Table 5.
Details of the 54 synovial fluid extracellular vesicle (EV) proteins significantly differentially expressed between RA patients with high and low‐level inflammation
| Majority protein IDs | Protein names | Gene names | Log2 fold change (RA‐high vs RA‐low) | P‐value | adj. P‐value |
RA high‐level inflammation (avg. iBAQ) |
RA low‐level inflammation (avg. iBAQ) |
|---|---|---|---|---|---|---|---|
| Q12913 | Receptor‐type tyrosine‐protein phosphatase eta | PTPRJ | 3.59 | 9.89E‐09 | 3.94E‐06 | 25 935 | 526 |
| P08311 | Cathepsin G | CTSG | 3.23 | 5.46E‐07 | 1.09E‐04 | 87 686 | 5070 |
| P63000 | Ras‐related C3 botulinum toxin substrate 1 | RAC1 | –3.84 | 4.89E‐06 | 5.23E‐04 | 54 423 | 117 295 |
| P52907 | F‐actin‐capping protein subunit alpha‐1 | CAPZA1 | 2.66 | 5.24E‐06 | 5.23E‐04 | 76 412 | 20 530 |
| Q09666 | Neuroblast differentiation‐associated protein AHNAK | AHNAK | 3.82 | 8.90E‐06 | 7.10E‐04 | 28 049 | 1375 |
| Q9H3M7 | Thioredoxin‐interacting protein | TXNIP | 2.88 | 1.14E‐05 | 7.61E‐04 | 52 600 | 5945 |
| P62993 | Growth factor receptor‐bound protein 2 | GRB2 | 2.13 | 1.73E‐05 | 9.84E‐04 | 44 316 | 2895 |
| Q15833 | Syntaxin‐binding protein 2 | STXBP2 | 2.77 | 2.64E‐05 | 1.32E‐03 | 38 532 | 922 |
| P31146 | Coronin‐1A | CORO1A | 2.19 | 3.77E‐05 | 1.54E‐03 | 23 667 | 200 |
| O43854 | EGF‐like repeat and discoidin I‐like domain‐containing protein 3 | EDIL3 | –3.27 | 3.85E‐05 | 1.54E‐03 | 1850 | 36 873 |
| Q9BZQ8 | Protein Niban | FAM129A | 2.47 | 5.78E‐05 | 2.10E‐03 | 30 354 | 2144 |
| Q96RT1 | Protein LAP2 | ERBB2IP | 3.18 | 1.31E‐04 | 4.35E‐03 | 24 093 | 200 |
| P22748 | Carbonic anhydrase 4 | CA4 | 2.25 | 1.74E‐04 | 5.35E‐03 | 36 457 | 200 |
| P12429 | Annexin A3 | ANXA3 | 3.37 | 1.95E‐04 | 5.51E‐03 | 181 783 | 3022 |
| P23381 | Tryptophan‐‐tRNA ligase, cytoplasmic | WARS | 2.31 | 2.07E‐04 | 5.51E‐03 | 35 910 | 200 |
| Q9H4M9 | EH domain‐containing protein 1 | EHD1 | 2.66 | 3.87E‐04 | 9.66E‐03 | 141 723 | 14 839 |
| Q01518 | Adenylyl cyclase‐associated protein 1 | CAP1 | 1.91 | 4.48E‐04 | 1.01E‐02 | 35 811 | 3355 |
| P34910 | Protein EVI2B | EVI2B | 2.56 | 4.69E‐04 | 1.01E‐02 | 62 321 | 1024 |
| P43250 | G protein‐coupled receptor kinase 6 | GRK6 | 2.15 | 5.04E‐04 | 1.01E‐02 | 27 528 | 2276 |
| O43795 | Unconventional myosin‐Ib | MYO1B | –1.77 | 5.11E‐04 | 1.01E‐02 | 477 | 1742 |
| Q14254 | Flotillin‐2 | FLOT2 | 2.04 | 5.65E‐04 | 1.01E‐02 | 25 735 | 200 |
| P04114 | Apolipoprotein B‐100 | APOB | –1.93 | 5.74E‐04 | 1.01E‐02 | 404 | 1208 |
| O75340 | Programmed cell death protein 6 | PDCD6 | 1.81 | 5.98E‐04 | 1.01E‐02 | 75 784 | 200 |
| P15144 | Aminopeptidase N | ANPEP | 2.15 | 6.50E‐04 | 1.01E‐02 | 14 992 | 404 |
| Q10588 | ADP‐ribosyl cyclase/cyclic ADP‐ribose hydrolase 2 | BST1 | 2.48 | 6.51E‐04 | 1.01E‐02 | 89 336 | 1685 |
