Genomic-wide analysis of lymphatic metastasis-associated genes in human hepatocellular carcinoma

Table 3 Down-regulated genes correlated with lymphatic metastasis

Gene name	Symbola	Accessionb	Fold changec	pN1:pN0d
Cell adhesion proteins
Desmoplakin (DPI, DPII)	DSP	NM_004415	-14.22	0.24
Protocadherin gamma subfamily C, 3	PCDHGC3	NM_002588	-7.88	0.41
Integrin, beta 4	ITGB4	NM_000213	-13.39	0.26
Integrin, alpha 3 (antigen CD49C, alpha 3 subunit of VLA-3 receptor)	ITGA3	NM_002204	-6.24	0.38
Catenin (cadherin-associated protein), alpha 1 (102kD)	CTNNA1	NM_001903	-8.53	0.37
Cadherin 1, type 1, E-cadherin (epithelial)	CDH1	NM_004360	-15.85	0.25
Cell cycle regulator
Cell division cycle 25B	CDC25B	NM_021784	-6.90	0.46
Cyclin-dependent kinase 5	CDK5	NM_004935	-5.51	0.48
Cyclin D2	CCND2	NM_001759	-6.29	0.43
Microtubule-associated protein, RP/EB family, member 1	MAPRE1	NM_012325	-13.16	0.29
Protein phosphatase 1D	PPM1D	NM_003620	-11.77	0.39
Ataxia telangiectasia and Rad3 related	ATR	NM_001184	-7.86	0.41
Protein phosphatase 2, regulatory subunit B (B56), alpha isoform	PPP2R5A	NM_006243	-3.89	0.49
Intracellular signaling
Mitogen-activated protein kinase 14	MAPK14	NM_001315	-5.67	0.43
Mitogen-activated protein kinase 7	MAPK7	NM_002749	-7.15	0.39
Mitogen-activated protein kinase 4	MAPK4	NM_002747	-3.83	0.32
Small inducible cytokine B subfamily (Cys-X-Cys motif), member 13 (B-cell chemoattractant)	SCYB13	NM_006419	-4.58	0.46
Signal transducer and activator of transcription 5B	STAT5B	NM_012448	-8.13	0.37
Serine (or cysteine) proteinase inhibitor, clade B (ovalbumin), member 1	SERPINB1	NM_030666	-4.47	0.48
Serine (or cysteine) proteinase inhibitor, clade B (ovalbumin), member 2	SERPINB2	NM_002575	-5.72	0.41
SH3-domain binding protein 2	SH3BP2	AB000462	-3.29	0.52
G protein-coupled receptor kinase 6	GPRK6	NM_002082	-14.12	0.29
GTP-binding protein ragB	RAGB	NM_016656	-6.77	0.46
Protein tyrosine phosphatase, receptor type, F	PTPRF	NM_002840	-7.21	0.34
Cell membrane receptor
EphB6	EPHB6	NM_004445	-12.88	0.38
Kangai 1 (suppression of tumorigenicity 6, prostate; CD82 antigen (R2 leukocyte antigen, antigen detected by monoclonal and antibody IA4)	KAI1	NM_002231	-2.24	0.67
Small inducible cytokine subfamily A (Cys-Cys), member 25	SCYA25	NM_005624	-3.76	0.72
Monoglyceride lipase	MGLL	NM_007283	-4.66	0.43
Interferon (alpha, beta and omega) receptor 1	IFNAR1	NM_000629	-2.39	0.81
Insulin-like growth factor binding protein 6	IGFBP6	NM_002178	-3.53	0.62
Metabolic enzyme
Serine protease inhibitor, Kunitz type, 2	SPINT2	NM_021102	-5.44	0.46
Protein phosphatase 2, regulatory subunit B (B56), alpha isoform	PPP2R5A	NM_006243	-7.12	0.37
Protein tyrosine phosphatase, non-receptor type 2	PTPN2	NM_002828	-19.73	0.23
Deoxyribonuclease I-like 3	DNASE1L3	NM_004944	-8.23	0.29
Cathepsin L	CTSL	NM_001912	-4.39	0.37
Cell death regulator
Caspase 3, apoptosis-related cysteine protease	CASP3	NM_004346	-14.57	0.29
Programmed cell death 10	PDCD10	NM_007217	-7.19	0.36
DNA damage response
Ataxia telangiectasia and Rad3 related	ATR	NM_001184	-4.78	0.48
X-ray repair complementing defective repair in Chinese hamster cells 5 (double-strand-break rejoining; Ku autoantigen, 80kD)	XRCC5	NM_021141	-2.59	0.73
Mouse double min 2	MDM2	NM_002392	-6.37	0.51
Growth/differentiation factor
Bone morphogenetic protein 5	BMP5	NM_021073	-2.78	0.53
Keratin 4	KRT4	NM_002272	-3.12	0.62
Keratin 13	KRT13	NM_002274	-4.24	0.48
Connective tissue growth factor	CTGF	NM_001901	-5.51	0.42
Others
Heat shock 70kDa protein 4	HSPA4	AB023420	-3.19	0.56
Retinoid X receptor, α	RXRA	NM_002957	-2.89	0.77
Ubiquitin-activating enzyme E1-like	UBE1L	NM_003335	-2.95	0.53
Solute carrier family 25 (mitochondrial carrier; adenine nucleotide translocator), member 5	SLC25A5	NM_001152	-6.18	0.46

^aSymbol in LocusLink database;

^bGeneBank accession number;

^cFold change, ratio of mean expression values in lymph node metastasis cases (cancer cells vs non-cancerous cells);

^dpN1:pN0, ratio of mean expression values (lymph node positive cases to lymph node negative cases).