Table 1. RARγ primary target genes identified using microarrays U74Av2.

Wt and RARγ^−/− F9 cells were treated for 6 h with 1 μg/ml cycloheximide and 1 μM RA. Only those genes with at least a 2.0-fold change in F9 Wt cells relative to F9 RARγ^−/− cells in both sets of microarrays with p values ≤0.05 are shown. Fold change=F9 Wt/F9 RARγ^−/−.

Affymetrix ID	Fold Changeab	Gene Symbol	Gene Title
103086_at	10.94	Hoxa5	homeo box A5
102087_at	10.6	Hoxa3	homeo box A3
97426_at	9.359	Emp1	epithelial membrane protein 1
94813_at	7.189	Gas1	growth arrest specific 1
97379_at	5.973	Fbp2	fructose bisphosphatase 2
104378_at	5.521	Pon2	paraoxonase 2
104464_s_at	4.512	Kdelr3	KDEL (Lys-Asp-Glu-Leu) endoplasmic reticulum protein retention receptor 3
101861_at	4.397	Sgce	sarcoglycan, epsilon
98320_at	4.226	Cyp26a1	cytochrome P450, family 26, subfamily a, polypeptide 1
104406_at	4.208	Ptges	Prostaglandin E synthase
100914_at	4.204		Transcribed sequences
104580_at	4.168	Plcd	phospholipase C, delta
93503_at	4.129	Sfrp2	Secreted frizzled-related sequence protein 2
95016_at	4.056	Nrp	Neuropilin
102649_s_at	4.051	Raet1a	retinoic acid early transcript 1, alpha
103653_at	3.88	Mras	muscle and microspikes RAS
99665_at	3.666	Satb1	special AT-rich sequence binding protein 1
92502_at	3.588	Plagl1	pleiomorphic adenoma gene-like 1
161013_f_at	3.435	4930422J18Rik	RIKEN cDNA 4930422J18 gene
161817_f_at	3.405	4930422J18Rik	RIKEN cDNA 4930422J18 gene
103761_at	3.403	Tcfcp2l1	transcription factor CP2-like 1
104480_at	3.328	Dsg2	desmoglein 2
104701_at	3.322	Bhlhb2	basic helix-loop-helix domain containing, class B2
96662_at	3.195	Ppap2b	phosphatidic acid phosphatase type 2B
99045_at	3.152	Eno2	enolase 2, gamma neuronal
95474_at	3.087	F2r	coagulation factor II (thrombin) receptor
104375_at	3.062	Spock2	sparc/osteonectin, cwcv and kazal-like domains proteoglycan 2
92501_s_at	2.963	Plagl1	pleiomorphic adenoma gene-like 1
93994_at	2.941	Chpt1	choline phosphotransferase 1
92582_at	2.776	Slc1a5	solute carrier family 1 (neutral amino acid transporter), member 5
94027_at	2.737		CDNA clone IMAGE:30033444, partial cds
97353_at	2.706	Dab2ip	Disabled homolog 2 (Drosophila) interacting protein
102712_at	2.706	Saa3	serum amyloid A 3
100011_at	2.575	Klf3	Kruppel-like factor 3 (basic)
160961_at	2.57	Sipa1l2	signal-induced proliferation-associated 1 like 2
102886_at	2.553	Gpc4	glypican 4
92241_at	2.507	1110019L22Rik	RIKEN cDNA 1110019L22 gene
100410_at	2.47	C330027G06Rik	RIKEN cDNA C330027G06 gene
94418_at	2.467	Elovl6	ELOVL family member 6, elongation of long chain fatty acids (yeast)
98016_at	2.46	D3Wsu161e	DNA segment, Chr 3, Wayne State University 161, expressed
100528_at	2.45	Ube2h	ubiquitin-conjugating enzyme E2H
95161_at	2.409	Ctdsp2	CTD (carboxy-terminal domain, RNA polymerase II, polypeptide A) small phosphatase 2
98535_at	2.402	Comt	catechol-O-methyltransferase
93083_at	2.392	Anxa5	annexin A5
160255_at	2.376	1110004P15Rik	RIKEN cDNA 1110004P15 gene
104576_at	2.371	Ski	Sloan-Kettering viral oncogene homolog
