Experiment description of studies that identified DDX54 in sEVs

1 Experiment ID 497 MISEV standards ✘ Biophysical techniques ✔ CD9|CD151|CD63|CD81|CD82|FLOT1|FLOT2|GAPDH|LAMP1|LAMP2|RAB5A|SDCBP|TFRC|TSG101|UCHL1 Enriched markers ✘ Negative markers ✔ NTA Particle analysis Identified molecule Protein Identification method Mass spectrometry PubMed ID 35931686     Organism Homo sapiens Experiment description Extracellular vesicles enriched in connexin 43 promote a senescent phenotype in bone and synovial cells contributing to osteoarthritis progression Authors "Varela-Eirín M, Carpintero-Fernández P, Guitián-Caamaño A, Varela-Vázquez A, García-Yuste A, Sánchez-Temprano A, Bravo-López SB, Yañez-Cabanas J, Fonseca E, Largo R, Mobasheri A, Caeiro JR, Mayán MD." Journal name Cell Death Dis Publication year 2022 Sample Chondrocytes Sample name T/C-28a2 Isolation/purification methods Differential centrifugation Filtration Ultracentrifugation Flotation density - Molecules identified in the study Protein Methods used in the study Western blotting Mass spectometry

2 Experiment ID 498 MISEV standards ✔ EM Biophysical techniques ✔ CD9|CD151|CD63|CD81|CD82|FLOT1|FLOT2|GAPDH|LAMP1|LAMP2|RAB5A|SDCBP|TFRC|TSG101|UCHL1 Enriched markers ✘ Negative markers ✔ NTA Particle analysis Identified molecule Protein Identification method Mass spectrometry PubMed ID 35931686     Organism Homo sapiens Experiment description Extracellular vesicles enriched in connexin 43 promote a senescent phenotype in bone and synovial cells contributing to osteoarthritis progression Authors "Varela-Eirín M, Carpintero-Fernández P, Guitián-Caamaño A, Varela-Vázquez A, García-Yuste A, Sánchez-Temprano A, Bravo-López SB, Yañez-Cabanas J, Fonseca E, Largo R, Mobasheri A, Caeiro JR, Mayán MD." Journal name Cell Death Dis Publication year 2022 Sample Chondrocytes Sample name T/C-28a2 Isolation/purification methods Differential centrifugation Filtration Ultracentrifugation Flotation density - Molecules identified in the study Protein Methods used in the study Western blotting Mass spectometry

3 Experiment ID 236 MISEV standards ✔ EM Biophysical techniques ✔ TSG101|Alix|HSC70|GAPDH Enriched markers ✔ HSP90B1 Negative markers ✔ qNano Particle analysis Identified molecule mRNA Identification method RNA Sequencing PubMed ID 26054723     Organism Homo sapiens Experiment description Hepatocellular carcinoma-derived exosomes promote motility of immortalized hepatocyte through transfer of oncogenic proteins and RNAs Authors "He M, Qin H, Poon TC, Sze SC, Ding X, Co NN, Ngai SM, Chan TF, Wong N" Journal name Carcinogenesis Publication year 2015 Sample Hepatocellular carcinoma cells Sample name MHCC97L Isolation/purification methods Differential centrifugation Filtration Ultracentrifugation Sucrose density gradient Flotation density 1.13-1.19 g/mL Molecules identified in the study Protein RNA Methods used in the study Western blotting Mass spectrometry RT-PCR RNA Sequencing