| P20701 | Integrin alpha‐L | ITGAL | 2.11 | 6.60E‐04 | 1.01E‐02 | 37 548 | 4250 |
| Q8WUM4 | Programmed cell death 6‐interacting protein | PDCD6IP | 2.07 | 6.95E‐04 | 1.03E‐02 | 50 966 | 4219 |
| P22681 | E3 ubiquitin‐protein ligase CBL | CBL | –1.57 | 1.10E‐03 | 1.57E‐02 | 1339 | 200 |
| P09769 | Tyrosine‐protein kinase Fgr | FGR | 1.94 | 1.19E‐03 | 1.64E‐02 | 39 361 | 3112 |
| P13796 | Plastin‐2 | LCP1 | 2.62 | 1.30E‐03 | 1.73E‐02 | 102 681 | 7650 |
| O94804 | Serine/threonine‐protein kinase 10 | STK10 | 2.04 | 1.40E‐03 | 1.80E‐02 | 18 346 | 1462 |
| P08631 | Tyrosine‐protein kinase HCK | HCK | 2.40 | 1.51E‐03 | 1.85E‐02 | 46 555 | 3095 |
| Q92608 | Dedicator of cytokinesis protein 2 | DOCK2 | 2.38 | 1.53E‐03 | 1.85E‐02 | 19 353 | 1357 |
| P15924 | Desmoplakin | DSP | –1.58 | 1.77E‐03 | 2.08E‐02 | 565 | 567 |
| P62879 | Guanine nucleotide‐binding protein G(I)/G(S)/G(T) subunit beta‐2 | GNB2 | 2.42 | 2.06E‐03 | 2.35E‐02 | 114 852 | 52 859 |
| P05164 | Myeloperoxidase | MPO | 3.13 | 2.30E‐03 | 2.51E‐02 | 130 125 | 11 933 |
| P62937 | Peptidyl‐prolyl cis‐trans isomerase A | PPIA | 2.27 | 2.38E‐03 | 2.51E‐02 | 168 691 | 34 411 |
| P02788 | Lactotransferrin | LTF | 2.54 | 2.44E‐03 | 2.51E‐02 | 49 784 | 7385 |
| P52209 | 6‐phosphogluconate dehydrogenase, decarboxylating | PGD | 1.71 | 2.45E‐03 | 2.51E‐02 | 30 425 | 5364 |
| O14745 | Na+/H+ exchange regulatory cofactor NHE‐RF1 | SLC9A3R1 | 1.88 | 2.67E‐03 | 2.66E‐02 | 32 871 | 200 |
| P61225 | Ras‐related protein Rap‐2b | RAP2B | 1.80 | 2.79E‐03 | 2.71E‐02 | 63 501 | 3820 |
| P01011 | Alpha‐1‐antichymotrypsin | SERPINA3 | 2.17 | 3.87E‐03 | 3.68E‐02 | 18 510 | 717 |
| P29350 | Tyrosine‐protein phosphatase non‐receptor type 6 | PTPN6 | 2.06 | 4.07E‐03 | 3.73E‐02 | 38 283 | 9891 |
| P16112 | Aggrecan core protein | ACAN | –2.53 | 4.15E‐03 | 3.73E‐02 | 9688 | 33 045 |
| P02730 | Band 3 anion transport protein | SLC4A1 | –2.40 | 4.20E‐03 | 3.73E‐02 | 1705 | 14 759 |
| O00186 | Syntaxin‐binding protein 3 | STXBP3 | 2.03 | 4.30E‐03 | 3.73E‐02 | 30 413 | 7517 |
| P00450 | Ceruloplasmin | CP | 1.95 | 4.58E‐03 | 3.88E‐02 | 12 684 | 200 |
| Q86YV0 | RAS protein activator like‐3 | RASAL3 | 1.40 | 4.73E‐03 | 3.93E‐02 | 9506 | 200 |
| A8MVU1 | Putative neutrophil cytosol factor 1C | NCF1C | 1.42 | 4.90E‐03 | 3.99E‐02 | 17 988 | 2835 |
| Q08431 | Lactadherin | MFGE8 | –1.47 | 5.32E‐03 | 4.25E‐02 | 98 858 | 173 025 |
| O00560 | Syntenin‐1 | SDCBP | 2.03 | 5.43E‐03 | 4.25E‐02 | 229 002 | 23 613 |
| P00734 | Prothrombin | F2 | 2.45 | 5.59E‐03 | 4.29E‐02 | 102 582 | 12 151 |
| Q9NUQ9 | Protein FAM49B | FAM49B | 2.36 | 6.49E‐03 | 4.89E‐02 | 137 390 | 14 926 |
| P0DMV9 | Heat‐shock 70‐kDa protein 1B | HSPA1B | 1.78 | 6.65E‐03 | 4.91E‐02 | 53 304 | 5265 |
iBAQ, intensity‐based absolute quantification; RA, rheumatoid arthritis.