Identification of cellular genes showing differential expression associated with hepatitis B virus infection

Table 1 Microarray and quantitative reverse transcription-polymerase chain reaction for candidate genes

No.	Genes	Microarray3		qRT-PCR4		Accession number5
		cy3/cy5	cy5/cy3	/β2M	/HPRT1
1	CSTA1	0.35	0.26	0.23	0.23	NM_005213
2	APM21	0.46	0.31	0.22	0.23	NM_006829
3	SLPI1	0.47	0.31	0.08	0.09	NM_003064
4	CTGF1	3.36	2.026	3.49	3.93	NM_001901
5	NADE1	3.89	2.85	3.99	4.48	AF187064
6	TTR1	5.13	3.07	4.6	5.3	NM_000371
7	ARL3	0.59	0.52	0.54	0.62	NM_004311
8	GCNT3	3.2	1.97	1.74	1.95	NM_004751
9	NRF-1	1.42	2.16	0.98	1.12	L22454
10	KIAA180812	0.16	0.85	0.34	0.4	AB058711
11	HSPC1592	0.9	0.04	0.66	0.77	NM_014181
12	MAP2K62	11.08	3.76	1.68	1.89	NM_002758
13	SKAP212	13.45	2.33	2.03	2.34	NM_003930

¹huHpS > 2x huHB4 or 2x huHpS < huHB4, respectively, in both microarray and qRT-PCR;

²flip-inconsistent spots;

³a signal intensity ratio of huHB4/huHpS;

⁴relative expression in huHB4 against in huHpS normalized by beta 2-microglobin (β2M) or hypoxanthine phosphoribosyltransferase 1 (HPRT1);

⁵GenBank accession number. qRT-PCR: Quantified by real-time reverse transcription-polymerase chain reaction.

Table 2 Representative genes in enriched functional categories

Category	No. of genes	P value1	Genes	Accession number2
Up regulated
Lipid synthesis	3	0.01	3-hydroxy-3-methylglutaryl-coenzyme A reductase	NM_000859
			7-dehydrocholesterol reductase	NM_001360
			Growth differentiation factor 1	M62302
Glycoprotein	15	0.019	Integrin beta 3	NM_000212
			Interleukin 1 alpha	NM_000575
			Vitronectin	NM_000638
Biopolymer metabolism	16	0.02	Cell division cycle 7	NM_003503
			Colony stimulating factor 1 receptor	NM_005211
			Connective tissue growth factor	NM_001901
Hydrolase activity	6	0.046	Bile acid coenzyme A: amino acid n-acyltransferase	NM_001701
			Inositol polyphoshpate-5-phosphatase	AF184215
			Poly(A)-specific ribonuclease	AJ005698
Down regulated
Signal	17	0.001	Cytotoxic T-lymphocyte-associated protein 4	NM_005214
			Epithelial cell adhesion molecule	NM_002354
			Gamma-aminobutyric acid A receptor alpha 4	NM_000809
Protease Inhibitor	3	0.024	Cystatin A	BC010379
			Secretory leukocyte peptidase inhibitor	NM_003064
			Tissue factor pathway inhibitor	AF021834
Sensory perception	3	0.024	Collagen type I alpha 2	NM_000089
			GATA binding protein 3	BC006839
			USHER syndrome 1C	NM_005709
Transport	7	0.031	Amyloid beta precursor protein binding family A member 2	BC007794
			ATP-binding cassette subfamily D member 4	NM_020323
			Solute carrier family 17 member 2	AL138726
Cytokine activity	4	0.046	Chemokine ligand 25	AB046579
			Kit ligand	NM_000899
			Prolactin	NM_000948

¹Probability of gene enrichment calculated using Fisher’s exact test by referencing the frequency in 30 000 genes of human genome background;

²GenBank accession number.