. 2020 Jul 21;1(4):100054. doi: 10.1016/j.xcrm.2020.100054

Table 1.

Smoking DEGs Altered in Both scRNA-Seq and Microarray

Gene Name	DEG		Biological Process/Function/Pathway
CD8 T

granzyme B	↑	GZMB	PD-1^low⁴⁴
natural killer cell granule protein 7	↑	NKG7	PD-1^low, PD-1^high⁴⁴
perforin 1	↑	PRF1	PD-1^low, PD-1^high⁴⁴
killer cell lectin like receptor D1	↑	KLRD1	PD-1^low, PD-1^high⁴⁴
sterile α motif domain containing 3	↑	SAMD3	CD8 T tolerance⁵⁸^,⁵⁹
G protein-coupled receptor 171	↑	*GPR171*	negative regulation of myeloid differentiation⁶⁰
calpastatin	↑	CAST	PD-1^low, PD-1^high;⁴⁴ effector memory, central memory⁶¹
chromosome 1 open reading frame 21	↑	C1orf21	cytotoxic T by scRNA-seq in Crohn's disease⁵⁹
family with sequence similarity 129, member A	↑	FAM129A	PD-1^low, PD-1^high;⁴⁴ memory, effector memory, central memory⁶¹
TNF superfamily member 10	↑	TNFSF10	marker for atherosclerosis plaque formation⁶²
C-X3-C motif chemokine receptor 1	↑	CX3CR1	chemokine receptor associated with terminally differentiated effector CD8 cells⁶³
pyrin and HIN domain family member 1	↑	PYHIN1	PD-1^low, PD-1^high,⁴⁴ memory⁶¹
AT-rich interaction domain 5B	↑	ARID5B	central memory⁶¹
zinc finger E-box binding homeobox 2	↑	*ZEB2*^a	PD-1^low, PD-1^high⁴⁴
CD58 molecule	↑	CD58	PD-1^low, PD-1^high;⁴⁴ memory, effector memory, central memory⁶¹
protein kinase cAMP-dependent type I regulatory subunit α	↑	PRKAR1A	enhanced cytoxicity of effector T cells⁶⁴
acyloxyacyl hydrolase	↑	AOAH	effector memory phenotype, increase in chronic lymphocytic leukemia CD3 T cells⁶⁵
proline rich 5-like	↑	PRR5L	PD-1^low, PD-1^high;⁴⁴ effector memory, central memory⁶¹
MYB proto-oncogene like 1	↑	MYBL1	PD-1^low, PD-1^high;⁴⁴ memory, effector memory, central memory⁶¹
ATPase plasma membrane Ca²⁺ transporting 4	↑	ATP2B4	PD-1^low, PD-1^high;⁴⁴ memory, effector memory, central memory⁶¹
synaptotagmin 11	↑	SYT11	PD-1^low, PD-1^high⁴⁴
killer cell Ig-like receptor, 3 Ig domains, and long cytoplasmic tail 2	↑	KIR3DL2^a	T cell aging⁶⁶
death domain containing 1	↑	DTHD1	unknown function
fibrinogen like 2	↑	FGL2^a	replicative senescence,⁶⁷ procoagulant⁶⁸

CD4 T

leucine-rich repeat neuronal protein 3	↑	LRRN3^a	smoking methylation,⁵⁶ T cell replicative senescence⁶⁹
G protein-coupled receptor 171	↑	*GPR171*	negative regulation of myeloid differentiation⁶⁰
amyloid β precursor protein binding family A member 2	↓	APBA2	smoking methylation³⁸

NKT

prokineticin 2	↑	PROK2	inflammatory response in smoking⁷⁰ and diabetes⁷¹
MX dynamin like GTPase 1	↑	*MX1*^a	TNF-α induced cellular senescence³⁷
T cell receptor associated transmembrane adaptor 1	↑	TRAT1	leukocyte activation⁷²
killer cell lectin like receptor B1	↓	*KLRB1*^a	downregulated in human aged CD4⁺ memory T cells⁶⁶

NK

MX dynamin like GTPase 1	↑	*MX1*^a	TNF-α induced cellular senescence³⁷
dedicator of cytokinesis 5	↑	DOCK5^a	upregulated in CD57⁺ NK⁷³
chondroitin sulfate N-acetylgalactosaminyltransferase 1	↑	CSGALNACT1	positively correlated with smoking⁷⁴
CD160 molecule	↓	CD160^a	increased in exhausted T cells⁷⁵
X-C motif chemokine ligand 2	↓	XCL2	overexpressed in lung cancer tumors, increases with prognosis⁷⁶
killer cell lectin like receptor B1	↓	*KLRB1*^a	downregulated in human aged CD4⁺ memory T cells⁶⁶

Monocytes

phospholipid scramblase 1	↑	PLSCR1	expression increased with cytokine treatment⁷⁷
GTPase, IMAP family member 4	↑	GIMAP4	regulates INF-γ in CD4 T cell differentiation⁷⁸
MX dynamin like GTPase 1	↑	*MX1*^a	TNF-α-induced cellular senescence³⁷
MX dynamin like GTPase 2	↑	MX2^a	TNF-α-induced cellular senescence³⁷
poly(ADP-ribose) polymerase family member 9	↑	PARP9	silences pro-inflammatory genes, found in atherosclerotic plaques⁴¹
cystatin C	↑	CST3^a	atherosclerosis,³⁸ cellular senescence³⁹
sterile α motif domain containing 9	↑	SAMD9	anti-inflammatory factor⁷⁹
TNF superfamily member 13b	↑	TNFSF13B	regulates proliferation and differentiation of atherogenic B cells⁴⁰
Cysteine-rich secretory protein LCCL domain containing 2	↑	CRISPLD2	regulates anti-inflammatory effects⁸⁰
erythrocyte membrane protein band 4.1-like 3	↑	EPB41L3	positively correlated smoking gene and associated with cancer⁷⁴
heat shock protein family A (Hsp70) member 1B	↑	HSPA1B	overexpressed in advanced atherosclerosis⁴²
thrombospondin 1	↑	THBS1	regulation of monocyte mobility, vascular inflammation⁸¹
IFN-induced protein with tetratricopeptide repeats 5	↑	IFIT5^a	up in TNF-α-mediated cellular senescence³⁷
formyl peptide receptor 2	↑	FPR2	increased in atherosclerotic lesions and plaque stability⁴³
IFN induced with helicase C domain 1	↑	IFIH1^a	up in TNF-α-mediated cellular senescence³⁷

B

major histocompatibility complex, class II, DQ α 1	↓	HLA-DQA1	presents peptides from extracellular protein in T cells⁸²

cAMP, cyclic AMP; CLL, XX; DEG, differentially expressed gene; GTPase, guanosine triphosphatase; INF, interferon; TNF, tumor necrosis factor.

Gene associated with cellular senescence.