Supplementary Table 1
Genes upregulated in Pancreatic Endocrine Neoplasms
probe set	gene	fold change	lower bound of FC	upper bound of FC	difference of means	t statistic	P value
206812_at	adrenergic, beta-3-, receptor	3.80721	2.00218	15.5691	63.78369	3.704977	0.004075
209646_x_at	aldehyde dehydrogenase 1 family, member B1	3.405205	1.784534	6.70252	226.4272	2.670307	0.02348
206866_at	cadherin 4, type 1, R-cadherin (retinal)	3.11678	1.356632	40.89965	84.53125	2.256129	0.047681
209057_x_at	CDC5 cell division cycle 5-like (S. pombe)	5.309125	2.579538	18.62043	375.8979	3.294548	0.008088
205413_at	chromosome 11 open reading frame 8	3.271896	1.398671	13.94119	64.12052	2.171819	0.055001
221211_s_at	chromosome 21 open reading frame 7	3.341483	1.888469	6.590505	85.03843	3.076046	0.011719
204363_at	coagulation factor III (thromboplastin, tissue factor)	3.234055	1.327259	1E+08	83.11833	2.196827	0.052723
222295_x_at	Consensus includes gb:AI732770 /FEA=EST /DB_XREF=gi:5053883 /DB_XREF=est:zx78d05.x5 /CLONE=IMAGE:809865 /UG=Hs.328688 ESTs, Moderately similar to ALU7_HUMAN ALU SUBFAMILY SQ SEQUENCE CONTAMINATION WARNING ENTRY H.sapiens	4.742288	2.338123	16.32534	335.7469	3.251846	0.008693
217028_at	Consensus includes gb:AJ224869 /DEF=Homo sapiens CXCR4 gene encoding receptor CXCR4 /FEA=mRNA /DB_XREF=gi:3059119 /UG=Hs.89414 chemokine (C-X-C motif), receptor 4 (fusin)	5.338557	2.470302	80.4781	162.6865	3.669892	0.004318
216051_x_at	Consensus includes gb:AK022045.1 /DEF=Homo sapiens cDNA FLJ11983 fis, clone HEMBB1001337. /FEA=mRNA /DB_XREF=gi:10433364 /UG=Hs.193162 Homo sapiens cDNA FLJ11983 fis, clone HEMBB1001337	4.098009	1.678051	1E+08	346.3871	2.593169	0.026804
215582_x_at	Consensus includes gb:AK022303.1 /DEF=Homo sapiens cDNA FLJ12241 fis, clone MAMMA1001274. /FEA=mRNA /DB_XREF=gi:10433670 /UG=Hs.287503 Homo sapiens cDNA FLJ12241 fis, clone MAMMA1001274	6.485092	2.994674	31.21949	261.5146	3.354096	0.007315
214978_s_at	Consensus includes gb:AK023365.1 /DEF=Homo sapiens cDNA FLJ13303 fis, clone OVARC1001372, highly similar to Homo sapiens liprin-alpha4 mRNA.� /FEA=mRNA /DB_XREF=gi:10435269 /UG=Hs.300704 Homo sapiens cDNA FLJ13303 fis, clone OVARC1001372, highly similar	4.272154	1.431979	9.713297	59.68796	1.9245	0.083188
217052_x_at	Consensus includes gb:AK024108.1 /DEF=Homo sapiens cDNA FLJ14046 fis, clone HEMBA1006461. /FEA=mRNA /DB_XREF=gi:10436406 /UG=Hs.142677 Homo sapiens cDNA FLJ14046 fis, clone HEMBA1006461	4.78907	2.356753	15.41575	298.521	3.190341	0.009649
215845_x_at	Consensus includes gb:AK026493.1 /DEF=Homo sapiens cDNA: FLJ22840 fis, clone KAIA4709. /FEA=mRNA /DB_XREF=gi:10439366 /UG=Hs.287293 Homo sapiens cDNA: FLJ22840 fis, clone KAIA4709	5.723353	2.040663	1E+08	129.8203	3.065107	0.01194
215182_x_at	Consensus includes gb:AL050122.1 /DEF=Homo sapiens mRNA; cDNA DKFZp586E121 (from clone DKFZp586E121). /FEA=mRNA /DB_XREF=gi:4884330 /UG=Hs.274511 Homo sapiens mRNA; cDNA DKFZp586E121 (from clone DKFZp586E121)	4.520161	1.985861	32.58199	259.5365	2.80901	0.018506
216710_x_at	Consensus includes gb:AL359578.1 /DEF=Homo sapiens mRNA; cDNA DKFZp547N163 (from clone DKFZp547N163). /FEA=mRNA /DB_XREF=gi:8655637 /UG=Hs.306511 Homo sapiens mRNA; cDNA DKFZp547N163 (from clone DKFZp547N163)	3.390475	2.006256	6.756993	104.7438	3.542791	0.005332
