Table 2.
GO and pathway terms associated with differentially expressed APA sites following sleep deprivation/recovery
| GO description | size | overlap | expect | ratio | p-value | FDR | database |
|---|---|---|---|---|---|---|---|
| ZT6 vs R0 | |||||||
| synaptic membrane | 396 | 5 | 0.37 | 13.40 | 1.88E-05 | 1.79E-02 | CC |
| neuron-to-neuron synapse | 322 | 4 | 0.30 | 13.18 | 1.69E-04 | 4.52E-02 | CC |
| postsynaptic specialization | 327 | 4 | 0.31 | 12.98 | 1.80E-04 | 4.52E-02 | CC |
| localization within membrane | 130 | 3 | 0.12 | 24.48 | 2.14E-04 | 4.52E-02 | BP |
| glutamatergic synapse | 368 | 4 | 0.35 | 11.53 | 2.83E-04 | 4.52E-02 | CC |
| phosphatase binding | 143 | 3 | 0.13 | 22.26 | 2.83E-04 | 4.52E-02 | MF |
| ZT10 vs R4 | |||||||
| synaptic membrane | 396 | 31 | 8.09 | 3.83 | 1.22E-10 | 1.17E-07 | CC |
| glutamatergic synapse | 368 | 26 | 7.51 | 3.46 | 3.52E-08 | 1.68E-05 | CC |
| neuron-to-neuron synapse | 322 | 23 | 6.58 | 3.50 | 1.86E-07 | 5.85E-05 | CC |
| postsynaptic specialization | 327 | 23 | 6.68 | 3.44 | 2.45E-07 | 5.85E-05 | CC |
| regulation of trans-synaptic signaling | 375 | 24 | 7.66 | 3.13 | 7.43E-07 | 1.42E-04 | BP |
| neuron spine | 182 | 16 | 3.72 | 4.30 | 9.83E-07 | 1.57E-04 | CC |
| glutamate receptor signaling pathway | 78 | 10 | 1.59 | 6.28 | 3.94E-06 | 5.38E-04 | BP |
| regulation of synapse structure or activity | 201 | 15 | 4.10 | 3.65 | 1.60E-05 | 1.91E-03 | BP |
| synaptic transmission, glutamatergic | 83 | 9 | 1.69 | 5.31 | 4.73E-05 | 5.02E-03 | BP |
| regulation of neuron projection development | 422 | 22 | 8.62 | 2.55 | 5.46E-05 | 5.22E-03 | BP |
| localization within membrane | 130 | 11 | 2.65 | 4.14 | 7.10E-05 | 6.17E-03 | BP |
| behavior | 464 | 22 | 9.48 | 2.32 | 2.15E-04 | 1.71E-02 | BP |
| positive regulation of nervous system development | 447 | 21 | 9.13 | 2.30 | 3.39E-04 | 2.41E-02 | BP |
| protein exit from endoplasmic reticulum | 31 | 5 | 0.63 | 7.90 | 3.76E-04 | 2.41E-02 | BP |
| synapse organization | 296 | 16 | 6.04 | 2.65 | 3.86E-04 | 2.41E-02 | BP |
| axon part | 389 | 19 | 7.94 | 2.39 | 4.03E-04 | 2.41E-02 | CC |
| presynapse | 489 | 22 | 9.99 | 2.20 | 4.44E-04 | 2.50E-02 | CC |
| cell part morphogenesis | 428 | 20 | 8.74 | 2.29 | 5.02E-04 | 2.52E-02 | BP |
| dendrite development | 189 | 12 | 3.86 | 3.11 | 5.06E-04 | 2.52E-02 | BP |
| regulation of G protein-coupled receptor signaling pathway | 91 | 8 | 1.86 | 4.30 | 5.35E-04 | 2.52E-02 | BP |
| cell leading edge | 276 | 15 | 5.64 | 2.66 | 5.53E-04 | 2.52E-02 | CC |
| endoplasmic reticulum to cytosol transport | 21 | 4 | 0.43 | 9.33 | 7.73E-04 | 3.23E-02 | BP |
| excitatory synapse | 54 | 6 | 1.10 | 5.44 | 7.78E-04 | 3.23E-02 | CC |
| endocytosis | 418 | 19 | 8.54 | 2.23 | 9.62E-04 | 3.83E-02 | BP |
| forebrain development | 295 | 15 | 6.02 | 2.49 | 1.09E-03 | 4.18E-02 | BP |
| receptor metabolic process | 127 | 9 | 2.59 | 3.47 | 1.17E-03 | 4.31E-02 | BP |
| ZT10 vs R4 | |||||||
| Pathway description | size | overlap | expect | ratio | p-value | FDR | database |
| mRNA surveillance pathway | 95 | 11 | 1.81 | 6.07 | 1.83E-06 | 3.40E-03 | KEGG |
GO and pathway analyses were performed on lists of genes with ≥2 APA sites that exhibited differential expression of at least 1 APA site following sleep deprivation/recovery compared to controls using the over-representation analysis function of the online web tool WebGestalt. GO or pathway description is followed by the size (total number of genes that the term is comprised of), overlap (number of input genes matching the term), expect (number of input genes expected to match by chance), ratio (number of actual/expected matches), p-Value (probability), FDR (false discovery rate; probability adjusted for multiple sampling), database (For the GO analysis: BP Biological process, CC Cellular Component, MF Molecular Function. For the pathway analysis: KEGG is Kyoto Encyclopedia of Genes and Genomes).