Detailed supplementary information to the list of the genes published in:
Department of Dermatology, Oregon Health & Science University, Portland, Ore. 97239
¹Biostatistics & Bioinformatics Shared Resource, OHSU Cancer Institute
²Corresponding author: Dept. of Dermatology OP06, Oregon Health & Science University, 3181 SW Sam Jackson Park Rd., Portland, Ore. 97239. Tel: (503) 220-8262 x54273; Fax: (503) 402-2817; Email: kuleszma@ohsu.edu

Cellular activity: Differentiation/barrier
Genes involved	Accession#	O3C	O9C	Mean_ 291_AD	Mean_ 03C_AD	Mean_ 09C_AD	Affymetrix Description
SPRR1a	AF057156	10.80	NC	55.15	257.90	16.80	160909_at
filaggrin	J03458	9.55	NC	-4.45	88.30	30.50	100420_at
caspase-14	AF092997	3.50	NC	65.15	228.25	61.80	103837_at
suppressor of cytokine signalling-2 (SOCS-2)	U88327	2.73	NC	52.93	145.13	40.73	99475_at
tumor necrosis factor, alpha-induced protein 2	L24118	-11.70	NC	35.27	-53.30	98.23	160489_at
24p3	X81627	NC	19.40	2.45	6.70	244.60	160564_at
SPRR2b	AJ005560	NC	-3.30	245.35	326.05	74.15	99701_f_at
brain derived neurotrophic factor	X55573	NC	-3.95	93.00	34.95	17.05	102727_at
GATA-binding protein 3	X55123	NC	-5.60	115.43	60.93	23.73	100924_at
keratin 16	AF053235	NC	-12.85	138.15	187.20	9.15	103589_at
SPRR2a	AJ005559	NC	-20.93	247.37	461.90	-7.40	101024_i_at
SPRR1b	X91825	NC	-24.07	213.97	101.37	-1.47	100445_f_at
neural visinin-like Ca2+-binding protein type 1 (NVP-1)	D21165	2.95	-3.93	130.70	242.10	41.87	92995_at
cellular retinoic acid binding protein II	M35523	-2.43	-2.57	347.07	143.23	142.60	100127_at
SPRR2H	AJ005566	-3.03	-8.45	523.63	165.17	118.60	94121_at
SRY-box containing gene 2	X94127	-5.57	-7.93	69.33	4.70	5.80	100009_r_at
osteoblast specific factor 2	D13664	-11.33	-10.23	138.10	8.30	11.50	92593_at
Cellular activity: Proliferation
Genes involved	Accession#	O3C	O9C	Mean_ 291_AD	Mean_ 03C_AD	Mean_ 09C_AD	Affymetrix Description
GAS6	X59846	12.55	NC	26.25	222.55	125.55	99067_at
neuroblastoma myc-related oncogene 1	M12731	12.15	NC	21.10	213.65	19.60	103048_at
sphingosine kinase (SPHK1a)	AF068748	8.40	NC	-0.35	62.15	50.70	103839_at
inhibitor of DNA binding 4 (Id4)	AJ001972	8.00	NC	14.67	124.93	50.80	96144_at
stromal derived factor 1, alpha	L12029	7.80	NC	-3.10	65.40	0.50	160511_at
metallothionein 2	K02236	6.40	NC	504.83	3049.33	1012.83	101561_at
metallothionein 1	V00835	5.13	NC	791.53	3784.70	1374.20	93573_at
insulin-like growth factor binding protein 2	X81580	5.05	NC	81.40	407.20	82.90	98627_at
stem cell factor	M57647	4.77	NC	43.63	248.90	105.00	99577_at
coagulation factor II (thrombin) receptor-like 1	Z48043	3.10	NC	62.33	189.37	83.47	102915_at
stromal derived factor 1, beta	L12030	2.65	NC	46.60	100.00	43.70	100112_at
phenylalkylamine Ca2+ antagonist (emopamil) binding protein	X97755	-2.47	NC	287.93	122.37	188.13	96627_at
wee1 kinase	D30743	-3.25	NC	95.30	47.05	55.05	101458_at
interferon regulatory factor 1	M21065	-4.17	NC	377.10	95.77	173.97	102401_at
TRA1	D78354	-4.95	NC	239.60	63.15	406.50	102839_at
Eps8	L21671	NC	7.20	65.23	130.30	330.50	103222_at
cdc2/CDC28-like protein kinase 3 (Clk3)	AF033565	NC	3.15	38.95	29.85	172.90	93311_at
Dlxin-1	AB029448	NC	-2.97	203.70	118.43	72.37	96703_at
