Molecular Vision: Kozulin, Mol Vis 2009; 15:45-59. Table 5

Table 5. Differentially regulated axon guidance genes, p<0.01

Gene title	Gene symbol	DE^# (%) Macula versus surround	DE^# (%) Macula versus nasal	Affymetrix Probe Set ID
actin binding LIM protein 1	ABLIM1	33.12	19.67	200965_s_at
Rho guanine nucleotide exchange factor (GEF) 12	ARHGEF12	20.26	27.86	201334_s_at
cell division cycle 42 (GTP binding protein, 25 kDa)	CDC42	47.89	60.9	214230_at
calcium binding protein P22	CHP	34.91	23.52	214665_s_at
chemokine (C-X-C motif) receptor 4	CXCR4	−48.13	−49.1	209201_x_at
chemokine (C-X-C motif) receptor 4	CXCR4	−51.04	−53.58	211919_s_at
chemokine (C-X-C motif) receptor 4	CXCR4	−45.38	−49.6	217028_at
ephrin-A4	EFNA4	−32.41	−42.61	205107_s_at
Eph receptor A6	EPHA6	14.76	19.94	1561396_at
Eph receptor B1	EPHB1	62.04	63.27	210753_s_at
Eph receptor B1	EPHB1	53.66	57.47	211898_s_at
Eph receptor B1	EPHB1	65.06	69.8	230425_at
Eph receptor B2	EPHB2	−34.75	−45.42	210651_s_at
FYN oncogene related to SRC, FGR, YES	FYN	17.01	16.65	216033_s_at
guanine nucleotide binding protein (G protein), alpha inhibiting activity polypeptide 3	GNAI3	−26.52	−18.49	201179_s_at
integrin, beta 1	ITGB1	−32.93	−36.94	1553678_a_at
integrin, beta 1	ITGB1	−27.88	−31.33	211945_s_at
NCK adaptor protein 1	NCK1	−26.42	−17.45	204725_s_at
neuropilin 1	NRP1	−39.47	−49.84	212298_at
netrin G1	NTNG1	92.48	272	236088_at
p21 protein (Cdc42/Rac)-activated kinase 3	PAK3	38.02	40.06	214607_at
p21 protein (Cdc42/Rac)-activated kinase 7	PAK7	40.33	45.9	213990_s_at
plexin C1	PLXNC1	−58.01	−60.43	206470_at
plexin C1	PLXNC1	−74.36	−67.57	206471_s_at
protein phosphatase 3 (formerly 2B), catalytic subunit, beta isoform	PPP3CB	20.31	21.65	202432_at
protein phosphatase 3 (formerly 2B), catalytic subunit, gamma isoform	PPP3CC	32.46	48.15	207000_s_at
protein phosphatase 3 (formerly 2B), catalytic subunit, gamma isoform	PPP3CC	35.88	42.04	32541_at
semaphorin 3D	SEMA3D	66.94	44.71	215643_at
semaphorin 4F	SEMA4F	39	46.44	210124_x_at
semaphorin 4F	SEMA4F	14.5	12.59	211157_at
semaphorin 4F	SEMA4F	44.54	39.42	228660_x_at
slit homolog 2 (Drosophila)	SLIT2	52.22	67.76	209897_s_at
slit homolog 2 (Drosophila)	SLIT2	57.58	65.8	228850_s_at
SLIT-ROBO Rho GTPase activating protein 2	SRGAP2	52	37.55	213329_at
unc-5 homolog D (C. elegans)	UNC5D	166.4	191.62	231325_at

Genes associated with the precocious development of the macula were excluded from further analysis. In the adjusted microarray data sets there was a high representation of genes associated with the axon guidance KEGG pathway. Sharp (hash mark) indicates that differential expression (DE) is the ratio of expression levels at the macula compared with nasal/surround, expressed here as a % value. For example, 50% DE indicates a 1.5 fold upregulation, and −50% DE indicates a 1.5 fold down-regulation.