Table 1.
List of proteins used in this analysis.
| UniProt IDs | Protein name | Gene names | Organism |
|---|---|---|---|
| Q07157 | Tight junction protein ZO-1 | TJP1 | Homo sapiens (Human) |
| Q9Y6M0 | Testisin | PRSS21 | Homo sapiens (Human) |
| P63313 | Thymosin beta-10 | TMSB10 | Homo sapiens (Human) |
| Q9Y617 | Phosphoserine aminotransferase | PSAT1 | Homo sapiens (Human) |
| Q01082 | Spectrin beta chain, non-erythrocytic 1 | SPTBN1 SPTB2 | Homo sapiens (Human) |
| Q6ZMD2 | Protein spinster homolog 3 | SPNS3 | Homo sapiens (Human) |
| Q8IUQ4 | E3 ubiquitin-protein ligase SIAH1 | SIAH1 HUMSIAH | Homo sapiens (Human) |
| O94885 | SAM and SH3 domain-containing protein 1 | SASH1 KIAA0790 PEPE1 | Homo sapiens (Human) |
| P04275 | von Willebrand factor | VWF F8VWF | Homo sapiens (Human) |
| Q16864 | V-type proton ATPase subunit F | ATP6V1F ATP6S14 VATF | Homo sapiens (Human) |
| O43660 | Pleiotropic regulator 1 | PLRG1 | Homo sapiens (Human) |
| P20132 | L-serine dehydratase/L-threonine deaminase | SDS SDH | Homo sapiens (Human) |
| Q06190 | Serine/threonine-protein phosphatase 2A regulatory subunit B'' subunit alpha | PPP2R3A PPP2R3 | Homo sapiens (Human) |
| Q70J99 | Protein unc-13 homolog D | UNC13D | Homo sapiens (Human) |
| Q9NYF8 | Bcl-2-associated transcription factor 1 | BCLAF1 BTF KIAA0164 | Homo sapiens (Human) |
| P05023 | Sodium/potassium-transporting ATPase subunit alpha-1 | ATP1A1 | Homo sapiens (Human) |
| Q6JQN1 | Acyl-CoA dehydrogenase family member 10 | ACAD10 | Homo sapiens (Human) |
| Q8WWZ7 | Cholesterol transporter ABCA5 | ABCA5 KIAA1888 | Homo sapiens (Human) |
| Q8N6D5 | Ankyrin repeat domain-containing protein 29 | ANKRD29 | Homo sapiens (Human) |
| Q9BZR8 | Apoptosis facilitator Bcl-2-like protein 14 | BCL2L14 BCLG | Homo sapiens (Human) |
| Q9H0Q3 | FXYD domain-containing ion transport regulator 6 | FXYD6 UNQ521/PRO1056 | Homo sapiens (Human) |
| Q9HC77 | Centromere protein J | CENPJ CPAP LAP LIP1 | Homo sapiens (Human) |
| P25024 | C-X-C chemokine receptor type 1 | CXCR1 CMKAR1 IL8RA | Homo sapiens (Human) |
| P63151 | Serine/threonine-protein phosphatase 2A 55 kDa regulatory subunit B alpha isoform | PPP2R2A | Homo sapiens (Human) |
| Q14469 | Transcription factor HES-1 | HES1 BHLHB39 HL HRY | Homo sapiens (Human) |
| Q09666 | Neuroblast differentiation-associated protein AHNAK | AHNAK PM227 | Homo sapiens (Human) |
| Q12860 | Contactin-1 | CNTN1 | Homo sapiens (Human) |
| P49771 | Fms-related tyrosine kinase 3 ligand | FLT3LG | Homo sapiens (Human) |
| Q9Y6R7 | IgGFc-binding protein | FCGBP | Homo sapiens (Human) |
| P14209 | CD99 antigen | CD99 MIC2 MIC2X MIC2Y | Homo sapiens (Human) |
| P04083 | Annexin A1 | ANXA1 ANX1 LPC1 | Homo sapiens (Human) |
| P0DP25 | Calmodulin-3 | CALM3 CALML2 CAM3 CAMC CAMIII | Homo sapiens (Human) |
| P50995 | Annexin A11 | ANXA11 ANX11 | Homo sapiens (Human) |
| Q7L5A8 | Fatty acid 2-hydroxylase | FA2H FAAH FAXDC1 | Homo sapiens (Human) |
| Q9UBB5 | Methyl-CpG-binding domain protein 2 | MBD2 | Homo sapiens (Human) |
