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Table 3 Temporal classification of up-regulated ON gene cluster changes following ONC

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

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
  1. 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).