4 Experiment ID 237 MISEV standards ✔ EM Biophysical techniques ✔ TSG101|Alix|HSC70|GAPDH Enriched markers ✔ HSP90B1 Negative markers ✔ qNano Particle analysis Identified molecule mRNA Identification method RNA Sequencing PubMed ID 26054723     Organism Homo sapiens Experiment description Hepatocellular carcinoma-derived exosomes promote motility of immortalized hepatocyte through transfer of oncogenic proteins and RNAs Authors "He M, Qin H, Poon TC, Sze SC, Ding X, Co NN, Ngai SM, Chan TF, Wong N" Journal name Carcinogenesis Publication year 2015 Sample Hepatocytes Sample name MIHA Isolation/purification methods Differential centrifugation Filtration Ultracentrifugation Sucrose density gradient Flotation density 1.13-1.19 g/mL Molecules identified in the study Protein RNA Methods used in the study Western blotting Mass spectrometry RNA Sequencing

Protein-protein interactions for DDX54

Protein Interactor ExoCarta ID Identification method PubMed Species 1 HNRNPH1 3187 Affinity Capture-RNA Homo sapiens 2 POLR2G 5436 Two-hybrid Homo sapiens 3 SLFN11 91607 Affinity Capture-MS Homo sapiens 4 ZNF668   Affinity Capture-MS Homo sapiens 5 UBE2H 7328 Affinity Capture-MS Homo sapiens 6 ISG15 9636 Affinity Capture-MS Homo sapiens 7 COIL   Proximity Label-MS Homo sapiens 8 ZNF346   Affinity Capture-MS Homo sapiens 9 METTL7A 25840 Proximity Label-MS Homo sapiens 10 RAB9A 9367 Proximity Label-MS Homo sapiens 11 RPL30 6156 Affinity Capture-MS Homo sapiens 12 PPIE 10450 Affinity Capture-MS Homo sapiens 13 RIT1 6016 Negative Genetic Homo sapiens 14 YWHAE 7531 Reconstituted Complex Homo sapiens Affinity Capture-Western Homo sapiens 15 MYO1F 4542 Affinity Capture-MS Homo sapiens 16 RPL13A 23521 Affinity Capture-MS Homo sapiens 17 RPL19 6143 Affinity Capture-MS Homo sapiens 18 BRCA1 672 Affinity Capture-MS Homo sapiens 19 ZNF638 27332 Affinity Capture-MS Homo sapiens 20 RPS19 6223 Affinity Capture-MS Homo sapiens 21 RPL10 6134 Affinity Capture-MS Homo sapiens 22 RPL15 6138 Affinity Capture-MS Homo sapiens 23 TLX2   Proximity Label-MS Homo sapiens 24 RPL14 9045 Affinity Capture-MS Homo sapiens Affinity Capture-MS Homo sapiens Affinity Capture-MS Homo sapiens 25 CSNK2A1 1457 Biochemical Activity Homo sapiens 26 DNAJC25 548645 Proximity Label-MS Homo sapiens 27 PGR   Reconstituted Complex Homo sapiens 28 SEMA4A   Two-hybrid Homo sapiens 29 FGF3   Affinity Capture-MS Homo sapiens Affinity Capture-MS Homo sapiens 30 PTPN1 5770 Proximity Label-MS Homo sapiens 31 RBM34   Affinity Capture-MS Homo sapiens Affinity Capture-MS Homo sapiens 32 HIPK1 204851 Affinity Capture-MS Homo sapiens 33 APP 351 Reconstituted Complex Homo sapiens Reconstituted Complex Homo sapiens 34 CENPA   Proximity Label-MS Homo sapiens 35 GSK3A 2931 Affinity Capture-MS Homo sapiens 36 APEX1 328 Proximity Label-MS Homo sapiens 37 RPS9 6203 Affinity Capture-MS Homo sapiens 38 DDX23 9416 Proximity Label-MS