| Q96KP4 | Cytosolic non-specific dipeptidase | CNDP2 CN2 CPGL HEL-S-13 PEPA | Homo sapiens (Human) |
| O15075 | Serine/threonine-protein kinase DCLK1 | DCLK1 DCAMKL1 DCDC3A KIAA0369 | Homo sapiens (Human) |
| Q9NPB8 | Glycerophosphocholine phosphodiesterase GPCPD1 | GPCPD1 GDE5 KIAA1434 | Homo sapiens (Human) |
| P50502 | Hsc70-interacting protein | ST13 AAG2 FAM10A1 HIP SNC6 | Homo sapiens (Human) |
| P07099 | Epoxide hydrolase 1 | EPHX1 EPHX EPOX | Homo sapiens (Human) |
| P61968 | LIM domain transcription factor LMO4 | LMO4 | Homo sapiens (Human) |
| Q5QNW6 | Histone H2B type 2-F | H2BC18 HIST2H2BF | Homo sapiens (Human) |
| P01344 | Insulin-like growth factor II | IGF2 PP1446 | Homo sapiens (Human) |
| A4QPB2 | Low-density lipoprotein receptor-related protein 5-like protein | LRP5L | Homo sapiens (Human) |
| P05783 | Keratin, type I cytoskeletal 18 | KRT18 CYK18 PIG46 | Homo sapiens (Human) |
| Q9UBV8 | Peflin | PEF1 ABP32 UNQ1845/PRO3573 | Homo sapiens (Human) |
| Q92903 | Phosphatidate cytidylyltransferase 1 | CDS1 CDS | Homo sapiens (Human) |
| P49327 | Fatty acid synthase | FASN FAS | Homo sapiens (Human) |
| P20592 | Interferon-induced GTP-binding protein Mx2 | MX2 | Homo sapiens (Human) |
| P60201 | Myelin proteolipid protein | PLP1 PLP | Homo sapiens (Human) |
| P60709 | Actin, cytoplasmic 1 | ACTB | Homo sapiens (Human) |
| Q14938 | Nuclear factor 1 X-type | NFIX | Homo sapiens (Human) |
| Q9H1E3 | Nuclear ubiquitous casein and cyclin-dependent kinase substrate 1 | NUCKS1 NUCKS JC7 | Homo sapiens (Human) |
| P20292 | Arachidonate 5-lipoxygenase-activating protein | ALOX5AP FLAP | Homo sapiens (Human) |
| Q6ZMW3 | Echinoderm microtubule-associated protein-like 6 | EML6 EML5L | Homo sapiens (Human) |
| P09471 | Guanine nucleotide-binding protein G(o) subunit alpha | GNAO1 | Homo sapiens (Human) |
| Q13349 | Integrin alpha-D | ITGAD | Homo sapiens (Human) |
| Q13491 | Neuronal membrane glycoprotein M6-b (M6b) | GPM6B M6B | Homo sapiens (Human) |
| Q5VZF2 | Muscleblind-like protein 2 | MBNL2 MBLL MBLL39 MLP1 | Homo sapiens (Human) |
| O95897 | Noelin-2 | OLFM2 NOE2 | Homo sapiens (Human) |
| O00562 | Membrane-associated phosphatidylinositol transfer protein 1 | PITPNM1 DRES9 NIR2 PITPNM | Homo sapiens (Human) |
| Q9NQE9 | Adenosine 5'-monophosphoramidase HINT3 | HINT3 | Homo sapiens (Human) |
| P02686 | Myelin basic protein (P02868) | MBP | Homo sapiens (Human) |
| P55082 | Microfibril-associated glycoprotein 3 | MFAP3 | Homo sapiens (Human) |
| P07196 | Neurofilament light polypeptide | NEFL NF68 NFL | Homo sapiens (Human) |
| Q8IXS6 | Paralemmin-2 | PALM2 | Homo sapiens (Human) |
| Q6NY19 | KN motif and ankyrin repeat domain-containing protein 3 | KANK3 ANKRD47 | Homo sapiens (Human) |
| P20916 | Myelin-associated glycoprotein | MAG GMA | Homo sapiens (Human) |
| O95298 | NADH dehydrogenase [ubiquinone] 1 subunit C2 | NDUFC2 HLC1 | Homo sapiens (Human) |
| P68871 | Hemoglobin subunit beta | HBB | Homo sapiens (Human) |
