Gene expression profiles at different stages of human esophageal squamous cell carcinoma

Table 1 Ratio of expression level for a set of genes with the largest loading scores in the first two principal components

Component 1			Component 2
Gene	Ratio ELCA/LaCa	Ratio BCH/N	Gene	Ratio BCH/N	Ratio DYS/CAIN
GAF	131	16	PCTK1	122	8
CAPR	582	25	DAXX	5	95
CASP8	743	37	P70	7	62
MMP16	143	17	CCNH	174	87
DCC Precursor	316	12	CD153 antigen	70	31
Tenascin-R	742	21	TLAA	9	39
ZAP70	157	83	XPG	90	26
IL-13	110	22	Apoptosis Inhibitor Survivin	3	107
TRAIL receptor	66	82	Bcl-1 oncogene	122	19
	LaCa/ELCA	N/BCH		N/BCH	CAIN/DYS
BMP5	284	170	MERLIN	3	411
MIF	79	72	LERK-8	31	334
N-myc	14	110	DSG2; HDGC	355	395
RPSA	19	68	MMP11	2	271
RBL2	33	18	CDK2	13	51
RAD52	27	9	CLK1	60	798
RBQ1	15	55	MDMX	3	225

N: Normal; BCH: Basel cell hyperplasia; DYS: Dysplasia; CAIN: Carcinoma in situ; ELCA: Early cancer; LaCa: Late cancer.

Table 2 Ratio of expression level for a set of genes with the largest loading scores in the third principal components

Gene	Ratio N/BCH	Ratio DYS/BCH
Bcl-2L8	803	227
SRC1	333	141
Muscle cadherin precursor	299	111
Neurogenic locus notch protein	488	104
CASP3	232	92
BCL2A1; GRS protein	133	665
Type 1 cytoskeletal 10 protein	302	370
TRAF5	83	650
Transcription factor E2F5	615	30
MAP kinase p38	147	86
	BCH/N	BCH/DYS
KRT7	2	105
GRB-IR	5	96
GAS1	4	210
BMP8	21	21
DVL	12	187
CAM-PDE1B	18	18
Apotosis regulator bcl-2	60	59

N: Normal; BCH: Basel cell hyperplasia; DYS: Dysplasia.

Table 3 Genes up or down regulated in all five stages of grade II basal cell hyperplasia, high-grade dysplasia, carcinoma in situ, early and advanced squamous cell carcinoma. Position indicates the gene position on the microarray membrane

Position	Gene Name
Up Regulated Genes
A2k	G1/S-specific cyclin C
A4i	ERK5
A4j	ERK6
A5b	ERK activator kinase 1
A5l	transcription factor DP2
B3g	caspase-8 precursor
B3i	caspase-9 precursor
B3j	caspase-10 precursor (CASP10)
C1a	DNA-dependent protein kinase
C2c	DNA-repair protein XRCC1
C2j	RAD1
C4b	Wnt-5A
C4k	DVL1
C6m	CCK4
C7k	retinoic acid receptor epsilon
C7l	retinoic acid receptor gamma 1
C7m	retinoic acid receptor beta
D4b	integrin alpha 8
D4j	integrin beta 7 precursor
D4k	integrin beta 8 precursor
D5g	ezrin; cytovillin 2; villin 2
D5j	CD56 antigen
D7f	placenta growth factor 1
E1f	MMP9
E2a	MMP18
F3j	early growth response protein 1
F4l	IL-6
F5e	IL-13
F5k	interferon gamma precursor
F5l	leukocyte interferon-inducible peptide
Down regulated Genes
C6c	insulin-like growth factor binding protein 2 (IGFBP2P2)
F4d	interleukin-1 receptor antagonist protein precursor (IL-1RA; IRAP)