Homo sapiens 39 PARK2   Affinity Capture-MS Homo sapiens 40 RPL10A 4736 Affinity Capture-MS Homo sapiens 41 WDR48 57599 Affinity Capture-MS Homo sapiens 42 TFAM 7019 Proximity Label-MS Homo sapiens 43 SRP19 6728 Affinity Capture-MS Homo sapiens 44 Nedd4 25489 Reconstituted Complex Rattus norvegicus 45 UBE2O 63893 Affinity Capture-MS Homo sapiens 46 CHCHD2   Affinity Capture-MS Homo sapiens Affinity Capture-MS Homo sapiens 47 RPN1 6184 Proximity Label-MS Homo sapiens 48 PRC1 9055 Affinity Capture-MS Homo sapiens 49 SUPV3L1 6832 Affinity Capture-MS Homo sapiens 50 NPM1 4869 Affinity Capture-MS Homo sapiens Affinity Capture-MS Homo sapiens Affinity Capture-MS Homo sapiens 51 ANOS1 3730 Affinity Capture-MS Homo sapiens 52 RPS8 6202 Affinity Capture-MS Homo sapiens 53 WDR12 55759 Co-fractionation Homo sapiens 54 POLR1E   Proximity Label-MS Homo sapiens 55 SSR1 6745 Proximity Label-MS Homo sapiens 56 ZNF2   Affinity Capture-MS Homo sapiens Affinity Capture-MS Homo sapiens 57 DDX58 23586 Affinity Capture-RNA Homo sapiens 58 PHF10   Affinity Capture-MS Homo sapiens 59 HIBCH 26275 Affinity Capture-MS Homo sapiens 60 MAGED2 10916 Affinity Capture-MS Homo sapiens 61 ADARB1 104 Affinity Capture-MS Homo sapiens 62 PRKRA 8575 Affinity Capture-MS Homo sapiens 63 FAF1 11124 Affinity Capture-MS Homo sapiens 64 SRP68 6730 Affinity Capture-MS Homo sapiens 65 RRP8   Affinity Capture-MS Homo sapiens Affinity Capture-MS Homo sapiens 66 LSM14B 149986 Affinity Capture-MS Homo sapiens 67 PANX1 24145 Proximity Label-MS Homo sapiens 68 YY1AP1 55249 Affinity Capture-MS Homo sapiens 69 MECP2 4204 Affinity Capture-MS Homo sapiens Affinity Capture-MS Homo sapiens 70 NOP16 51491 Affinity Capture-MS Homo sapiens 71 RAB35 11021 Proximity Label-MS Homo sapiens 72 DHX57 90957 Affinity Capture-MS Homo sapiens 73 MYCN   Affinity Capture-MS Homo sapiens 74 OASL 8638 Affinity Capture-MS Homo sapiens 75 CSNK2B 1460 Affinity Capture-MS Homo sapiens Affinity Capture-MS Homo sapiens Affinity Capture-MS Homo sapiens 76 NEDD4 4734 Biochemical Activity Homo sapiens Reconstituted Complex Homo sapiens 77 OBSL1 23363 Affinity Capture-MS Homo sapiens Affinity Capture-MS Homo sapiens 78 DYNLT1 6993 Two-hybrid Homo sapiens 79 KIF14 9928 Affinity Capture-MS Homo sapiens 80 CLTCL1 8218 Affinity Capture-MS Homo sapiens 81 LIN28A   Affinity Capture-MS Homo sapiens 82 CASK 8573 Two-hybrid Homo sapiens 83 MDH2 4191 Proximity Label-MS Homo sapiens 84 NUP155 9631 Proximity Label-MS Homo sapiens 85 ZNF394   Two-hybrid Homo sapiens 86 DHX40   Proximity Label-MS Homo sapiens 87 MRPS25 64432 Affinity Capture-MS Homo sapiens 88 LMNB1 4001 Proximity Label-MS Homo sapiens 89 NOP2 4839 Affinity Capture-MS Homo sapiens 90 C6orf203   Proximity Label-MS Homo sapiens 91 LUC7L 55692 Affinity Capture-MS Homo sapiens 92 HIST1H4A 8359 Affinity Capture-MS Homo sapiens 93 DDX21 9188 Affinity Capture-MS Homo sapiens 94 TSFM 10102 Proximity Label-MS Homo sapiens 