Table 4 Summary of biological processes and associated genes reported in the included studies : Genomic analyses of early peri-implant bone healing in humans: a systematic review

author: Siddharth Shanbhag, Vivek Shanbhag, Andreas Stavropoulos | publisher: drg. Andreas Tjandra, Sp. Perio, FISID

Process	Upregulated genes
Process	Category (gene code)
Inflammation/immune response
Pro-inflammatory cytokines	Tumor necrosis factor (TNF-a, TNFSF9)
	Interleukin (IL-6, IL-2, IL-1 F9, IL-23A, IL-6ST)
	Interferon (IFNA2)
	Nuclear factor-kB (I-kB kinase/NF-kB)
Anti-inflammatory cytokines	Interleukin (IL-22, IL-9)
Anti-inflammatory cytokines	Toll interacting protein (TOLLIP)
Cells	Lymphocyte, macrophage negative proliferation (BTLA, LST1)
Cells	Macrophage scavenger receptor (MSR1)
Chemotaxis	Chemokines (CCR8, CCL18, CCL22, CXCL10, CXCL14)
Osteoinduction/osteogenesis
Growth factors (GF)/signaling pathways	Insulin-like GF (IGF1)
	Transforming GF (TGF-b, TGF-b receptor 1, 2 and 3, TGF-a)
	Platelet-derived GF (PDGF receptor)
	Bone morphogenetic proteins (BMP4, BMP6, BMP receptor 1A, BMP2-K)
	Growth and differentiation factor (GDF10)
	Wnt frizzled receptor (FZD3, FZD8, FRZB)
	Notch (NOTCH2)
	Ras-protein signal transduction (RAP1B, RAP1A, RASGRP4)
	Mitogen activated protein kinase (MAP3K7IP2, MAPK9, MAP2K3, MAP3K2)
Transcription factors	‘Master switches’ [RUNX2, SP7 (OSX)]
	Homeobox (DLX1, DLX5, HOXD12, MSX1, HOXA5, HOXB1, HOXB6, HOXC6)
	SP [SP1, SP3, SP7 (Osx)]
	Twist (TWIST 1-receptor)
ECM deposition/organization	Collagen (Col1A1, Col12A1, Col6A3, Col3A1, Col6A1, Col11A1, Col11A2, Col13A1, Col5A2)
ECM deposition/organization	Non-collagen proteins [BGLAP (OC), SPARC (ON), SPP1 (OP), BSP, IBSP, POSTN, ECM1]
	Small leucine-rich proteoglycans (SLRP) (DCN, BGN, LUM)
	Heat-shock protein 47 (HSP47)
	Alkaline phosphatase (ALPL)
	Cadherin (CDH11)
	Integrin (ITGB4, ITGB5)
	Laminin (LAMA2, LAMA3)
	Pro-collagen lysyl-hydroxylase (PLOD1, PLOD2, PLOD3)
	Pro-collagen C-endopeptidase enhancer (PCOLCE)
	Lysyl-oxidase (LOX)
Osteoclast activity/remodeling	Cathepsin K (CTSK, CTSK-receptor)
	Tartarate-resistant acid phosphatase (TRAP/ACP5)
	Matrix metallopeptidase (MMP2, MMP12, MMP9, MMP7, MMP13)
	Tissue inhibitor metallopeptidase (TIMP2, TIMP3)
Angiogenesis	Vascular endothelial GF-signaling (EPAS1, ANXA2, EGR1-binding protein)
Angiogenesis	Phosphatidyl-inositol 3-kinase (PI3K)-Akt signaling
Neurogenesis	Brain-derived neurotrophic factor (BDNF)
	Neurotrophin 3 (NTF3)
	NK2 homeobox 2(NKX2-2)
	Tubby-like protein 3 (TULP3)

Table 4 Summary of biological processes and associated genes reported in the included studies

Serial posts: