Experiment description of studies that identified IGKC in exosomes

1 Experiment ID 46 MISEV standards ✔ EM|IEM Biophysical techniques ✔ HSC70|CD63|MHCII|CD81|CD86 Enriched markers ✔ CANX Negative markers ✘ Particle analysis Identified molecule protein Identification method Mass spectrometry PubMed ID 17641064     Organism Homo sapiens Experiment description Exosomes with immune modulatory features are present in human breast milk. Authors "Admyre C, Johansson SM, Qazi KR, Filen JJ, Lahesmaa R, Norman M, Neve EP, Scheynius A, Gabrielsson S" Journal name JIMMU Publication year 2007 Sample Breast milk Sample name Breast milk - Colostrum Isolation/purification methods Differential centrifugation Filtration Sucrose density gradient Flotation density 1.10-1.18 g/mL Molecules identified in the study Protein Methods used in the study Mass spectrometry [QSTAR] Western blotting Immunoelectron Microscopy FACS

2 Experiment ID 48 MISEV standards ✔ EM|IEM Biophysical techniques ✔ HSC70|CD63|CD86|MHCII Enriched markers ✔ CANX Negative markers ✘ Particle analysis Identified molecule protein Identification method Mass spectrometry PubMed ID 17641064     Organism Homo sapiens Experiment description Exosomes with immune modulatory features are present in human breast milk. Authors "Admyre C, Johansson SM, Qazi KR, Filen JJ, Lahesmaa R, Norman M, Neve EP, Scheynius A, Gabrielsson S" Journal name JIMMU Publication year 2007 Sample Breast milk Sample name Breast milk - Mature milk Isolation/purification methods Differential centrifugation Filtration Sucrose density gradient Flotation density 1.10-1.18 g/mL Molecules identified in the study Protein Methods used in the study Mass spectrometry [QSTAR] Western blotting Immunoelectron Microscopy FACS

3 Experiment ID 494 MISEV standards ✔ EM Biophysical techniques ✔ CD9|CD81|CD151|CD63|CD82|FLOT1|FLOT2|GAPDH|LAMP1|LAMP2|SDCBP|TFRC|TSG101 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 Osteoarthritic cartilage Isolation/purification methods Differential centrifugation Filtration Ultracentrifugation Flotation density - Molecules identified in the study Protein Methods used in the study Western blotting Mass spectometry

4 Experiment ID 496 MISEV standards ✘ Biophysical techniques ✔ CD9|CD151|CD63|CD81|CD82|FLOT1|FLOT2|GAPDH|LAMP1|LAMP2|SDCBP|TFRC|TSG101 Enriched markers ✘ Negative markers ✘ 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 Healthy cartilage Isolation/purification methods Differential centrifugation Filtration Ultracentrifugation Flotation density - Molecules identified in the study Protein Methods used in the study Western blotting Mass spectometry

5 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

6 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

7 Experiment ID 21 MISEV standards ✔ EM|IEM Biophysical techniques ✔ Alix|TSG101|HSP70|CD63 Enriched markers ✘ Negative markers ✘ Particle analysis Identified molecule protein Identification method Mass spectrometry    PubMed ID 19837982     Organism Homo sapiens Experiment description Proteomic and bioinformatic analysis of immunoaffinity-purified exosomes derived from the human colon tumor cell line LIM1215. Authors "Suresh Mathivanan, Justin W.E. Lim, Bow J. Tauro, Hong Ji, Robert L. Moritz and Richard J. Simpson" Journal name MCP Publication year 2009 Sample Colorectal cancer cells Sample name LIM1215 Isolation/purification methods Filtration Ultracentrifugation Sucrose density gradient Flotation density 1.10-1.12 g/mL Molecules identified in the study Protein Methods used in the study Mass spectrometry [Orbitrap] Western blotting

8 Experiment ID 126 MISEV standards ✘ Biophysical techniques ✔ GAPDH Enriched markers ✘ Negative markers ✘ Particle analysis Identified molecule protein Identification method Mass spectrometry [LTQ-FT Ultra] PubMed ID Unpublished / Not applicable Organism Homo sapiens Experiment description Mesenchymal Stem Cell Exosomes: The Future MSC-based Therapy? Authors "Ruenn Chai Lai, Ronne Wee Yeh Yeo, Soon Sim Tan, Bin Zhang, Yijun Yin, Newman Siu Kwan Sze, Andre Choo, and Sai Kiang Lim" Journal name Mesenchymal Stem Cell Therapy Publication year 2011 Sample Mesenchymal stem cells Sample name huES9.E1 Isolation/purification methods HPLC Flotation density - Molecules identified in the study Protein Methods used in the study Western blotting Antobody array Mass spectrometry