| Q9H2D1 | Mitochondrial folate transporter/carrier | SLC25A32 MFT MFTC | Homo sapiens (Human) |
| Q13813 | Spectrin alpha chain, non-erythrocytic 1 | SPTAN1 NEAS SPTA2 | Homo sapiens (Human) |
| Q6UWS5 | Protein PET117 homolog, mitochondrial | PET117 UNQ607/PRO1194 | Homo sapiens (Human) |
| Q8IXJ6 | NAD-dependent protein deacetylase sirtuin-2 | SIRT2 SIR2L SIR2L2 | Homo sapiens (Human) |
| P0DTU4 | T cell receptor beta chain MC.7.G5 | TRB | Homo sapiens (Human) |
| P37837 | Transaldolase | TALDO1 TAL TALDO TALDOR | Homo sapiens (Human) |
| P04271 | Protein S100-B | S100B | Homo sapiens (Human) |
| O00193 | Small acidic protein | SMAP C11orf58 | Homo sapiens (Human) |
| Q2TAY7 | WD40 repeat-containing protein SMU1 | SMU1 | Homo sapiens (Human) |
| P62273 | 40S ribosomal protein S29 | RPS29 | Homo sapiens (Human) |
| P02538 | Keratin, type II cytoskeletal 6A | KRT6A K6A KRT6D | Homo sapiens (Human) |
| P35579 | Myosin-9 | MYH9 | Homo sapiens (Human) |
| P16949 | Stathmin | STMN1 C1orf215 LAP18 OP18 | Homo sapiens (Human) |
| Q7KZF4 | Staphylococcal nuclease domain-containing protein 1 | SND1 TDRD11 | Homo sapiens (Human) |
| Q86YJ6 | Threonine synthase-like 2 | THNSL2 | Homo sapiens (Human) |
| Q15437 | Protein transport protein Sec23B | SEC23B | Homo sapiens (Human) |
| E7EV99 | Alpha-adducin | ADD1 | Homo sapiens (Human) |
| X6RJP6 | Transgelin-2 (Fragment) | TAGLN2 | Homo sapiens (Human) |
| A0A0A0MS51 | Actin-depolymerizing factor | GSN | Homo sapiens (Human) |
| C9J9K3 | 40S ribosomal protein SA (Fragment) | RPSA | Homo sapiens (Human) |
| J3QQK6 | Myelin basic protein (J3QQK6) | MBP | Homo sapiens (Human) |
| H3BQR2 | Cytosolic Fe-S cluster assembly factor NUBP2 | NUBP2 | Homo sapiens (Human) |
| B5MCX3 | Septin-2 | SEPTIN2 | Homo sapiens (Human) |
| B7WPG3 | Heterogeneous nuclear ribonucleoprotein L-like | HNRNPLL | Homo sapiens (Human) |
| F5H5N1 | Complex I-20kD | NDUFS7 | Homo sapiens (Human) |
| E9PEF9 | Aldo–keto reductase family 1 member B1 | AKR1B1 | Homo sapiens (Human) |
| A0A0U1RQS4 | SH3 and multiple ankyrin repeat domains protein 3 | SHANK3 | Homo sapiens (Human) |
| H3BSM9 | Sal-like protein 1 (Fragment) | SALL1 | Homo sapiens (Human) |
| Q6FGG4 | Complex I-B9 | NDUFA3 hCG_20947 | Homo sapiens (Human) |
| J3KPH8 | Histone deacetylase | HDAC7 | Homo sapiens (Human) |
| R4GN15 | Rho GTPase-activating protein 9 | ARHGAP9 | Homo sapiens (Human) |
| A0A1W2PP57 | GPI transamidase component PIG-T | PIGT | Homo sapiens (Human) |
| C9JVQ0 | Small nuclear ribonucleoprotein G | SNRPG | Homo sapiens (Human) |
| H0Y4W2 | Transformation/transcription domain-associated protein | TRRAP | Homo sapiens (Human) |
| X1WI28 | 60S ribosomal protein L10 (Fragment) | RPL10 | Homo sapiens (Human) |
| E9PB61 | THO complex subunit 4 | ALYREF | Homo sapiens (Human) |
| J3KN36 | Nodal modulator 3 | NOMO3 | Homo sapiens (Human) |
| Q16653 | Myelin oligodendrocyte-glycoprotein | MOG | Homo sapiens (Human) |
| P0DTC2 | Spike glycoprotein | S | Severe acute respiratory syndrome coronavirus 2 |
