Table 4 Overlaps of responding components between time frames \(\hbox {TF}\Delta\) and TFD.

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

Omics component

TF\(\Delta \cap\)TFD Lag 1 time series

mRNA total saliva*

ADGRG3, AIF1, B2M, CD44, CIR1, EDEM1, ETS2, FBP1, FCGR2B, FOSL2, GBP1, GLUL, GRB2, H3F3A, IL1B, INHBA, ITGAM, KIAA0226L, KIF1C, LAMC2, MLLT6, MMP12, MYL12B, PGS1, PLEK, PLEKHM1P, PPL, PREX1, PTPRC, RGS2, RP11-463O12.5, RP11-482G13.1, RPL26, S100A8, SAMSN1, SCARF1, SERINC5, SLC25A37, TAGAP, TMEM41A, TMSB10, TMSB4X, VCAN

Proteomics total saliva*

ARF4, ATP6V1B2, B4GALT1, EEF1B2, H2AFY, NACA, OLA1, PPP2R1A, RAB27A, RPL6, RTN3, SAA2-SAA4, TLN1, TTN, VASP, VCL

EV piRNA

hsa_piR_000421, hsa_piR_000999, hsa_piR_001790, hsa_piR_003329, hsa_piR_004220, hsa_piR_004341, hsa_piR_004413, hsa_piR_006415, hsa_piR_007567, hsa_piR_007776, hsa_piR_008631, hsa_piR_009273, hsa_piR_009330, hsa_piR_009903, hsa_piR_010461, hsa_piR_010687, hsa_piR_011519, hsa_piR_012576, hsa_piR_012637, hsa_piR_013314, hsa_piR_014751, hsa_piR_016236, hsa_piR_016960, hsa_piR_017791, hsa_piR_017961, hsa_piR_019030, hsa_piR_019478, hsa_piR_020493, hsa_piR_020727, hsa_piR_021487

EV exogenous taxa

Acyrthosiphon pisum, Aerococcaceae, Aggregatibacter actinomycetemcomitans, Aggregatibacter aphrophilus F0387, Aggregatibacter segnis ATCC 33393, Aggregatibacter sp. oral taxon 458 str. W10330, Atopobium, Ecdysozoa, Haemophilus pittmaniae HK 85, Ixodes scapularis, Lachnospiraceae bacterium oral taxon 082 str. F0431, Leptotrichiaceae, Onchocerca volvulus, Phytophthora infestans, Porphyromonas sp. oral taxon 278 str. W7784, Prevotella melaninogenica, Prevotella melaninogenica ATCC 25845, Prevotella oris C735, Prevotella oulorum F0390, Prevotella sp. oral taxon 472 str. F0295, Prevotella veroralis F0319, Rhizobium, Streptococcaceae, Streptococcus gordonii str. Challis substr. CH1, Streptococcus mitis 17/34, Streptococcus mitis 18/56, Streptococcus mitis 29/42, Streptococcus mitis ATCC 6249, Streptococcus mitis SK321, Streptococcus mitis SK564, Streptococcus mitis SK569, Streptococcus mitis SK575, Streptococcus pneumoniae, Streptococcus pneumoniae GA47179, Streptococcus pseudopneumoniae, Streptococcus sp. M334, Strigamia maritima, Triticeae, unclassified Lachnospiraceae, Veillonella sp. 3_1_44, Veillonella sp. oral taxon 158 str. F0412

  1. * Official Gene Names: ADGRG3 adhesion G protein-coupled receptor G3, AIF1 allograft inflammatory factor 1, ARF4 ADP ribosylation factor 4, ATP6V1B2 ATPase H+ transporting V1 subunit B2, B2M beta-2-microglobulin, B4GALT1 beta-1,4-galactosyltransferase 1, CD44 CD44 molecule, CIR1 corepressor interacting with RBPJ, 1, EDEM1 ER degradation enhancing alpha-mannosidase like protein 1, EEF1B2 eukaryotic translation elongation factor 1 beta 2, ETS2 ETS proto-oncogene 2, transcription factor, FBP1 fructose-bisphosphatase 1, FCGR2B Fc fragment of IgG receptor IIb, FOSL2 FOS like 2, AP-1 transcription factor subunit, GBP1 guanylate binding protein 1, GLUL glutamate-ammonia ligase, GRB2 growth factor receptor bound protein 2, H2AFY H2A histone family member Y, H3F3A H3 histone family member 3A, IL1B interleukin 1 beta, INHBA inhibin beta A subunit, ITGAM integrin subunit alpha M, KIF1C kinesin family member 1C, LAMC2 laminin subunit gamma 2, MLLT6 MLLT6, PHD finger domain containing, MMP12 matrix metallopeptidase 12, MYL12B myosin light chain 12B, NACA nascent polypeptide-associated complex alpha subunit, OLA1 Obg like ATPase 1, PGS1 phosphatidylglycerophosphate synthase 1, PLEK pleckstrin, PLEKHM1P Pleckstrin Homology And RUN Domain Containing M1 Pseudogene 1 2 3 5, PPL periplakin, PPP2R1A protein phosphatase 2 scaffold subunit Aalpha, PREX1 phosphatidylinositol-3,4,5-trisphosphate dependent Rac exchange factor 1, PTPRC protein tyrosine phosphatase, receptor type C, RAB27A RAB27A, member RAS oncogene family, RGS2 regulator of G-protein signaling 2, RP11-463O12.5 to be experimentally confirmed, RP11-482G13.1 novel transcript similar to family member with sequence similarity 157, RPL26 ribosomal protein L26, RPL6 ribosomal protein L6, RTN3 reticulon 3, S100A8 S100 calcium binding protein A8, SAA2–SAA4 SAA2–SAA4 readthrough, SAMSN1 SAM domain, SH3 domain and nuclear localization signals 1, SCARF1 scavenger receptor class F member 1, SERINC5 serine incorporator 5, SLC25A37 solute carrier family 25 member 37, TAGAP T-cell activation RhoGTPase activating protein, TLN1 talin 1, TMEM41A transmembrane protein 41A, TMSB10 thymosin beta 10, TMSB4X thymosin beta 4, X-linked, TTN titin, VASP vasodilator-stimulated phosphoprotein, VCAN versican, VCL vinculin.
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