Gene expression changes and molecular pathways mediating activity-dependent plasticity in visual cortex.
Daniela Tropea, Gabriel Kreiman, Alvin Lyckman, Sayan Mukherjee, Hongbo Yu, Sam Horng, Mriganka Sur
Sorted by average MD expression
			Monocular deprivation (MD)										Dark-rearing (DR)
Gene Name	Gene Symbol	probe U74	Expression intensity level	SNR	Fold increase (MD/control)	p value MD vs Control Up		Percentile rank of probe (based on p value of upreg. probes)	p value MD vs Control Down		Percentile rank of probe (based on p value of downreg. probes)	PCR_MD	Expression intensity level	SNR	Fold increase (DR/control)	p value DR vs Control Upregulated		Percentile rank of probe (based on p value of upreg. probes)	p value DR vs Control Downregulated		Percentile rank of probe (based on p value of downreg. probes)	PCR_DR
Complement component factor-h-like	Cfh1	92291_f_at	47	-1.75	0.28				0.0006		86%	Downregulated	66	-1.67	0.39		none		0.0085		10%	Downregulated
Synaptoporin	Synpr	170676_r_at	68	-1.87	0.36				0.0004		88%	Downregulated	76	-1.65	0.40		none		0.0080	none	14%	Downregulated
synapsin2	Syn2	102671_at	80	0.35	1.36	0.2350						No change	137	2.27	2.34	0.0027	none	43%		none		Upregulated
Stat1	Stat1	101465_at;114635_at	189	0.81	1.87	0.0370						Upregulated	184	1.22	1.81	0.0150						No change
Procollagen-lysine	Plod	165010_f_at	218	-2.87	0.46				0.0003		91%	Upregulated	215	-3.05	0.45	0.0010	none	66%		none		Upregulated
troponinC	TnncC	101063_at	221	-2.85	0.30				0.0002		93%	Downregulated	238	-2.63	0.32		none		0.0016		74%	Downregulated
Protein inhibitor of activated STAT 1	Pias1	111170_at	235	2.44	2.29	0.0002		96%				Upregulated	306	4.72	2.99	0.0002		89%				Upregulated
L1 Cell Adhesion Molecule	L1cam	99800_at	241	0.97	4.13	0.0500						No change	512	3.53	8.79	0.0009		68%				Upregulated
Myosin, light polypeptide 4	Myl4	160487_at	254	-2.46	0.42				0.0002		93%	Downregulated	268	-4.62	0.45		none		0.0004		92%	No change
neurexin 1	Nrxn1	138062_at	321	0.61	2.01	0.1850						No change	760	1.79	4.76	0.0140	none			none		Upregulated
Phosphatidylinositol-4-phosphate 5-kinase	Pip5	161763_r_at	333	-2.67	0.35				0.0001		96%	Downregulated	613	-2.66	0.64		none		0.0022		66%	Downregulated
Creb 1	Creb1	104685_g_at	348	0.09	1.12	0.4250						Downregulated	762	2.53	2.44	0.0017		53%				Upregulated
CamK2 alpha	Camk2a	93660_at;93659_at	357	0.22	1.33	0.0320						Downregulated	1280	1.72	3.72	0.0095		3%				Upregulated
Glutamate receptor, AMPA 3	Gria3	97793_at	397	2.20	2.11	0.0015		81%				Upregulated	712	4.42	3.79	0.0001		94%				Upregulated
Glutamate receptor, AMPA 1	Gria1	92944_at	406	0.60	1.45	0.0160						Downregulated	1022	4.44	3.66	0.0001		94%				Upregulated
Histone 3	H2ba	111966_at	470	-1.78	0.59				0.0007		84%	No change	771	-1.89	0.98		none		0.0055		33%	No change
Nedd8	Nedd8	162180_r_at;93519_s_at;115602_at	509	-1.14	0.62	0.0072		20%				Upregulated	643	-2.20	0.79	0.0350						Upregulated
Nuclear factor I/B	Nfib	99440_at	819	2.06	1.86	0.0004		93%				Upregulated	800	2.00	2.71	0.0004		80%				Upregulated
Ddx6	Ddx6	93964_s_at	994	0.55	1.89	0.0475						Upregulated	497	-0.26	0.95	0.4300						Downregulated
CamK2 delta	Camk2d	169012_s_at	2155	1.25	2.24	0.0270	0.01					Upregulated	2790	3.19	3.30	0.0006		75%				No change
Insulin-like growth factor binding protein 5	Igfbp5	100566_at	2741	2.54	2.56	0.0013		85%				Upregulated	2137	3.56	2.48	0.0017		54%				Upregulated
Hemoglobin alpha adult chain 1	Hba	162457_f_at	2993	-2.61	0.43				0.0001		96%	No change	3114	-2.30	0.52		none		0.0045		62%	No change
Synaptotagmin1	Syt1	105700_at	6205	0.94	1.47	0.0400						No change	8505	2.26	2.11	0.0030		40%				Upregulated
protein kinase C, beta	Prkcb	138460_at	6842	0.85	1.68	0.0450						Upregulated	9883	1.65	2.52	0.0170	0.01076					Upregulated
GABA A receptor subunit alpha 2	Gabra2	139519_at	21432	2.28	1.95	0.0013		85%				Upregulated	19113	2.32	1.79	0.0060		20%				Upregulated
Median								85%			92%							66%			66%
Average								77%			91%							60%			60%