9 Experiment ID 488 MISEV standards ✔ EM Biophysical techniques ✔ CD9|CD81|CD63|GAPDH|SDCBP|LAMP1|TFRC|UCHL1|FLOT2|LAMP2|FLOT1|ICAM1|RAB5B|CD151|RAB35|TSG101|RAB5A|CD82 Enriched markers ✔ CANX Negative markers ✔ NTA Particle analysis Identified molecule Protein Identification method Mass spectrometry PubMed ID 36408942     Organism Homo sapiens Experiment description Quantitative proteomic analysis of exosomes from umbilical cord mesenchymal stem cells and rat bone marrow stem cells Authors "Xu X, Yin F, Guo M, Gan G, Lin G, Wen C, Wang J, Song P, Wang J, Qi ZQ, Zhong CQ." Journal name Proteomics Publication year 2023 Sample Mesenchymal stem cells Sample name UCMSC Isolation/purification methods Differential centrifugation Filtration Ultracentrifugation Flotation density - Molecules identified in the study Protein Methods used in the study Western blotting Mass spectometry

10 Experiment ID 231 MISEV standards ✘ Biophysical techniques ✔ Alix|CD63|CD9 Enriched markers ✘ Negative markers ✔ NTA Particle analysis Identified molecule protein Identification method Mass spectrometry PubMed ID 25332113     Organism Homo sapiens Experiment description Lipidomic and proteomic characterization of platelet extracellular vesicle subfractions from senescent platelets Authors "Pienimaeki-Roemer A, Kuhlmann K, Bottcher A, Konovalova T, Black A, Orso E, Liebisch G, Ahrens M, Eisenacher M, Meyer HE, Schmitz G." Journal name Transfusion Publication year 2015 Sample Platelets Sample name PL-Exs - Rep 1 Isolation/purification methods Differential centrifugation Filtration Ultracentrifugation Optiprep density gradient Flotation density 1.12-1.15 g/mL Molecules identified in the study Protein Lipids Methods used in the study Western blotting Mass spectrometry

11 Experiment ID 232 MISEV standards ✘ Biophysical techniques ✘ Enriched markers ✘ Negative markers ✘ Particle analysis Identified molecule protein Identification method Mass spectrometry PubMed ID 25332113     Organism Homo sapiens Experiment description Lipidomic and proteomic characterization of platelet extracellular vesicle subfractions from senescent platelets Authors "Pienimaeki-Roemer A, Kuhlmann K, Bottcher A, Konovalova T, Black A, Orso E, Liebisch G, Ahrens M, Eisenacher M, Meyer HE, Schmitz G." Journal name Transfusion Publication year 2015 Sample Platelets Sample name PL-Exs - Rep 2 Isolation/purification methods Differential centrifugation Filtration Ultracentrifugation Optiprep density gradient Flotation density 1.12-1.15 g/mL Molecules identified in the study Protein Methods used in the study Mass spectrometry

12 Experiment ID 233 MISEV standards ✘ Biophysical techniques ✘ Enriched markers ✘ Negative markers ✘ Particle analysis Identified molecule protein Identification method Mass spectrometry PubMed ID 25332113     Organism Homo sapiens Experiment description Lipidomic and proteomic characterization of platelet extracellular vesicle subfractions from senescent platelets Authors "Pienimaeki-Roemer A, Kuhlmann K, Bottcher A, Konovalova T, Black A, Orso E, Liebisch G, Ahrens M, Eisenacher M, Meyer HE, Schmitz G." Journal name Transfusion Publication year 2015 Sample Platelets Sample name PL-Exs - Rep 3 Isolation/purification methods Differential centrifugation Filtration Ultracentrifugation Optiprep density gradient Flotation density 1.12-1.15 g/mL Molecules identified in the study Protein Methods used in the study Mass spectrometry

13 Experiment ID 66 MISEV standards ✔ IEM Biophysical techniques ✔ TSG101|Alix|CD63|CD81 Enriched markers ✘ Negative markers ✘ Particle analysis Identified molecule protein Identification method Mass spectrometry PubMed ID 19199708     Organism Homo sapiens Experiment description Proteomic analysis of human parotid gland exosomes by multidimensional protein identification technology (MudPIT). Authors "Gonzalez-Begne M, Lu B, Han X, Hagen FK, Hand AR, Melvin JE, Yates JR" Journal name JPR Publication year 2009 Sample Saliva Sample name Saliva Isolation/purification methods Differential centrifugation Flotation density - Molecules identified in the study Protein Methods used in the study Mass spectrometry [LTQ] Western blotting Immunoelectron Microscopy