95 RPL4 6124 Affinity Capture-MS Homo sapiens Affinity Capture-MS Homo sapiens 96 RBM19 9904 Affinity Capture-MS Homo sapiens 97 DRG1 4733 Affinity Capture-MS Homo sapiens 98 LARP7 51574 Affinity Capture-MS Homo sapiens 99 RBM4B   Affinity Capture-MS Homo sapiens 100 MGME1   Affinity Capture-MS Homo sapiens 101 APOBEC3C 27350 Affinity Capture-MS Homo sapiens 102 SRSF6 6431 Affinity Capture-MS Homo sapiens 103 PURG   Affinity Capture-MS Homo sapiens 104 ZBTB48   Affinity Capture-MS Homo sapiens 105 HIST1H2AM 8336 Affinity Capture-MS Homo sapiens 106 RPL18A 6142 Affinity Capture-MS Homo sapiens Affinity Capture-MS Homo sapiens 107 ZNF579   Affinity Capture-MS Homo sapiens 108 DDX10   Co-fractionation Homo sapiens 109 VCP 7415 Affinity Capture-MS Homo sapiens 110 SLX4   Affinity Capture-MS Homo sapiens 111 FGF8   Affinity Capture-MS Homo sapiens Affinity Capture-MS Homo sapiens 112 IFI16 3428 Affinity Capture-MS Homo sapiens Affinity Capture-MS Homo sapiens 113 HIST1H1E 3008 Affinity Capture-MS Homo sapiens 114 RAD18   Affinity Capture-MS Homo sapiens 115 SYNCRIP 10492 Affinity Capture-MS Homo sapiens Affinity Capture-MS Homo sapiens 116 PARP1 142 Proximity Label-MS Homo sapiens 117 Srp72   Affinity Capture-MS Mus musculus 118 RPL36 25873 Affinity Capture-MS Homo sapiens 119 HIST1H1C 3006 Affinity Capture-MS Homo sapiens 120 ZFP91 80829 Affinity Capture-MS Homo sapiens 121 Bag2   Affinity Capture-MS Mus musculus 122 LYAR 55646 Affinity Capture-MS Homo sapiens 123 RPS6 6194 Affinity Capture-MS Homo sapiens 124 HECTD1 25831 Affinity Capture-MS Homo sapiens 125 RNMTL1   Affinity Capture-MS Homo sapiens 126 MRPL11 65003 Proximity Label-MS Homo sapiens 127 SRPK3   Affinity Capture-MS Homo sapiens 128 MAGEB2 4113 Affinity Capture-MS Homo sapiens Affinity Capture-MS Homo sapiens 129 MYBBP1A 10514 Affinity Capture-MS Homo sapiens 130 KLF12   Affinity Capture-MS Homo sapiens 131 GLTSCR2   Affinity Capture-MS Homo sapiens Affinity Capture-MS Homo sapiens 132 MRPL2 51069 Affinity Capture-MS Homo sapiens 133 NOP56 10528 Affinity Capture-MS Homo sapiens Proximity Label-MS Homo sapiens 134 CD3EAP   Proximity Label-MS Homo sapiens 135 RNASEH1 246243 Affinity Capture-MS Homo sapiens 136 SCARNA22   Affinity Capture-RNA Homo sapiens 137 ANLN 54443 Affinity Capture-MS Homo sapiens 138 FGFBP1 9982 Affinity Capture-MS Homo sapiens 139 ATG16L1 55054 Affinity Capture-MS Homo sapiens 140 SEC63 11231 Proximity Label-MS Homo sapiens 141 PABPC5 140886 Affinity Capture-MS Homo sapiens 142 ZBTB2 57621 Affinity Capture-MS Homo sapiens 143 RPL31 6160 Proximity Label-MS Homo sapiens 144 TMED9 54732 Two-hybrid Homo sapiens 145 MRRF   Proximity Label-MS Homo sapiens 146 RPN2 6185 Proximity Label-MS Homo sapiens 147 ABT1 29777 Affinity Capture-MS Homo sapiens 148 MRPS12   Proximity Label-MS Homo sapiens 149 RPL7A 6130 Affinity Capture-MS Homo sapiens 150 RPL13 6137 Affinity Capture-MS Homo sapiens 151 EIF6 3692 Proximity