Table. Genes detected in IPE cells but not detected in RPE cells.  criteria: at least 4/6 IPE sample show "P" and expression level >50;  4/6 RPE has "A" and <50.
probes	Gene Title	Gene Symbol	IPE	RPE
1045_s_at	nuclear factor of kappa light polypeptide gene enhancer in B-cells 3, p65 (avian)	RELA	52.85	43.62
1087_at	erythropoietin receptor	EPOR	128.55	40.41
1150_at	---	---	71.53	48.60
1178_at	---	---	67.63	32.32
1229_at	cisplatin resistance associated	CRA	90.79	37.50
1231_at	ubiquitin-conjugating enzyme E2B (RAD6 homolog)	UBE2B	52.22	43.56
1440_s_at	Fas (TNF receptor superfamily, member 6)	FAS	62.34	31.15
1501_at	insulin-like growth factor 1 (somatomedin C)	IGF1	117.43	21.80
1801_at	BRCA1 associated RING domain 1	BARD1	67.83	29.73
1832_at	mutated in colorectal cancers	MCC	65.83	36.85
1881_at	---	---	91.81	30.79
1882_g_at	---	---	235.59	21.30
190_at	nuclear receptor subfamily 4, group A, member 3	NR4A3	62.58	41.96
1948_f_at	nitric oxide synthase 2A (inducible, hepatocytes)	NOS2A	159.87	24.75
2000_at	ataxia telangiectasia mutated (includes complementation groups A, C and D)	ATM	68.90	48.78
2002_s_at	BCL2-related protein A1	BCL2A1	114.11	29.02
2015_s_at	PMS2 postmeiotic segregation increased 2 (S. cerevisiae)	PMS2	76.46	41.21
208_at	catenin (cadherin-associated protein), alpha 2	CTNNA2	61.35	21.78
245_at	selectin L (lymphocyte adhesion molecule 1)	SELL	79.32	34.14
273_g_at	gastrin-releasing peptide	GRP	182.12	20.93
31464_at	dopachrome tautomerase (dopachrome delta-isomerase, tyrosine-related protein 2)	DCT	61.24	10.89
31736_at	ELISC-1	---	51.09	35.40
31806_at	flavin containing monooxygenase 1	FMO1	84.73	21.00
31809_at	Contactin 1	CNTN1	66.80	9.97
31943_g_at	tubby like protein 3	TULP3	93.04	48.64
32027_at	PDZ domain containing 1	PDZK1	82.01	13.40
32074_at	DNA cross-link repair 1A (PSO2 homolog, S. cerevisiae)	DCLRE1A	55.49	39.50
32305_at	collagen, type I, alpha 2	COL1A2	92.67	24.49
32372_at	cathepsin B	CTSB	72.70	48.20
32396_f_at	excision repair cross-complementing rodent repair deficiency, complementation group 2	ERCC2	55.99	41.65
32441_at	CTP synthase	CTPS	56.67	42.03
32456_s_at	ATPase, Ca++ transporting, plasma membrane 3	ATP2B3	87.28	28.54
32656_at	multiple PDZ domain protein	MPDZ	55.84	23.88
32669_at	suppressor of cytokine signaling 5	SOCS5	91.07	24.03
32714_s_at	activin A receptor type II-like 1	ACVRL1	61.21	45.54
33164_at	testis-specific kinase 2	TESK2	119.69	25.30
33205_at	suppressor of Ty 3 homolog (S. cerevisiae)	SUPT3H	58.97	40.21
33302_at	sarcospan (Kras oncogene-associated gene)	SSPN	104.41	40.42
33468_at	desmoglein 2	DSG2	69.72	42.72
33532_at	cartilage paired-class homeoprotein 1	CART1	74.82	33.90
33596_at	sparc/osteonectin, cwcv and kazal-like domains proteoglycan (testican) 3	SPOCK3	56.25	6.64
