Table 3.
Temporal classification of up-regulated ON gene cluster changes following ONC
| Gene ontology | Clusters | Time point | P value |
|---|---|---|---|
| Molecular function |
Chemokine activity |
3 dpc |
6.50E-06 |
| |
Growth factor binding |
3 dpc |
1.10E-03 |
| |
Actin binding |
3 dpc |
9.10E-03 |
| |
Serine type endopeptidase inhibitor activity |
7 dpc |
7.10E-04 |
| |
Chemokine activity |
14 dpc |
6.70E-09 |
| |
Cytokine activity |
14 dpc |
6.00E-06 |
| |
Chemokine activity |
21 dpc |
1.60E-04 |
| |
Cytokine binding |
21 dpc |
4.30E-04 |
| |
Ion channel activity |
28 dpc |
1.20E-09 |
| |
Calcium ion binding |
28 dpc |
7.70E-07 |
| |
GABA receptor activity |
28 dpc |
4.30E-04 |
| |
Neurotransmitter binding |
28 dpc |
4.00E-03 |
| |
Calcium channel activity |
28 dpc |
9.10E-03 |
| |
Protein kinase activator activity |
28 dpc |
8.80E-03 |
| Biological process |
Defense response |
3 dpc |
6.20E-05 |
| |
Translation |
3 dpc |
1.20E-03 |
| |
Cell cycle |
3 dpc |
3.10E-06 |
| |
Leukocyte activation |
3 dpc |
2.10E-04 |
| |
Actin cytoskeleton organization |
3 dpc |
6.80E-03 |
| |
Regulation of adaptive immune response |
3 dpc |
3.60E-04 |
| |
Positive regulation of programmed cell death |
3 dpc |
1.20E-03 |
| |
Positive regulation of axonogenesis |
3 dpc |
2.10E-02 |
| |
Sensory perception |
7 dpc |
2.90E-02 |
| |
Immune response |
14 dpc |
3.40E-08 |
| |
Chemotaxis |
14 dpc |
2.60E-07 |
| |
Response to wounding |
14 dpc |
1.10E-06 |
| |
Cell activation |
14 dpc |
5.70E-05 |
| |
Defense response |
21 dpc |
1.60E-08 |
| |
Response to wounding |
21 dpc |
4.00E-06 |
| |
Chemotaxis |
21 dpc |
2.60E-06 |
| |
Regulation of adaptive immune response |
21 dpc |
5.40E-06 |
| |
Phagocytosis |
21 dpc |
7.10E-03 |
| |
Neuropeptide signaling pathway |
21 dpc |
2.50E-02 |
| |
Ion transport |
28 dpc |
2.70E-06 |
| |
Transmission of nerve impulse |
28 dpc |
6.30E-08 |
| |
Synaptic transmission |
28 dpc |
1.20E-06 |
| |
Synaptic vesicle transport |
28 dpc |
4.60E-03 |
| |
Regulation of synaptic plasticity |
28 dpc |
2.40E-03 |
| |
Regulation of synaptic transmission |
28 dpc |
6.40E-03 |
| |
Synaptogenesis |
28 dpc |
1.50E-02 |
| |
Cell adhesion |
28 dpc |
3.20E-02 |
| Cellular component |
Chromosome |
3 dpc |
1.50E-09 |
| |
Extracellular region part |
3 dpc |
8.80E-08 |
| |
Collagen |
3 dpc |
6.00E-03 |
| |
Focal adhesion |
3 dpc |
7.20E-03 |
| |
Anchoring junction |
3 dpc |
2.50E-02 |
| |
Extracellular region |
7 dpc |
9.80E-04 |
| |
Extracellular region |
14 dpc |
3.30E-03 |
| |
Cell surface |
14 dpc |
2.80E-04 |
| |
Extracellular region |
21 dpc |
2.60E-04 |
| |
Synapse part |
28 dpc |
1.90E-13 |
| |
Postsynaptic membrane |
28 dpc |
1.90E-07 |
| |
Neuron projection |
28 dpc |
3.30E-07 |
| |
Dendrite |
28 dpc |
2.30E-05 |
| |
Synaptosome |
28 dpc |
3.10E-04 |
| |
Postsynaptic density |
28 dpc |
5.60E-03 |
| Synaptic vesicle | 28 dpc | 2.60E-03 |
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 up-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).