| A0A6C0T6Z7 | Nucleoprotein (Nucleocapsid) | N | Severe acute respiratory syndrome coronavirus 2 |
| P0DTC5 | Membrane protein | M | Severe acute respiratory syndrome coronavirus 2 |
| P15423 | Spike glycoprotein | S | Human coronavirus 229E |
| P15130 | Nucleoprotein (Nucleocapsid) | N | Human coronavirus 229E |
| P15422 | Membrane protein | M | Human coronavirus 229E |
| Q6Q1S2 | Spike glycoprotein | S | Human coronavirus NL63 |
| Q6Q1R8 | Nucleoprotein (Nucleocapsid) | N | Human coronavirus NL63 |
| Q6Q1R9 | Membrane protein | M | Human coronavirus NL63 |
| P36334 | Spike glycoprotein | S | Human coronavirus OC43 |
| P33469 | Nucleoprotein (Nucleocapsid) | N | Human coronavirus OC43 |
| Q01455 | Membrane protein | M | Human coronavirus OC43 |
| Q5MQD0 | Spike glycoprotein | S | Human coronavirus HKU1 (isolate N1) |
| Q5MQC6 | Nucleoprotein (Nucleocapsid) | N | Human coronavirus HKU1 (isolate N1) |
| Q5MQC7 | Membrane protein | M | Human coronavirus HKU1 (isolate N1) |
| P03211 | Epstein-Barr nuclear antigen 1 | EBNA1 | Epstein-Barr virus (strain B95-8) |
| P12978 | Epstein-Barr nuclear antigen 2 | EBNA2 | Epstein-Barr virus (strain B95-8) |
| P12977 | Epstein-Barr nuclear antigen 3 | EBNA3 | Epstein-Barr virus (strain B95-8) |
| P03203 | Epstein-Barr nuclear antigen 4 | EBNA4 | Epstein-Barr virus (strain B95-8) |
| Q8AZK7 | Epstein-Barr nuclear antigen leader protein | EBNA-LP | Epstein-Barr virus (strain B95-8) |
| P03204 | Epstein-Barr nuclear antigen 6 | EBNA6 | Epstein-Barr virus (strain B95-8) |
| P03230 | Latent membrane protein 1 | LMP1 | Epstein-Barr virus (strain B95-8) |
| P13285 | Latent membrane protein 2 | LMP2 | Epstein-Barr virus (strain B95-8) |
| P06725 | 65 kDa phosphoprotein | UL83 | Human cytomegalovirus (strain AD169) |
| P13202 | Immediate early protein IE1 | UL123 | Human cytomegalovirus (strain AD169) |
| P06473 | Envelope glycoprotein B | gB | Human cytomegalovirus (strain AD169) |
| P09713 | Unique short US2 glycoprotein | US2 | Human cytomegalovirus (strain AD169) |
| P13200 | Cytoplasmic envelopment protein 3 | UL99 | Human cytomegalovirus (strain AD169) |
| P12824 | Envelope glycoprotein H | gH | Human cytomegalovirus (strain AD169) |
| P09712 | Membrane glycoprotein US3 | US3 | Human cytomegalovirus (strain AD169) |
| P14334 | Unique short US6 glycoprotein | US6 | Human cytomegalovirus (strain AD169) |
| P08560 | Glycoprotein UL18 | H301 | Human cytomegalovirus (strain AD169) |
| P0DTC7 | ORF7a protein | 7a | Severe acute respiratory syndrome coronavirus 2 |
| P0DTD1 | Replicase polyprotein 1ab | Rep | Severe acute respiratory syndrome coronavirus 2 |
| P0DTC4 | Envelope small membrane protein | E | Severe acute respiratory syndrome coronavirus 2 |
Briefly, MS-associated proteins were compiled using the IEDB (see Methods for full methodology on protein selection). This was to ensure that proteins utilized in this analysis have been experimentally associated with MS in the literature. SARS-CoV-2, seasonal coronavirus, EBV, and CMV immunodominant proteins are also listed.