97509_f_at	2.37	Fgfr1	Fibroblast growth factor receptor 1
97138_at	2.369	9430077C05Rik	RIKEN cDNA 9430077C05 gene
92833_at	2.365	Hal	histidine ammonia lyase
99994_at	2.335	Cidea	Cell death-inducing DNA fragmentation factor, alpha subunit-like effector A
97711_at	2.322	B430320C24Rik	RIKEN cDNA B430320C24 gene
160188_at	2.29	Nudt4	nudix (nucleoside diphosphate linked moiety X)-type motif 4
104210_at	2.285	Itga3	integrin alpha 3
103288_at	2.276	Nrip1	nuclear receptor interacting protein 1
96207_at	2.264	Rbms1	RNA binding motif, single stranded interacting protein 1
160393_at	2.167	Etnk1	Ethanolamine kinase 1
92796_at	2.162	Akp2	alkaline phosphatase 2, liver
103614_at	2.128	Nfkb2	nuclear factor of kappa light polypeptide gene enhancer in B-cells 2, p49/p100
92368_at	2.047	Ramp3	receptor (calcitonin) activity modifying protein 3
100475_at	2.044	Trim25	B6-derived CD11 +ve dendritic cells cDNA, RIKEN full-length enriched library, clone:F730014H10 product:unclassifiable, full insert sequence
100962_at	2.039	Nab2	Ngfi-A binding protein 2
97452_at	2.038	H2afy	H2A histone family, member Y
160887_at	2.036	Hes1	hairy and enhancer of split 1 (Drosophila)
94408_at	2.025	Nab1	Ngfi-A binding protein 1
103551_at	2	2810431N21Rik	RIKEN cDNA 2810431N21 gene
160546_at	0.487	Aldo3	aldolase 3, C isoform
94829_at	0.466	1110020A09Rik	RIKEN cDNA 1110020A09 gene
92635_at	0.464	Tuba4	tubulin, alpha 4
98109_at	0.462	Mrpl55	Mitochondrial ribosomal protein L55
103549_at	0.459	Nes	Nestin
93483_at	0.458	Hck	hemopoietic cell kinase
98544_at	0.455	Guk1	Guanylate kinase 1
93543_f_at	0.452	Gstm1	glutathione S-transferase, mu 1
93836_at	0.439	Bnip3	BCL2/adenovirus E1B 19kDa-interacting protein 1, NIP3
97995_at	0.431	Tcf7	transcription factor 7, T-cell specific
160495_at	0.423	Ahr	Aryl-hydrocarbon receptor
103581_at	0.407	Cte1	cytosolic acyl-CoA thioesterase 1
94334_f_at	0.392	Ina	internexin neuronal intermediate filament protein, alpha
103405_at	0.388	2610019A05Rik	RIKEN cDNA 2610019A05 gene
160085_at	0.384	Tst	thiosulfate sulfurtransferase, mitochondrial
92786_at	0.359	Efhd1	EF hand domain containing 1
104652_at	0.349	Kcnk2	potassium channel, subfamily K, member 2
94335_r_at	0.346	Ina	internexin neuronal intermediate filament protein, alpha
95669_g_at	0.345	Stmn2	stathmin-like 2
93680_at	0.344	Stk10	serine/threonine kinase 10
99812_at	0.338	Capn3	calpain 3
95670_at	0.296	Stmn2	stathmin-like 2
95603_at	0.268	Gldc	glycine decarboxylase
95706_at	0.267	Lgals3	lectin, galactose binding, soluble 3
96244_at	0.239	Uchl1	ubiquitin carboxy-terminal hydrolase L1
104286_at	0.183	Slc38a4	solute carrier family 38, member 4
161068_at	0.12	3830422N12Rik	RIKEN cDNA 3830422N12 gene
100967_at	0.0994	Slc27a2	solute carrier family 27 (fatty acid transporter), member 2
104544_at	0.0981	4930517K11Rik	RIKEN cDNA 4930517K11 gene

^aAverage from three experiments.

^bSome genes have multiple distinct probes on the GeneChip® resulting in different fold-changes from different probes.