Table 2.

Statistically significant reactome⁴⁶ pathways identified ($\text{FDR}<3\times {10}^{-3}$ results shown).

Reactome pathway	Matched IDs	p value	FDR
A. Total saliva mRNA: $\mathbf{TF}\mathrm{\Delta }$
(i) Class: Lag 1, G1S1
Endosomal/vacuolar pathway	15	$1.6\times {10}^{-9}$	$1.6\times {10}^{-6}$
Antigen presentation: folding, assembly and peptide loading of class I MHC	16	$4.0\times {10}^{-9}$	$2.0\times {10}^{-6}$
Interferon gamma signaling	22	$1.8\times {10}^{-7}$	$5.9\times {10}^{-5}$
ER-Phagosome pathway	17	$5.0\times {10}^{-7}$	$1.1\times {10}^{-4}$
Interferon alpha/beta signaling	18	$5.7\times {10}^{-7}$	$1.1\times {10}^{-4}$
Antigen processing-cross presentation	17	$2.7\times {10}^{-6}$	$4.4\times {10}^{-4}$
Insulin-like growth factor-2 mRNA binding proteins (IGF2BPs/IMPs/VICKZs) bind RNA	5	$1.6\times {10}^{-5}$	$2.2\times {10}^{-3}$
Attenuation phase	8	$1.8\times {10}^{-5}$	$2.2\times {10}^{-3}$
Interferon signaling	24	$2.5\times {10}^{-5}$	$2.8\times {10}^{-3}$
Neutrophil degranulation	27	$2.8\times {10}^{-5}$	$2.8\times {10}^{-3}$
(ii) Class: Lag 1, G1S2
Translocation of ZAP-70 to Immunological synapse	14	$1.1\times {10}^{-16}$	$2.2\times {10}^{-14}$
Phosphorylation of CD3 and TCR zeta chains	14	$1.1\times {10}^{-16}$	$2.2\times {10}^{-14}$
Generation of second messenger molecules	15	$1.1\times {10}^{-16}$	$2.2\times {10}^{-14}$
PD-1 signaling	14	$1.1\times {10}^{-16}$	$2.2\times {10}^{-14}$
Interferon gamma signaling	22	$1.8\times {10}^{-15}$	$2.8\times {10}^{-13}$
Costimulation by the CD28 family	15	$2.4\times {10}^{-14}$	$3.1\times {10}^{-12}$
TCR signaling	17	$4.2\times {10}^{-14}$	$4.7\times {10}^{-12}$
Downstream TCR signaling	16	$4.8\times {10}^{-14}$	$4.7\times {10}^{-12}$
Interferon signaling	23	$1.7\times {10}^{-12}$	$1.5\times {10}^{-10}$
MHC class II antigen presentation	14	$1.1\times {10}^{-10}$	$8.8\times {10}^{-9}$
Cytokine signaling in immune system	33	$5.5\times {10}^{-8}$	$3.9\times {10}^{-6}$
Insulin-like growth factor-2 mRNA Binding Proteins (IGF2BPs/IMPs/VICKZs) bind RNA	5	$1.6\times {10}^{-7}$	$1.0\times {10}^{-5}$
Immune system	50	$1.1\times {10}^{-6}$	$6.4\times {10}^{-5}$
Neutrophil degranulation	16	$8.2\times {10}^{-6}$	$4.6\times {10}^{-4}$
Adaptive immune system	23	$3.3\times {10}^{-5}$	$1.7\times {10}^{-3}$
B. Total saliva mRNA: TFD
(i) Class: Lag 1, G1S1
Endosomal/vacuolar pathway	16	$4.1\times {10}^{-11}$	$3.6\times {10}^{-8}$
Interferon alpha/beta signaling	22	$1.3\times {10}^{-10}$	$5.7\times {10}^{-8}$
Interferon signaling	29	$8.9\times {10}^{-9}$	$2.6\times {10}^{-6}$
Cytokine signaling in immune system	59	$2.8\times {10}^{-9}$	$4.6\times {10}^{-6}$
Interferon gamma signaling	22	$3.1\times {10}^{-8}$	$5.3\times {10}^{-6}$
Antigen presentation: folding, assembly and peptide loading of class I MHC	14	$5.4\times {10}^{-8}$	$7.8\times {10}^{-6}$
Insulin-like growth factor-2 mRNA Binding Proteins (IGF2BPs/IMPs/VICKZs) bind RNA	6	$4.3\times {10}^{-7}$	$4.8\times {10}^{-5}$
Immune system	97	$4.4\times {10}^{-7}$	$4.8\times {10}^{-5}$
Antigen processing-cross presentation	17	$6.7\times {10}^{-7}$	$6.5\times {10}^{-5}$
Interleukin-4 and interleukin-13 signaling	18	$7.8\times {10}^{-7}$	$6.7\times {10}^{-5}$
ER-phagosome pathway	14	$1.4\times {10}^{-5}$	$1.1\times {10}^{-3}$
(ii) Class: Lag 1, G1S2
Response of EIF2AK4 (GCN2) to amino acid deficiency	13	$3.6\times {10}^{-7}$	$1.5\times {10}^{-4}$
Cytokine signaling in immune system	51	$4.1\times {10}^{-7}$	$1.5\times {10}^{-4}$
Immune system	88	$4.9\times {10}^{-7}$	$1.5\times {10}^{-4}$
ATF4 activates genes in response to endoplasmic reticulum stress	7	$4.4\times {10}^{-6}$	$9.8\times {10}^{-4}$
Innate immune system	48	$7.1\times {10}^{-6}$	$1.3\times {10}^{-3}$
PERK regulates gene expression	7	$1.7\times {10}^{-5}$	$2.0\times {10}^{-3}$
CLEC7A/inflammasome pathway	4	$1.8\times {10}^{-5}$	$2.0\times {10}^{-3}$
Interleukin-1 processing	4	$1.8\times {10}^{-5}$	$2.0\times {10}^{-3}$