Table 3 Reactome pathway enrichment analysis results for protein Lag 1 aggregate results for \(\hbox {TF}\Delta\) and TFD (top 20 pathways based on FDR for each time frame shown).

From: Longitudinal saliva omics responses to immune perturbation: a case study

Reactome pathway

Matched IDs

p value

FDR

A. Total saliva protein: TF\(\Delta\)

Neutrophil degranulation

96

\(1.1\times 10^{-16}\)

\(6.8\times 10^{-14}\)

Innate immune system

135

\(1.1\times 10^{-16}\)

\(6.8\times 10^{-14}\)

Immune system

158

\(1.4\times 10^{-15}\)

\(5.9\times 10^{-13}\)

Signaling by ROBO receptors

34

\(1.2\times 10^{-13}\)

\(3.8\times 10^{-11}\)

Regulation of expression of SLITs and ROBOs

29

\(9.5\times 10^{-13}\)

\(2.3\times 10^{-10}\)

Eukaryotic translation elongation

22

\(1.7\times 10^{-12}\)

\(3.5\times 10^{-10}\)

Cellular responses to stress

58

\(3.3\times 10^{-12}\)

\(5.7\times 10^{-10}\)

Cellular responses to external stimuli

58

\(9.0\times 10^{-12}\)

\(1.4\times 10^{-9}\)

Peptide chain elongation

20

\(3.8\times 10^{-11}\)

\(5.2\times 10^{-9}\)

Nonsense-mediated decay (NMD)

22

\(6.8\times 10^{-11}\)

\(7.5\times 10^{-9}\)

Nonsense mediated decay (NMD) enhanced by the Exon Junction Complex (EJC)

22

\(6.8\times 10^{-11}\)

\(7.5\times 10^{-9}\)

Nonsense mediated decay (NMD) independent of the exon junction complex (EJC)

20

\(7.7\times 10^{-11}\)

\(7.8\times 10^{-9}\)

Eukaryotic translation termination

20

\(1.8\times 10^{-10}\)

\(1.7\times 10^{-8}\)

SRP-dependent cotranslational protein targeting to membrane

21

\(2.0\times 10^{-10}\)

\(1.8\times 10^{-8}\)

Viral mRNA translation

20

\(6.1\times 10^{-10}\)

\(4.9\times 10^{-8}\)

Formation of a pool of free 40S subunits

19

\(1.2\times 10^{-9}\)

\(8.8\times 10^{-8}\)

Platelet degranulation

21

\(2.4\times 10^{-9}\)

\(1.7\times 10^{-7}\)

Selenocysteine synthesis

19

\(3.2\times 10^{-9}\)

\(2.2\times 10^{-7}\)

Regulation of insulin-like growth factor (IGF) transport and uptake by insulin-like growth factor binding proteins (IGFBPs)

20

\(3.7\times 10^{-9}\)

\(2.4\times 10^{-7}\)

Response of EIF2AK4 (GCN2) to amino acid deficiency

19

\(4.3\times 10^{-9}\)

\(2.6\times 10^{-7}\)

B. Total saliva protein: TFD

Eukaryotic translation elongation

6

\(3.5\times 10^{-7}\)

\(1.6\times 10^{-4}\)

Nonsense-mediated decay (NMD)

6

\(1.1\times 10^{-6}\)

\(1.6\times 10^{-4}\)

Nonsense mediated decay (NMD) enhanced by the exon junction complex (EJC)

6

\(1.1\times 10^{-6}\)

\(1.6\times 10^{-4}\)

Signaling by ROBO receptors

7

\(3.2\times 10^{-6}\)

\(2.9\times 10^{-4}\)

Translation

8

\(3.2\times 10^{-6}\)

\(2.9\times 10^{-4}\)

Peptide chain elongation

5

\(6.9\times 10^{-6}\)

\(4.7\times 10^{-4}\)

Nonsense mediated decay (NMD) independent of the exon junction complex (EJC)

5

\(8.3\times 10^{-6}\)

\(4.7\times 10^{-4}\)

Regulation of expression of SLITs and ROBOs

6

\(1.0\times 10^{-5}\)

\(4.7\times 10^{-4}\)

Formation of a pool of free 40S subunits

5

\(1.1\times 10^{-5}\)

\(4.7\times 10^{-4}\)

Eukaryotic translation termination

5

\(1.1\times 10^{-5}\)

\(4.7\times 10^{-4}\)

Selenocysteine synthesis

5

\(1.4\times 10^{-5}\)

\(4.9\times 10^{-4}\)

Viral mRNA translation

5

\(1.5\times 10^{-5}\)

\(4.9\times 10^{-4}\)

Interleukin-6 signaling

3

\(1.5\times 10^{-5}\)

\(4.9\times 10^{-4}\)

Response of EIF2AK4 (GCN2) to amino acid deficiency

5

\(1.6\times 10^{-5}\)

\(4.9\times 10^{-4}\)

SRP-dependent cotranslational protein targeting to membrane

5

\(1.8\times 10^{-5}\)

\(4.9\times 10^{-4}\)

GTP hydrolysis and joining of the 60S ribosomal subunit

5

\(1.9\times 10^{-5}\)

\(4.9\times 10^{-4}\)

L13a-mediated translational silencing of ceruloplasmin expression

5

\(1.9\times 10^{-5}\)

\(4.9\times 10^{-4}\)

Eukaryotic translation initiation

5

\(2.8\times 10^{-5}\)

\(6.4\times 10^{-4}\)

Cap-dependent translation initiation

5

\(2.8\times 10^{-5}\)

\(6.4\times 10^{-4}\)

Interleukin 6-family signaling

3

\(8.0\times 10^{-5}\)

\(1.8\times 10^{-3}\)