Integration of Genome-Wide DNA Methylation and Transcription Uncovered Aberrant Methylation-Regulated Genes and Pathways in the Peripheral Blood Mononuclear Cells of Systemic Sclerosis

Table 2

Differentially expressed gene family in PBMC of SSc patients.

		Gene family	Genes
Down-regulated	NK cell associated gene family	Cluster of differentiation (CD)	CD2, CD96, CD 160
		Killer cell lectin like receptors, pseudogene	KLRB1, KLRC1, KLRC2, KLRC3, KLRD1, KLRF1, KLRG1
		Killer cell immunoglobulin like receptors	KIR2DL3, KIR2DL5A, KIR2DS1, KIR2DS3, KIR2DS4, KIR3DL1
		Natural cytotoxicity triggering receptor 3	NCR3
		Natural killer cell triggering receptor	NKTR
		Perforin 1	PRF1
Up-regulated	Interferon-induced genes	Interferon, alpha-inducible protein 27	IFI27
		Interferon, gamma-inducible protein 30	IFI30
		Interferon induced protein 35	IFI35
		Interferon induced transmembrane protein 3	IFITM3
		Janus kinase 1	JAK1
		Ribonuclease A family member	RNASE I, II, III
		S100 calcium binding protein A11	S100A11
		Signal transducer and activator of transcription 4	STAT4
	Complement component	Complement component	C1QA, C1QB, C1QC, C2, C3AR1, C5AR1
	-defensin	Defensin α	DEFA1, DEFA1B, DEFA3

These CD molecules are also found in T cells.