222194_at	Consensus includes gb:AL390183.1 /DEF=Homo sapiens mRNA; cDNA DKFZp547D096 (from clone DKFZp547D096). /FEA=mRNA /DB_XREF=gi:9368895 /UG=Hs.88121 Homo sapiens mRNA; cDNA DKFZp547D096 (from clone DKFZp547D096)	3.007533	1.658483	6.757091	120.0068	2.87346	0.01657
215607_x_at	Consensus includes gb:AU144530 /FEA=EST /DB_XREF=gi:11006051 /DB_XREF=est:AU144530 /CLONE=HEMBA1002189 /UG=Hs.296654 Homo sapiens cDNA FLJ11511 fis, clone HEMBA1002189	4.669377	2.369265	40.06682	118.8292	4.639526	0.000923
217580_x_at	Consensus includes gb:AW301806 /FEA=EST /DB_XREF=gi:6711483 /DB_XREF=est:xr56e11.x1 /CLONE=IMAGE:2764172 /UG=Hs.150551 ESTs, Weakly similar to ALU1_HUMAN ALU SUBFAMILY J SEQUENCE CONTAMINATION WARNING ENTRY H.sapiens	6.524027	2.916449	29.31754	221.3282	3.107932	0.0111
222329_x_at	Consensus includes gb:AW974816 /FEA=EST /DB_XREF=gi:8166019 /DB_XREF=est:EST386921 /UG=Hs.283517 ESTs, Weakly similar to ALU1_HUMAN ALU SUBFAMILY J SEQUENCE CONTAMINATION WARNING ENTRY H.sapiens	4.04225	2.296836	8.145207	185.9114	3.468701	0.006034
212473_s_at	Consensus includes gb:BE965029 /FEA=EST /DB_XREF=gi:11768976 /DB_XREF=est:601658812R1 /CLONE=IMAGE:3886131 /UG=Hs.198793 Homo sapiens cDNA: FLJ22463 fis, clone HRC10126	3.019784	1.24032	6.593884	92.8757	1.904451	0.085989
222187_x_at	Consensus includes gb:X78262.1 /DEF=H.sapiens mRNA for TRE5. /FEA=mRNA /DB_XREF=gi:587440 /UG=Hs.302178 H.sapiens mRNA for TRE5	5.120797	1.690516	1E+08	129.2712	2.471846	0.033
205000_at	DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide, Y chromosome	4.245079	2.011773	10.80048	53.7655	2.682386	0.022998
216922_x_at	deleted in azoospermia	3.511373	1.798091	9.588215	81.40909	2.864541	0.016825
208281_x_at	deleted in azoospermia 3	3.553889	1.796867	8.690073	65.33271	2.729289	0.021219
216351_x_at	deleted in azoospermia 4	3.348077	1.742806	7.989768	77.39246	2.772025	0.019719
208394_x_at	endothelial cell-specific molecule 1	4.210249	1.814042	16.03136	77.31201	2.480405	0.03252
220420_at	ERGL protein; ERGIC-53-like protein	3.990794	1.995937	24.31367	83.10455	3.568094	0.005112
212464_s_at	fibronectin 1	3.027239	1.450574	33.10305	368.1229	2.656854	0.024029
220975_s_at	G protein coupled receptor interacting protein, complement-c1q tumor necrosis factor-related	4.236134	1.856673	24.84047	170.8529	2.664407	0.023719
208138_at	gastrin	3.441687	1.535491	6.823553	77.64282	2.180058	0.05424
210604_at	gb:BC000233.1 /DEF=Homo sapiens, Similar to guanine nucleotide binding protein, alpha transducing 2, clone MGC:2232, mRNA, complete cds.� /FEA=mRNA /PROD=Similar to guanine nucleotide binding protein,alpha transducing 2 /DB_XREF=gi:12652948 /UG=Hs.36973	5.077669	2.762499	16.38245	80.46278	4.475223	0.001188
211050_x_at	gb:BC006361.1 /DEF=Homo sapiens, clone MGC:13137, mRNA, complete cds. /FEA=mRNA /PROD=Unknown (protein for MGC:13137) /DB_XREF=gi:13623508 /FL=gb:BC006361.1	5.503073	2.624031	15.57071	383.4792	3.033078	0.012611
219243_at	hypothetical protein FLJ11110	3.795932	2.120911	7.4637	76.19656	3.190013	0.009654
218980_at	hypothetical protein FLJ22297	3.435801	1.708353	12.82798	58.37362	2.852727	0.01717
206936_x_at	hypothetical protein PRO2849	3.102824	1.748145	7.086536	537.4518	3.127227	0.010741