Max interacting protein 1	L38822	NC	-3.63	441.37	539.60	123.90	160138_at
inhibitor of DNA binding 2 (Id2)	AF077861	NC	-10.33	279.37	452.43	53.07	93013_at
bone morphogenetic protein 7	X56906	17.95	30.25	-61.80	138.40	218.30	93243_at
protein tyrosine phosphatase, non-receptor type substrate 1(BIT)	AB018194	10.85	11.30	-0.17	99.60	93.43	103070_at
jun oncogene	X12761	10.83	5.35	23.47	194.27	93.05	100130_at
c-fos	V00727	3.85	3.13	59.17	171.55	159.17	160901_at
MEK5	AB019374	3.50	4.15	33.45	133.80	145.95	103592_at
parathyroid hormone-like peptide	M60057	-3.05	-2.53	1260.80	490.83	511.00	104262_at
amphiregulin	L41352	-4.25	2.75	508.07	132.85	1075.85	99915_at
Cellular activity: Apoptosis
Genes involved	Accession#	O3C	O9C	Mean_ 291_AD	Mean_ 03C_AD	Mean_ 09C_AD	Affymetrix Description
TIMP-3	U26437	28.07	NC	17.73	555.87	67.97	160519_at
interleukin 1 receptor, type II	X59769	3.30	NC	18.65	70.40	24.05	102658_at
B-cell leukemia/lymphoma 6	U41465	3.23	NC	51.33	177.07	118.00	103015_at
TIP30	AF061972	-4.77	NC	65.47	5.10	73.57	103671_at
MAST205	U02313	NC	2.75	99.30	188.35	271.85	160938_at
serine protease inhibitor 6	U96700	-4.70	-7.90	253.87	58.57	80.73	98405_at
caspase 6	Y13087	-7.73	-9.33	78.70	0.47	-6.73	94458_at
Cellular activity: Cell-cell, cell-matrix interaction
Genes involved	Accession#	O3C	O9C	Mean_ 291_AD	Mean_ 03C_AD	Mean_ 09C_AD	Affymetrix Description
tetraspan TM4SF	AF053454	9.57	NC	-5.87	98.60	11.30	92555_at
cysteine-rich glycoprotein SPARC	X04017	7.43	NC	15.10	100.37	-3.83	97160_at
ankyrin 3, epithelial	L40631	5.55	NC	16.35	76.00	45.90	98476_at
procollagen, type IV, alpha 5	Z35168	4.00	NC	21.10	80.30	14.23	93220_at
Pcdh7	AB006758	-2.77	NC	512.00	201.80	353.10	102280_at
Ena-vasodilator stimulated phosphoprotein	U72519	-4.77	NC	122.30	31.63	72.57	160667_at
secretory leukoprotease inhibitor	AF002719	NC	6.50	398.57	200.60	2556.17	92858_at
integral membrane protein 2B	U76253	NC	-3.00	458.45	296.75	140.90	101123_at
neural cell adhesion molecule	X15052	NC	-4.30	161.30	47.15	37.75	100153_at
fibronectin (FN)	M18194	NC	-5.30	516.50	749.60	110.85	92852_at
desmocollin 3	Y11169	NC	-9.10	112.55	90.25	20.85	97655_at
T-cadherin	AB022100	14.85	11.50	8.85	158.30	99.20	104743_at
glypican 4	X83577	3.40	2.55	92.03	233.20	186.55	102886_at
fibulin 2	X75285	-2.53	-8.67	838.47	321.87	100.60	100928_at
minopontin	X13986	-2.80	3.60	1317.07	445.13	3866.07	97519_at
transforming growth factor, beta induced, 68 kDa	L19932	-2.80	-3.05	65.70	25.95	20.50	92877_at
ADAM12	D50411	-7.15	-4.95	81.10	2.20	21.80	92414_at
Cellular activity: Miscellaneous
Genes involved	Accession#	O3C	O9C	Mean_ 291_AD	Mean_ 03C_AD	Mean_ 09C_AD	Affymetrix Description
IL-18	D49949	12.55	NC	22.40	125.05	-9.35	102802_at
homeo box D8	X56561	4.75	NC	41.75	197.80	112.80	93221_at
mouse A-X actin	J04181	4.70	NC	159.05	745.70	382.25	95705_s_at
MKP-1	X61940	3.87	NC	44.73	164.33	73.33	104598_at
hexosaminidase A	U05837	3.00	NC	50.00	148.65	54.50	94840_at
downstream of tyrosine kinase 1	U78818	2.55	NC	72.40	182.85	98.10	102896_at
mouse complement component C3	K027828	-2.43	NC	127.80	54.50	217.10	93497_at
follistatin	Z29532	-2.47	NC	3043.23	1191.50	1678.73	98817_at
heterogeneous nuclear ribonucleoprotein G, splice variant 1	AJ237847	-2.57	NC	218.53	51.03	276.83	97847_at
