Table 2.
Significant pathways involved in neurotransmitter signaling identified by Signaling Pathway Impact Analysis (SPIA).
| Database | Pathway | pSize | NDE | pNDE | tA | pPERT | pG | pGFdr | pGFWER | Status |
|---|---|---|---|---|---|---|---|---|---|---|
| REACTOME | Neurotransmitter Receptor Binding And Downstream Transmission In The Postsynaptic Cell | 109 | 41 | 9.11E-05 | 250.53 | 5.00E-06 | 1.03E-08 | 3.37E-06 | 3.37E-06 | Activated |
| REACTOME | Activation of NMDA receptor upon glutamate binding and postsynaptic events | 26 | 10 | 3.72E-02 | 50.73 | 5.00E-06 | 3.07E-06 | 5.05E-04 | 1.01E-03 | Activated |
| KEGG | GABAergic synapse | 64 | 25 | 1.08E-03 | −4.55 | 2.20E-02 | 2.76E-04 | 5.10E-03 | 3.26E-02 | Inhibited |
| KEGG | Dopaminergic synapse | 116 | 40 | 8.73E-04 | −0.18 | 9.48E-01 | 6.70E-03 | 3.55E-02 | 7.90E-01 | Inhibited |
| KEGG | Cholinergic synapse | 91 | 29 | 1.40E-02 | 11.92 | 7.70E-02 | 8.45E-03 | 3.80E-02 | 9.97E-01 | Activated |
Out of significant pathways (pGFdr < 0.05) the neurotransmission signaling-related pathways are shown in the table. Legend to figure: pSize, the number of genes in the pathway; NDE, number of differentially expressed genes in the pathway; pNDE, hypergeometric probability of observing NDE differentially expressed genes in the pathway by chance; tA, observed value of the perturbation score; pPERT, bootstrap probability associated to tA; pG, combined probability of pNDE and pPERT; pGFDR, adjusted pG using False Discovery Rate correction; pGFWER, adjusted pG using Family Wise Error Rate (Bonferroni); STATUS, Inhibition/Activation according to the negative/positive sign of tA.