210095_s_at	insulin-like growth factor binding protein 3	4.116424	1.512066	1E+08	873.8156	2.206966	0.051826
215019_x_at	KIAA1827 protein	3.775407	2.197426	7.250323	255.7726	3.479576	0.005925
204584_at	L1 cell adhesion molecule (hydrocephalus, stenosis of aqueduct of Sylvius 1, MASA (mental retardation, aphasia, shuffling gait and adducted thumbs) syndrome, spastic paraplegia 1)	8.466782	2.237602	136.2089	227.8034	2.067569	0.06555
210128_s_at	leukotriene b4 receptor (chemokine receptor-like 1)	3.460882	1.701936	9.207878	311.3803	2.612512	0.025929
206609_at	melanoma antigen, family C, 1	5.936284	1.626534	16.55376	98.39703	1.913617	0.084697
209087_x_at	melanoma cell adhesion molecule	3.004149	1.568267	9.188037	151.2247	2.768799	0.019828
207251_at	meprin A, beta	4.915123	2.561649	12.63885	91.02435	3.406494	0.006698
216506_x_at	myeloid/lymphoid or mixed-lineage leukemia (trithorax homolog, Drosophila); translocated to, 10	3.796902	1.633097	1E+08	128.3328	2.677636	0.023187
218625_at	neuritin	4.308414	1.328875	10.68883	125.5665	1.849121	0.094181
202237_at	nicotinamide N-methyltransferase	3.493173	1.536675	20.60048	612.2038	2.409733	0.0367
202238_s_at	nicotinamide N-methyltransferase	4.650178	1.615039	19.42241	235.7522	2.082173	0.063964
220106_at	NPC1 (Niemann-Pick disease, type C1, gene)-like 1	4.037583	1.619312	14.37606	54.29229	2.224503	0.050309
219058_x_at	P3ECSL	3.211187	1.440275	16.28181	121.8583	2.323128	0.042545
220402_at	p53-regulated apoptosis-inducing protein 1	5.48799	3.040909	13.28416	68.74042	4.072385	0.002242
208982_at	platelet/endothelial cell adhesion molecule (CD31 antigen)	3.020687	1.374831	7.196222	213.3723	2.12514	0.059506
204211_x_at	protein kinase, interferon-inducible double stranded RNA dependent	4.660095	2.222573	17.79695	334.6123	3.073877	0.011763
211697_x_at	putatative 28 kDa protein	3.729551	1.878871	11.29639	634.4173	2.943016	0.014709
200665_s_at	secreted protein, acidic, cysteine-rich (osteonectin)	3.211678	1.824605	5.194505	594.1334	2.768812	0.019828
209720_s_at	serine (or cysteine) proteinase inhibitor, clade B (ovalbumin), member 3	3.638843	2.206473	7.145749	189.1583	3.973006	0.002631
206057_x_at	sialophorin (gpL115, leukosialin, CD43)	4.646849	2.276652	17.26451	168.6982	3.241656	0.008845
216981_x_at	sialophorin (gpL115, leukosialin, CD43)	4.260845	2.889255	6.026821	516.5584	4.299507	0.001563
208494_at	solute carrier family 6 (neurotransmitter transporter, L-proline), member 7	3.256648	1.754293	11.98807	57.80192	3.440161	0.00633
204597_x_at	stanniocalcin 1	3.750919	1.618163	18.26665	160.5785	2.404671	0.037019
203438_at	stanniocalcin 2	4.216082	1.474771	10.15538	242.2934	1.972597	0.076812
203672_x_at	thiopurine S-methyltransferase	6.367772	2.953888	20.2083	323.8543	3.087637	0.01149
204623_at	trefoil factor 3 (intestinal)	4.864361	1.559206	40.00087	720.2359	2.027561	0.07009
214023_x_at	tubulin, beta polypeptide	3.541156	1.591252	10.63719	70.70816	2.352316	0.04048
205506_at	villin 1	3.392864	1.772416	11.27238	64.94592	3.113215	0.011
202112_at	von Willebrand factor	3.285044	1.464473	16.50657	128.0813	2.336232	0.041606
222136_x_at	zinc finger protein 43 (HTF6)	8.691041	3.091622	1E+08	121.5782	3.310116	0.007878