLC1, SRGN

3.24E-04

0.37812111

GOTERM_CC_FAT

GO:0044421~extracellular region part

CSF3, COL4A2, COL4A1, C3, MMP7, CECR1, COL15A1, CXCL12, CCL18, FCN1, PECAM1, IL1B, ENTPD1, SRGN

5.83E-04

0.680822917

GOTERM_MF_FAT

GO:0003823~antigen binding

IGLV1–44, FCN1, IGKC, IGHM, IGLC1

0.00152847

1.82616636

KEGG_PATHWAY

hsa04060:

Cytokine-cytokine receptor interaction

CSF3, IL10RA, CSF2RB, IL1B, TNFRSF17, IL2RG, CXCL12, CCL18

0.00241736

2.314177036

KEGG_PATHWAY

hsa04514:

Cell adhesion molecules (CAMs)

ITGAL, SELL, ICAM2, ICAM3, PECAM1, CLDN10

0.00244312

2.338574426

KEGG_PATHWAY

hsa04640:

Hematopoietic cell lineage

CSF3, CD19, MS4A1, IL1B, MME

0.00329177

3.139362079

  1. GO Gene Ontology, BP Biological Process, CC Cellular Component, MF Molecular Function
  2. KEGG Kyoto Encyclopedia of Genes and Genomes