Label-MS Homo sapiens 152 RC3H2   Affinity Capture-MS Homo sapiens 153 YBX1 4904 Affinity Capture-MS Homo sapiens 154 SIRT7   Affinity Capture-MS Homo sapiens 155 SRSF4 6429 Affinity Capture-MS Homo sapiens 156 SRSF1 6426 Affinity Capture-MS Homo sapiens 157 NPM3 10360 Affinity Capture-MS Homo sapiens 158 RPL3 6122 Affinity Capture-MS Homo sapiens 159 CUL3 8452 Affinity Capture-MS Homo sapiens 160 NR3C1 2908 Reconstituted Complex Homo sapiens 161 SRSF5 6430 Affinity Capture-MS Homo sapiens 162 RPL11 6135 Affinity Capture-MS Homo sapiens 163 SSB 6741 Co-fractionation Homo sapiens 164 ARF6 382 Proximity Label-MS Homo sapiens 165 RBM27   Affinity Capture-MS Homo sapiens 166 RPL35 11224 Affinity Capture-MS Homo sapiens 167 PDCD11 22984 Affinity Capture-MS Homo sapiens 168 RIPK4   Affinity Capture-MS Homo sapiens 169 RRP15   Co-fractionation Homo sapiens 170 ZC3H10   Affinity Capture-MS Homo sapiens 171 DVL3 1857 Two-hybrid Homo sapiens 172 ZNF512   Affinity Capture-MS Homo sapiens Affinity Capture-MS Homo sapiens 173 C12orf65   Proximity Label-MS Homo sapiens 174 ESR2   Reconstituted Complex Homo sapiens 175 CBX6   Affinity Capture-MS Homo sapiens 176 RNF220   Affinity Capture-MS Homo sapiens 177 MYC   Affinity Capture-MS Homo sapiens 178 RPA3 6119 Proximity Label-MS Homo sapiens 179 ZNF692   Affinity Capture-MS Homo sapiens 180 PRRC2A 7916 Affinity Capture-MS Homo sapiens 181 NOL12 79159 Affinity Capture-MS Homo sapiens Affinity Capture-MS Homo sapiens Affinity Capture-MS Homo sapiens 182 CSNK2A2 1459 Affinity Capture-MS Homo sapiens 183 RPS14 6208 Affinity Capture-MS Homo sapiens 184 SIRT6   Affinity Capture-MS Homo sapiens 185 ACAD9 28976 Proximity Label-MS Homo sapiens 186 DNAJC1 64215 Proximity Label-MS Homo sapiens 187 RPL18 6141 Affinity Capture-MS Homo sapiens Affinity Capture-MS Homo sapiens 188 DDRGK1 65992 Affinity Capture-MS Homo sapiens 189 CACTIN   Affinity Capture-MS Homo sapiens 190 EIF2B1 1967 Affinity Capture-MS Homo sapiens 191 H2AFB2   Affinity Capture-MS Homo sapiens 192 MRPS17 51373 Affinity Capture-MS Homo sapiens 193 RPS10 6204 Affinity Capture-MS Homo sapiens 194 HIST1H1T 3010 Affinity Capture-MS Homo sapiens Affinity Capture-MS Homo sapiens 195 BMP4 652 Affinity Capture-MS Homo sapiens 196 ZC3H3   Affinity Capture-MS Homo sapiens 197 NEDD4L 23327 Biochemical Activity Homo sapiens Reconstituted Complex Homo sapiens 198 MINA 84864 Affinity Capture-MS Homo sapiens 199 CRNN 49860 Affinity Capture-MS Homo sapiens 200 LBR 3930 Affinity Capture-MS Homo sapiens 201 CLPP 8192 Proximity Label-MS Homo sapiens 202 DDX50 79009 Affinity Capture-MS Homo sapiens 203 SURF6   Affinity Capture-MS Homo sapiens 204 CLPX 10845 Affinity Capture-MS Homo sapiens 205 PLEKHA4 57664 Affinity Capture-MS Homo sapiens 206 FASN 2194 Negative Genetic Homo sapiens 207 GRPEL2   Affinity Capture-MS Homo sapiens 208 RC3H1 149041 Affinity Capture-MS Homo sapiens 209 AUH 549 Proximity Label-MS Homo