Table 1. Top genes up- or downregulated in tumors from A-I Tg^+/– versus A-I KO.

Table 1A: Upregulated genes in A-ITg vs A-IKO mice
Probe_ID	Accession no.	Symbol	Name	FC	adj. p-value
ILMN_1251748	NM_139200.4	Cytip	cytohesin 1 interacting protein	1.83	0.04
ILMN_1253182	NM_010474.1	Hs3st1	heparan sulfate (glucosamine) 3-O-sulfotransferase 1	1.81	0.012
ILMN_2622983	NM_013642.2	Dusp1	dual specificity phosphatase 1	1.67	0.033
ILMN_3161601	NM_009221.2	Snca	synuclein, alpha (non A4 component of amyloid precursor)	1.54	0.011
ILMN_2705166	NM_145933.3	St6gal1	ST6 beta-galactosamide alpha-2,6-sialyltranferase 1	1.49	0.012
ILMN_2722732	NM_011157.2	Srgn	serglycin	1.46	0.015
ILMN_3136638	NM_009221.2	Snca	synuclein, alpha (non A4 component of amyloid precursor)	1.44	0.011
ILMN_1254031	NM_010638.4	Klf9	Kruppel-like factor 9	1.43	0.008
ILMN_3161105	NM_001033476.1	Ahnak2	AHNAK nucleoprotein 2	1.42	0.047
ILMN_2829594	NM_010479.2	Hspa1a	heat shock 70kDa protein 1A	1.4	0.006
ILMN_2754985	NM_009344.1	Phlda1	pleckstrin homology-like domain, family A, member 1	1.4	0.006
ILMN_2824971	NM_001004761.1	Gpr158	G protein-coupled receptor 158	1.39	0.011
ILMN_2896314	NM_015732.3	Axin2	axin 2	1.38	0.004
ILMN_1233064	NM_183417.2	Cdk2	cyclin-dependent kinase 2	1.37	0.009
ILMN_2892441	NM_010357.1	Gsta4	glutathione S-transferase alpha 4	1.37	0.029
ILMN_2831799	NM_019517.2	Bace2	beta-site APP-cleaving enzyme 2	1.36	0.013
ILMN_2623280	NM_011019.1	Osmr	oncostatin M receptor	1.36	0.008
ILMN_2522236	NM_011661.3	Tyr	tyrosinase	1.36	0.039
ILMN_3114585	NM_001039150.1	Cd44	CD44 molecule	1.35	0.002
ILMN_1252202	NM_009397.2	Tnfaip3	tumor necrosis factor, alpha-induced protein 3	1.34	0.03
ILMN_2612895	NM_013484.1	C2	complement component 2	1.34	0.014
ILMN_2680415	NM_172537.2	Sema6d	Semaphorin	1.34	0.028
ILMN_1246153	NM_133362.2	Erdr1	erythroid differentiation regulator 1	1.34	0.017
ILMN_1240323	NM_018808.1	Dnajb1	DnaJ (Hsp40) homolog, subfamily B, member 1	1.34	0.001
ILMN_2813484	NM_011065.2	Per1	period circadian clock 1	1.33	0.015
ILMN_2774690	XM_001004685.1	LOC677317	similar to NADP-dependent malic enzyme (NADP-ME) (Malic enzyme 1)	1.33	0.049
ILMN_2734181	NM_019811.3	Acss2	acyl-CoA synthetase short-chain family member 2	1.32	0.026
ILMN_1226157	NM_181585.5	Pik3r3	phosphoinositide-3-kinase, regulatory subunit 3 (gamma)	1.32	0.042
ILMN_2746556	NM_015814.2	Dkk3	dickkopf 3 homolog (Xenopus laevis)	1.31	0.022
ILMN_3073563	NM_001001884.1	C230021P08Rik	Nckap5l NCK-associated protein 5-like	1.31	0.015
ILMN_2776619	NM_008520.2	Ltbp3	latent transforming growth factor beta binding protein 3	1.3	0.012
ILMN_1258600	XM_001481024.1	LOC100043671	LOC100043671 hypothetical protein	1.3	0.04
ILMN_2870672	NM_010180.1	Fbln1	fibulin 1	1.3	0.015

Table 1B: Downregulated genes in A-ITg vs A-IKO mice
Probe_ID	Accession no.	Symbol	Name	FC	adj. p-value
ILMN_2790181	NM_016966.3	Phgdh	phosphoglycerate dehydrogenase	1.57	0.027
ILMN_3081854	NM_001025245.1	Mbp	myelin basic protein	1.48	0.023
ILMN_2600348	NM_009270.3	Sqle	squalene epoxidase	1.47	0.004
ILMN_2634905	NM_007994.3	Fbp2	fructose-1,6-bisphosphatase 2	1.45	0.022
ILMN_2772274	NM_001079694.1	Sfrs5	serine/arginine-rich splicing factor 5	1.37	0.002
ILMN_2688075	NM_020010.2	Cyp51	cytochrome P450, family 51	1.35	0.005
ILMN_3148662	NM_001079695.1	Sfrs5	serine/arginine-rich splicing factor 5	1.35	0.009
ILMN_2712557	NM_024439.3	H47	histocompatibility 47 Gene	1.34	0.032
ILMN_2996877	NM_010063.1	Dync1i1	dynein cytoplasmic 1 intermediate chain 1	1.34	0.013
ILMN_2700292	NM_010376.3	H13	histocompatibility 13	1.33	0.011
ILMN_2630641	NM_009272.4	Srm	spermidine synthase	1.33	0.009
ILMN_2737163	NM_009270.3	Sqle	squalene epoxidase	1.32	0.004
ILMN_2761594	NM_007705.2	Cirbp	cold inducible RNA binding protein	1.32	0.009
ILMN_2660414	NM_025442.3	Alg5	ALG5, dolichyl-phosphate beta-glucosyltransferase	1.32	0.018
ILMN_3086899	NM_198104.2	Tcte3	t-complex-associated-testis-expressed 3	1.32	0.004
ILMN_2823778	NM_025436.1	Sc4mol	(testis meiosis-activating sterol/sterol C4-methyl oxidase–like)	1.32	0.028
ILMN_2642417	NM_008590.1	Mest	mesoderm specific transcript	1.31	0.048
ILMN_1247916	NM_144862.3	Lims2	LIM and senescent cell antigen-like domains 2	1.31	0.044
ILMN_2739825	NM_010063.1	Dync1i1	dynein cytoplasmic 1 intermediate chain 1	1.31	0.032
ILMN_1229529	NM_010476.3	Hsd17b7	hydroxysteroid (17-beta) dehydrogenase 7	1.3	0.004
ILMN_2606693	NM_153526.4	Insig1	insulin induced gene 1	1.3	0.031
ILMN_1238654	NM_027352.3	Gorasp2	golgi reassembly stacking protein 2	1.3	0.041

(A) Upregulated genes. (B) Downregulated genes. Eleven separate primary tumors from eleven A-I Tg^+/– or A-I KO mice were subjected to differential gene expression analysis. Probes were considered significant if they met the criteria FDR adjusted p < 0.05 and fold-change (FC) cut off > 1.2. The complete list of significant genes is shown in Supplementary Tables 1 and 2.