Table 3.

Functional Grouping of Genes Identified by Affymetrix Analyses

Functional relevance of regulated genes	Gene	Description	Public ID	Fold changea
				PHH1b	PHH2b	PHH3b
Positive APR
Major APR	CRPc	C-reactive protein, pentraxin-related	NM_000567	9.2 I	45 I	512 I
	SAA1	Serum amyloid 1	NM_000331	2 I	4.3 I	2.5 I
	SAA2	Serum amyloid 2	NM_030754	2.3 I	11.3 I	3 I
	APCS	Amyloid P component, serum	NM_001639	2 I	2.5 I	1.6 I
Coagulation proteins	FGA	Fibrinogen alpha chain	NM_000508	2.6 I	7.5 I	4.6 I
	FGB	Fibrinogen beta chain	NM_005141	1.6 I	2.1 I	1.7 I
	FGG	Fibrinogen gamma chain	NM_000509	1.7 I	2.3 I	1.6 I
	FGL-1	Fibrinogen-like protein	NM_004467	2.3 I	2.5 I	2.5 I
Metal-binding proteins	HP	Haptoglobin	NM_005143	1.9 I	1.7 I	2 I
	HPR	Haptoglobin-related protein	NM_020995	2.6 I	1.7 I	2.3 I
	Mn-SODc	Superoxide dismutase 2, mitochondrial	NM_000636	2 I	3.7 I	4.3 I
Proteinase inhibitors	SERPINA 1	Serpin peptidase inhibitor, clade A, member 1, anti-trypsin	NM_000295	1.8 I	1.4 I	1.9 I
	SERPINA 3	Serpin peptidase inhibitor, clade A, member 3, anti-trypsin	NM_001085	2.1 I	2.2 I	2 I
Complement proteins	C4A	Complement component 4A	NM_007293	2.8 I	nc	3 I
	C9	Complement component 9	NM_001737	3.2 I	3.7 I	16 I
Other proteins	LBP	Lipopolysaccharide-binding protein	NM_004139	4.3 I	8 I	9.2 I
	ORM1	Orosomucoid 1	NM_000607	2.7 I	2.3 I	3.2 I
	ORM2	Orosomucoid 2	NM_000608	2.3 I	1.8 I	5.3 I
Negative APR	ALB	Albumin	NM_000477	nc	–2.5 D	–1.6 D
	ITIH2	Interalpha (globulin) inhibitor H2	NM_002216	nc	–2 D	–2.5 D
	HRG	Histidine-rich protein	NM_000412	nc	–6.1 D	–1.5 D
Chemokines	CXCL1	Chemokine (C-X-C motif) ligand 1	NM_001511	2.9 I	15.3 I	33 I
	CXCL2	Chemokine (C-X-C motif) ligand 2	NM_002089	1.5 I	82 I	8 I
	CXCL5	Chemokine (C-X-C motif) ligand 5	NM_002994	nc	9.2 I	7 I
	CXCL6	Chemokine (C-X-C motif) ligand 6	NM_002993	1.7 I	13.3 I	29 I
	CCL2c	Chemokine (C-C motif) ligand 2	NM_002982	5.9 I	11.9 I	19.3 I
	CCL20	Chemokine (C-C motif) ligand 20	NM_004591	1.7 I	26.7 I	6.7 I
Apoptosis
Negative regulators	cIAP2	cIAP2 apoptosis inhibitor 2, Birc3	NM_001165	nc	4.9 I	4.6 I
	IER3	Immediate early response 3	NM_003897	nc	4.4 I	1.9 I
	TNFAIP8	Tumor necrosis factor-α–induced protein 8, FLIP-like, SCC-S2	NM_014350	nc	2.5 I	2.3 I
	Mn-SOD	Superoxide dismutase 2, mitochondrial	NM_000636	2 I	3.7 I	4.3 I
	PBEF1	Pre–B-cell colony enhancing factor 1	NM_005746	nc	2.3 I	3.3 I
	CRP	C-reactive protein, pentraxin-related	NM_000567	9.2 I	45 I	512 I
	IL-8	Interleukin 8	NM_000584	nc	21 I	8 I
	CCL2	Chemokine (C-C motif) ligand 2	NM_002982	5.9 I	11.9 I	19.3 I
	IGFBP1	Insulin-like growth factor binding protein 1	NM_000596	nc	113.8 I	4.3 I
Positive regulators	APOEc	Apolipoprotein E	NM_000041	nc	–10.5 D	–2.7 D
	CASP4	Caspase 4	NM_001225	nc	3.6 I	1.8 I
Metabolism
Antioxidant proteins	Mn-SOD	Superoxide dismutase 2, mitochondrial	NM_000636	2 I	3.7 I	3.7 I
	GPX2	Glutathione peroxidase 2	NM_002083	5.1 I	3.1 I	6.1 I
	CP	Ceruloplasmin (ferroxidase)	NM_000096	nc	4.8 I	7 I
Xenobiotic metabolism proteins	CYP3A4c	Cytochrome P450, Family 3, subfamily A, polypeptide 4	NM_000776	–2.8 D	–6.5 D	–7 D
	UGT2B15	UDP glucuronosyltransferase 2 family, polypeptide B15	NM_001076	–2.3 D	–16 D	–13 D
	UGT2B28	UDP glucuronosyltransferase 2 family, polypeptide B28	NM_053039	nc	–6.4 D	–2.5 D
Oxydoreductases and electron transport proteins	CYP3A4	Cytochrome P450, Family 3, subfamily A, polypeptide 4	NM_000776	–2.8 D	–6.5 D	–7 D
	CYP3A7	Cytochrome P450, Family 3, subfamily A, polypeptide 7	NM_000765	–1.6 D	–2.5 D	–2 D
	CYP2C8	Cytochrome P450, Family 2, subfamily C, polypeptide 8	NM_030878	–1.6 D	–8 D	–4.4 D
	CYP2A6	Cytochrome P450, Family 2, subfamily A, polypeptide 6	NM_000762	nc	–4.9 D	–6.1 D
	CYP2C9	Cytochrome P450, Family 2, subfamily C, polypeptide 9	NM_000771	–2 D	–3.5 D	–5.7 D
	CYP2C19	Cytochrome P450, Family 2, subfamily C, polypeptide 19	NM_000769	–1.7 D	–5.3 D	–1.9 D
	GRHPR	Glyoxylate reductase, hydroxypyruvate reductase	NM_012203	nc	–2.5 D	–2.8 D
	ACADL	Acyl-coenzyme A dehydrogenase, long chain	NM_001608	–1.7 D	–2.6 D	–2 D
	BDH	3-hydroxybutyrate dehydrogenase	NM_004051	nc	–1.9 D	–5.5 D
Lipid metabolism and transport proteins	APOE	Apolipoprotein E	NM_000041	nc	–10.5 D	–2.7 D
	ACADL	Acyl-coenzyme A dehydrogenase, long chain	NM_001608	–1.7 D	–2.6 D	–2 D
	CYP3A4	Cytochrome P450, Family 3, subfamily A, polypeptide 4	NM_000776	–2.8 D	–6.5 D	–7 D
	AKR1B10	Aldo-keto reductase family 7, member B10	NM_020299	–3 D	–1.4 D	–4 D

APR, acute phase response; HBV, hepatitis B virus; PHH, primary human hepatocyte.

^aincreased (I), decreased (D), or no change (nc) in gene expression in HBV-infected PHH compared to mock-infected cells.

^bPHH prepared from different patients (1-3).

^cDue to the dual functions, some of genes are listed twice.