sapiens 210 TP53 7157 Affinity Capture-MS Homo sapiens 211 TRPM3   Affinity Capture-MS Homo sapiens 212 PDGFB   Affinity Capture-MS Homo sapiens Affinity Capture-MS Homo sapiens 213 ILF3 3609 Affinity Capture-MS Homo sapiens 214 RPLP0 6175 Affinity Capture-MS Homo sapiens 215 PTPRD 5789 Reconstituted Complex Homo sapiens 216 ICT1 3396 Proximity Label-MS Homo sapiens 217 MNDA 4332 Affinity Capture-MS Homo sapiens 218 ZNF746   Affinity Capture-MS Homo sapiens 219 RNF151   Affinity Capture-MS Homo sapiens 220 USP36   Affinity Capture-MS Homo sapiens 221 TPTE   Proximity Label-MS Homo sapiens 222 MEN1 4221 Affinity Capture-MS Homo sapiens 223 TPT1 7178 Affinity Capture-MS Homo sapiens 224 DGCR8   Affinity Capture-MS Homo sapiens Affinity Capture-MS Homo sapiens 225 LCK 3932 Proximity Label-MS Homo sapiens 226 SMURF1 57154 Biochemical Activity Homo sapiens 227 ZNF48   Affinity Capture-MS Homo sapiens 228 RBM23   Affinity Capture-MS Homo sapiens 229 SRP72 6731 Co-fractionation Homo sapiens 230 COX8A   Proximity Label-MS Homo sapiens 231 OTUB1 55611 Affinity Capture-MS Homo sapiens 232 H2AFB3   Affinity Capture-MS Homo sapiens 233 FAM83H 286077 Affinity Capture-MS Homo sapiens 234 C21orf33   Proximity Label-MS Homo sapiens 235 MKI67   Affinity Capture-MS Homo sapiens 236 NIFK 84365 Affinity Capture-MS Homo sapiens Affinity Capture-MS Homo sapiens Proximity Label-MS Homo sapiens Affinity Capture-MS Homo sapiens 237 ESR1   Affinity Capture-MS Homo sapiens Two-hybrid Homo sapiens Reconstituted Complex Homo sapiens 238 UFL1 23376 Affinity Capture-MS Homo sapiens 239 KRR1 11103 Affinity Capture-MS Homo sapiens 240 RBM4 5936 Affinity Capture-MS Homo sapiens Affinity Capture-MS Homo sapiens 241 NEIL1   Affinity Capture-MS Homo sapiens 242 NOC2L 26155 Co-fractionation Homo sapiens 243 CDK13 8621 Affinity Capture-MS Homo sapiens 244 RPS24 6229 Proximity Label-MS Homo sapiens 245 IL17B 27190 Affinity Capture-MS Homo sapiens 246 RAB7A 7879 Proximity Label-MS Homo sapiens 247 CBX8 57332 Affinity Capture-MS Homo sapiens 248 Rrbp1   Affinity Capture-MS Mus musculus 249 RPL8 6132 Affinity Capture-MS Homo sapiens 250 RPL28 6158 Affinity Capture-MS Homo sapiens Affinity Capture-MS Homo sapiens 251 C1QBP 708 Proximity Label-MS Homo sapiens Affinity Capture-MS Homo sapiens 252 Tnpo1 238799 Affinity Capture-MS Mus musculus 253 PPAN 56342 Affinity Capture-MS Homo sapiens 254 KRAS 3845 Negative Genetic Homo sapiens 255 HNRNPU 3192 Affinity Capture-MS Homo sapiens 256 GNB2L1 10399 Affinity Capture-MS Homo sapiens 257 SRP9 6726 Affinity Capture-MS Homo sapiens 258 METTL17   Proximity Label-MS Homo sapiens 259 CKAP4 10970 Proximity Label-MS Homo sapiens 260 RBM26 64062 Affinity Capture-MS Homo sapiens 261 ZNF467   Affinity Capture-MS Homo sapiens 262 RPL17 6139 Affinity Capture-MS Homo sapiens 263 EP300 2033 Affinity Capture-MS Homo sapiens View the network

Pathways in which DDX54 is involved

No pathways found