33703_f_at	phosphoenolpyruvate carboxykinase 1 (soluble)	PCK1	114.85	23.20
33756_at	amine oxidase, copper containing 3 (vascular adhesion protein 1)	AOC3	237.76	39.86
33764_at	G protein-coupled receptor 51	GPR51	324.07	29.54
33864_at	zinc finger, MYND domain containing 11	ZMYND11	52.78	35.29
34193_at	cell adhesion molecule with homology to L1CAM (close homolog of L1)	CHL1	172.52	29.70
34239_at	hypothetical gene CG018	CG018	96.66	36.38
34249_at	epilepsy, progressive myoclonus type 2A, Lafora disease (laforin)	EPM2A	66.12	34.58
34253_at	nucleoporin 160kDa	NUP160	97.61	45.90
34360_s_at	---	---	66.30	30.73
34377_at	ATPase, Na+/K+ transporting, alpha 2 (+) polypeptide	ATP1A2	294.29	47.47
34417_at	Hypothetical protein FLJ36166	FLJ36166	60.59	30.86
34423_at	DKFZP564J102 protein	DKFZP564J102	105.49	39.10
34470_at	transcription factor EC	TFEC	77.68	18.67
34531_at	fibronectin leucine rich transmembrane protein 1	FLRT1	263.82	49.03
34619_at	desmocollin 1	DSC1	102.66	10.19
34672_at	TBC1 domain family, member 4	TBC1D4	83.66	34.95
34714_at	SAM domain and HD domain 1	SAMHD1	83.38	39.48
34775_at	tetraspan 1	TSPAN1	335.01	49.85
34884_at	carbamoyl-phosphate synthetase 1, mitochondrial	CPS1	206.94	40.83
34950_at	zinc finger protein 423	ZNF423	109.57	38.07
34956_at	RuvB-like 1 (E. coli)	RUVBL1	71.01	34.91
35008_at	period homolog 2 (Drosophila)	PER2	106.55	30.58
35041_at	neurotrophin 3	NTF3	160.03	36.97
35207_at	sodium channel, nonvoltage-gated 1 alpha	SCNN1A	401.54	28.95
35233_r_at	centrin, EF-hand protein, 3 (CDC31 homolog, yeast)	CETN3	61.10	34.71
35245_at	coagulation factor V (proaccelerin, labile factor)	F5	152.92	11.45
35373_at	phosphoinositide-3-kinase, regulatory subunit 1 (p85 alpha)	PIK3R1	66.13	26.61
35416_at	cubilin (intrinsic factor-cobalamin receptor)	CUBN	66.96	13.43
35469_at	5-hydroxytryptamine (serotonin) receptor 2A	HTR2A	219.54	8.39
35475_at	zinc finger protein 177	ZNF177	64.06	31.49
35579_at	SLAC2-B	SLAC2-B	109.73	17.42
35624_at	ankyrin repeat domain 6	ANKRD6	85.01	15.01
35676_at	dynein, axonemal, light intermediate polypeptide 1	DNALI1	56.17	49.38
35678_at	BH-protocadherin (brain-heart)	PCDH7	177.89	27.47
35680_r_at	Dipeptidylpeptidase 6	DPP6	134.92	42.70
35705_at	nuclear receptor subfamily 1, group D, member 2	NR1D2	62.33	23.68
35862_at	solute carrier family 15 (H+/peptide transporter), member 2	SLC15A2	177.28	13.87
35872_at	phosphodiesterase 3B, cGMP-inhibited	PDE3B	58.92	9.03
35975_at	myeloid/lymphoid or mixed-lineage leukemia	MLLT3	81.98	38.92
36021_at	lymphoid enhancer-binding factor 1	LEF1	139.04	22.46
36026_at	phosphoglycerate mutase 2 (muscle)	PGAM2	197.26	40.58
36034_at	KIAA0258	KIAA0258	75.82	37.86
36113_s_at	troponin T1, skeletal, slow	TNNT1	148.76	42.95
