Optic nerve crush induces spatial and temporal gene expression patterns in retina and optic nerve of BALB/cJ mice

Table 4 Temporal classification of down-regulated ON gene cluster changes following ONC

Gene ontology	Clusters	Time point	P value
Molecular function	Calmodulin binding	3 dpc	6.50E-04
	Voltage gated ion channel activity	3 dpc	6.70E-04
	Ion binding	3 dpc	3.90E-04
	Enzyme binding	3 dpc	5.80E-03
	GABA receptor activity	3 dpc	6.70E-03
	Ligand gated ion channel activity	3 dpc	1.80E-02
	Calmodulin binding	7 dpc	1.30E-02
	Calcium dependent phospholipid binding	7 dpc	1.40E-04
	Nuclease activity	21 dpc	2.50E-02
	Microtubule binding	21 dpc	2.50E-02
	Motor activity	21 dpc	1.80E-02
	Cytokine activity	28 dpc	2.90E-02
Biological process	Potassium ion transport	3 dpc	4.80E-05
	Cation transport	3 dpc	5.30E-04
	Neurotransmitter transport	3 dpc	3.80E-03
	Synaptic transmission	3 dpc	1.40E-02
	Calcium ion transport	3 dpc	1.10E-02
	Neurofilament cytoskeleton organization	3 dpc	1.20E-03
	Intermediate filament cytoskeleton organization	3 dpc	2.00E-03
	Neurotransmitter transport	3 dpc	3.80E-03
	MAPKKK cascade	3 dpc	2.40E-02
	Microtubule based process	7 dpc	1.10E-02
	Visual perception	14 dpc	4.40E-05
	Cognition	14 dpc	6.50E-03
	Neurological process	14 dpc	1.40E-02
	Microtubule based process	21 dpc	1.30E-05
	Lipid biosynthetic process	21 dpc	2.20E-02
	Visual perception	28 dpc	3.20E-10
	Sensory perception	28 dpc	2.90E-02
	Eye development	28 dpc	4.80E-05
	Immune response	28 dpc	4.70E-02
Cellular component	Synapse	3 dpc	4.30E-06
	Cell junction	3 dpc	6.30E-04
	Post synaptic membrane	3 dpc	1.10E-03
	Presynaptic membrane	3 dpc	5.20E-05
	Synapse part	7 dpc	2.90E-04
	Cell junction	7 dpc	3.90E-03
	Cell projection	7 dpc	3.10E-03
	Clathrin coated vesicle	7 dpc	1.00E-02
	Cytoskeleton	21 dpc	2.30E-02
	Anchored to membrane	28 dpc	4.30E-02

Gene expression fold-change values were grouped individually from naïve eyes and ONC eyes out to 28 days post crush (dpc). Genes were highlighted based on fold values for down-regulated (≤ −1.5) optic nerve datasets. The selected genes were analyzed by gene ontology (GO) based cluster identification at each time point using DAVID. Significance was determined using the Benjamini multiple test correction, GO enrichment score χ² test and Fishers Exact test (p < 0.05).

ISSN: 1750-1326