interleukin 1 alpha	M14639	-3.55	NC	2533.85	725.65	2646.40	94755_at
5-3 exonuclease	X91617	-5.60	NC	37.73	-23.25	53.60	98283_at
FXYD domain-containing ion transport regulator 5	U72680	-5.87	NC	109.47	27.30	148.90	103394_at
mouse protein tyrosine phosphatase (70zpep)	M90388	NC	5.50	52.25	36.55	290.20	92356_at
putative glycogen storage disease type 1b	AF080469	NC	4.40	19.90	25.05	85.05	97430_at
glutamate-cysteine ligase , modifier subunit(Glclr)	U95053	NC	3.15	89.65	115.95	295.75	160335_at
glycerol kinase	U48403	NC	2.90	111.07	147.17	321.37	97525_at
semaphorin E	X85994	NC	-4.00	232.40	134.35	80.10	101178_at
mouse glutathione S-transferase class mu (GST5-5)	J04696	NC	-5.00	191.25	136.60	35.80	93009_at
mouse calcium-dependent phospholipid binding protein	M72394	NC	-5.10	140.33	66.20	28.30	99513_at
adenylate cyclase 7	U12919	NC	-5.10	78.20	61.10	6.45	103392_at
lysosomal acid lipase	Z31689	NC	-5.70	56.05	46.55	26.25	102123_at
DNA ligase I, ATP-dependent	U19604	NC	-7.20	180.50	149.10	74.85	92551_at
SOX11	AF009414	NC	-7.47	865.17	403.80	229.97	101631_at
schwannoma-associated protein (SAM9)	AF026124	NC	-7.60	76.05	73.05	2.35	100607_at
cathepsin C	U74683	NC	-8.75	293.50	107.75	26.45	101019_at
stearoyl-coenzyme A desaturase 1	M21285	NC	-12.35	327.30	302.85	52.80	94056_at
glucocortoid-regulated inflammatory prostaglandin G/H synthase (griPGHS)	M88242	NC	-14.17	601.90	254.13	102.77	104647_at
aldehyde dehydrogenase 3 (aldh3)	AF033034	7.25	21.85	0.57	60.00	133.85	99548_at
cathepsin H	U06119	3.15	4.20	128.07	398.45	521.03	94834_at
alpha-2,3-sialyltransferase	D28941	2.65	2.60	107.10	317.25	246.65	95599_at
17-beta-hydroxysteroid dehydrogenase type 7	Y15733	-2.23	-4.23	165.83	77.97	46.03	94177_at
latexin	D88769	-2.95	-3.20	149.00	50.05	44.55	96065_at
mouse germline interleukin 1 receptor antagonist (1L-1rn) gene	L32838	-4.55	5.65	82.90	24.45	214.83	93871_at
chemokine orphan receptor 1	AF000236	-5.60	-8.57	67.17	14.97	0.47	93430_at
protease (prosome, macropain) 28 subunit	AB007136	-6.33	-6.53	264.63	40.27	39.23	101510_at
cyclophilin C	M74227	-29.03	-33.97	300.80	16.20	-11.77	100089_at

Murine chip MG-U74Av2 from Affymetrix® was used to measure expression changes at the initiation stage of epidermal carcinogenesis. The microarray assays were performed in the Affymetrix Microarray Core of the OHSU Gene Microarray Shared Resource. Microarray images were processed using Microarray Suite software 4.0 resulting in a relative average difference (AD) intensity measurement for each gene. Assay results were normalized among samples by globally scaling AD values to an average target intensity of 150 and difference calls were calculated using MAS 4.0. Cell clone 03C represents malignant tumor precursor and 09C represents benign tumor precursor. Fold changes (FC) in 03C and/or 09C compared to their nontransformed parental cells 291 are the average of two or three biological replicates and correspond to the relative expression intensity of genes represented by the average differences AD. Genes are organized from greatest to least according to changes in 03C followed by 09C followed by genes with expression changes in both 03C and 09C. NC indicates no change.