36234_at	Eukaryotic translation initiation factor 4A, isoform 1	EIF4A1	75.63	38.72
36256_at	limbic system-associated membrane protein	LSAMP	59.52	35.44
36311_at	phosphodiesterase 1A, calmodulin-dependent	PDE1A	638.42	35.33
36354_at	tenascin N	TNN	100.89	48.56
36448_at	abl interactor 2	ABI2	70.29	23.05
36470_s_at	dystrobrevin, alpha	DTNA	68.57	19.20
36476_at	bromodomain containing 8	BRD8	70.54	44.41
36505_at	calsequestrin 2 (cardiac muscle)	CASQ2	408.44	11.65
36556_at	KIAA0672 gene product	KIAA0672	57.23	34.85
36680_at	amylase, alpha 2A; pancreatic	AMY2A	123.45	39.36
36750_at	RIM binding protein 2	KIAA0318	171.24	40.53
36824_at	astrotactin	ASTN	79.50	11.94
36842_at	CAZ-associated structural protein	CAST	76.81	34.24
36844_at	dedicator of cytokinesis 3	DOCK3	57.71	32.81
36896_s_at	aryl hydrocarbon receptor nuclear translocator-like	ARNTL	69.00	45.39
36917_at	laminin, alpha 2 (merosin, congenital muscular dystrophy)	LAMA2	172.20	48.10
37052_at	diacylglycerol kinase, gamma 90kDa	DGKG	68.92	11.58
37103_at	brain expressed, associated with Nedd4	BEAN	129.00	28.83
37180_at	phospholipase C, gamma 2 (phosphatidylinositol-specific)	PLCG2	92.57	40.84
37286_at	neuronal cell adhesion molecule	NRCAM	52.90	32.67
37322_s_at	hydroxyprostaglandin dehydrogenase 15-(NAD)	HPGD	139.28	12.17
37327_at	epidermal growth factor receptor (erythroblastic leukemia viral)	EGFR	66.41	39.58
37394_at	complement component 7	C7	96.29	44.35
37571_at	dedicator of cytokinesis 9	DOCK9	135.56	35.41
37583_at	Smcy homolog, Y-linked (mouse)	SMCY	95.08	43.91
37792_s_at	RAD51-like 3 (S. cerevisiae)	RAD51L3	64.00	42.62
38004_at	chondroitin sulfate proteoglycan 4 (melanoma-associated)	CSPG4	174.23	27.65
38151_at	loss of heterozygosity, 11, chromosomal region 2, gene A	LOH11CR2A	97.03	49.38
38160_at	lymphocyte antigen 75	LY75	63.57	15.94
38170_at	Clone 24583 mRNA sequence	---	69.58	29.44
38172_at	carbonyl reductase 3	CBR3	52.75	47.25
38179_at	zinc finger protein 174	ZNF174	54.11	41.05
38236_at	glutamate receptor, ionotropic, N-methyl D-aspartate 2A	GRIN2A	57.35	41.92
38280_s_at	neurotrophic tyrosine kinase, receptor, type 2	NTRK2	53.43	21.68
38427_at	collagen, type XV, alpha 1	COL15A1	53.82	34.69
38526_at	phosphodiesterase 4D, cAMP-specific	PDE4D	146.40	25.50
38567_at	CD1D antigen, d polypeptide	CD1D	88.68	43.11
38580_at	guanine nucleotide binding protein (G protein), q polypeptide	GNAQ	84.54	47.44
38765_at	Dicer1, Dcr-1 homolog (Drosophila)	DICER1	62.09	34.01
38853_at	G protein-coupled receptor 64	GPR64	134.28	19.88
38876_at	ankyrin repeat and SOCS box-containing 9	ASB9	62.77	18.43
38887_r_at	DIRAS family, GTP-binding RAS-like 3	DIRAS3	62.51	20.79
38994_at	suppressor of cytokine signaling 2	SOCS2	57.34	26.73
39151_at	Pappalysin 2	PAPPA2	88.39	27.49
39273_at	CDNA clone IMAGE:4811759, partial cds	---	173.12	19.07
