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).