39616_at	Prostaglandin E receptor 3 (subtype EP3)	PTGER3	133.48	14.98
39668_at	transcription factor AP-2 beta (activating enhancer binding protein 2 beta)	TFAP2B	303.18	37.82
39698_at	homeodomain-only protein	HOP	83.06	22.65
39806_at	ASF1 anti-silencing function 1 homolog A (S. cerevisiae)	ASF1A	51.05	28.02
39894_f_at	bromodomain containing 1	BRD1	68.61	35.88
39930_at	EPH receptor B6	EPHB6	59.85	31.62
40126_at	paired related homeobox 1	PRRX1	109.80	39.74
40217_s_at	CDP-diacylglycerol synthase (phosphatidate cytidylyltransferase) 1	CDS1	100.05	39.09
40301_at	G protein-coupled receptor 161	GPR161	65.32	25.37
40358_at	GLI-Kruppel family member GLI3 (Greig cephalopolysyndactyly syndrome)	GLI3	101.51	17.35
40361_at	chaperonin containing TCP1, subunit 6B (zeta 2)	CCT6B	58.98	26.35
40375_at	early growth response 3	EGR3	56.49	36.78
40391_at	solute carrier family 22 (organic cation transporter), member 4	SLC22A4	61.93	32.39
40676_at	integrin beta 3 binding protein (beta3-endonexin)	ITGB3BP	120.39	44.53
40710_at	calmegin	CLGN	81.00	34.33
40761_at	solute carrier family 16 (monocarboxylic acid transporters), member 5	SLC16A5	62.54	10.59
40776_at	desmin	DES	424.22	33.48
40823_s_at	nuclear factor of activated T-cells, cytoplasmic, calcineurin-dependent 3	NFATC3	50.98	29.79
41020_at	proprotein convertase subtilisin/kexin type 2	PCSK2	82.28	31.47
41053_at	chromosome 6 open reading frame 47	C6orf47	96.72	48.45
41195_at	LIM domain containing preferred translocation partner in lipoma	LPP	70.67	43.36
41377_f_at	UDP glycosyltransferase 2 family, polypeptide B7	UGT2B7	165.77	12.07
41455_at	Rho GTPase-activating protein	RICS	57.07	45.89
41466_s_at	zinc finger protein 148 (pHZ-52)	ZNF148	81.31	46.48
41539_at	glutamate receptor, ionotropic, N-methyl D-aspartate 2C	GRIN2C	291.00	26.49
41666_at	heat shock 70kDa protein 12A	HSPA12A	140.08	41.51
41679_at	chromosome 1 open reading frame 21	C1orf21	152.51	42.20
41701_at	complement component 6	C6	151.21	48.46
41796_at	phospholipase C-like 2	PLCL2	66.89	45.79
41826_at	KIAA1467 protein	KIAA1467	87.02	34.74
41863_at	hypothetical protein LOC138046	LOC138046	57.89	33.52
435_g_at	H1 histone family, member 0	H1F0	106.80	39.75
468_at	fibroblast growth factor 13	FGF13	97.92	20.32
528_at	heat shock 27kDa protein 3	HSPB3	82.81	18.11
546_at	protein kinase (cAMP-dependent, catalytic) inhibitor alpha	PKIA	96.93	29.51
547_s_at	nuclear receptor subfamily 4, group A, member 2	NR4A2	126.02	29.92
644_at	Rho family GTPase 2	RND2	89.50	29.45
645_at	heat shock 70kDa protein 2	HSPA2	87.22	27.39
658_at	thrombospondin 2	THBS2	64.00	29.16
712_s_at	---	---	105.37	41.59
735_s_at	---	---	172.32	41.83
748_s_at	MAX interactor 1	MXI1	142.30	47.62
821_s_at	folate receptor 1 (adult)	FOLR1	84.38	41.73