Protein-protein interactions for IGKC

Protein Interactor ExoCarta ID Identification method PubMed Species 1 SEC22B 9554 Affinity Capture-MS Homo sapiens 2 UBE2H 7328 Affinity Capture-MS Homo sapiens 3 FCN1 2219 Affinity Capture-MS Homo sapiens 4 GNG10 2790 Affinity Capture-MS Homo sapiens 5 NRSN1   Affinity Capture-MS Homo sapiens 6 RNF25 64320 Affinity Capture-MS Homo sapiens 7 ALB 213 Affinity Capture-MS Homo sapiens 8 ALDH2 217 Affinity Capture-MS Homo sapiens Affinity Capture-MS Homo sapiens 9 MYOC 4653 Affinity Capture-MS Homo sapiens 10 EBF2   Affinity Capture-MS Homo sapiens 11 IGHG2 3501 Cross-Linking-MS (XL-MS) Homo sapiens 12 FNDC5   Affinity Capture-MS Homo sapiens 13 USP36   Affinity Capture-MS Homo sapiens 14 KIAA1429 25962 Affinity Capture-MS Homo sapiens 15 Rrp1b 72462 Affinity Capture-MS Mus musculus 16 CCNA2 890 Affinity Capture-MS Homo sapiens 17 CA8   Affinity Capture-MS Homo sapiens Affinity Capture-MS Homo sapiens 18 CCT6A 908 Affinity Capture-MS Homo sapiens 19 EGFL8   Affinity Capture-MS Homo sapiens 20 POU3F3   Affinity Capture-MS Homo sapiens 21 UGT1A10   Affinity Capture-MS Homo sapiens Affinity Capture-MS Homo sapiens 22 SFXN4   Affinity Capture-MS Homo sapiens 23 EED   Affinity Capture-MS Homo sapiens 24 SLX4   Affinity Capture-MS Homo sapiens 25 PHF11 51131 Affinity Capture-MS Homo sapiens 26 FNDC1 84624 Affinity Capture-MS Homo sapiens 27 ZSCAN20   Affinity Capture-MS Homo sapiens Affinity Capture-MS Homo sapiens Affinity Capture-MS Homo sapiens 28 ICE2   Affinity Capture-MS Homo sapiens Affinity Capture-MS Homo sapiens 29 C18orf21   Affinity Capture-MS Homo sapiens 30 PES1 23481 Affinity Capture-MS Homo sapiens 31 DDX19B 11269 Affinity Capture-MS Homo sapiens Affinity Capture-MS Homo sapiens 32 PMEPA1 56937 Affinity Capture-MS Homo sapiens 33 ZNF550   Affinity Capture-MS Homo sapiens 34 ADAMTS18   Affinity Capture-MS Homo sapiens 35 GNG8   Affinity Capture-MS Homo sapiens 36 ARL2BP 23568 Affinity Capture-MS Homo sapiens 37 ST6GALNAC6 30815 Affinity Capture-MS Homo sapiens 38 PARK2   Affinity Capture-MS Homo sapiens 39 LRRC10   Affinity Capture-MS Homo sapiens 40 PLK2   Affinity Capture-MS Homo sapiens Affinity Capture-MS Homo sapiens 41 FUNDC2 65991 Affinity Capture-MS Homo sapiens 42 CERS3   Affinity Capture-MS Homo sapiens 43 CCT5 22948 Affinity Capture-MS Homo sapiens 44 CCDC82   Affinity Capture-MS Homo sapiens 45 SERTAD1   Affinity Capture-MS Homo sapiens 46 SARAF   Affinity Capture-MS Homo sapiens 47 PIGT 51604 Affinity Capture-MS Homo sapiens 48 SSUH2   Affinity Capture-MS Homo sapiens 49 ALDH3A1 218 Affinity Capture-MS Homo sapiens 50 HCN1   Affinity Capture-MS Homo sapiens 51 UPK1A 11045 Affinity Capture-MS Homo sapiens 52 DDX39B 7919 Affinity Capture-MS Homo sapiens 53 ENC1   Affinity Capture-MS Homo sapiens 54 UPP1 7378 Affinity Capture-MS Homo sapiens 55 BAG3 9531 Affinity Capture-Luminescence Homo sapiens 56 DUSP22   Affinity Capture-MS Homo sapiens 57 NOTCH2NL 388677 Affinity Capture-MS Homo sapiens 58 RHBDD1 84236 Affinity Capture-MS Homo sapiens 59 PPP2R2B 5521 Affinity Capture-MS Homo sapiens 60 FANCD2   Affinity Capture-MS Homo sapiens 61 AGPAT1 10554 Affinity Capture-MS Homo sapiens 62 SMARCD1 6602 Two-hybrid Homo sapiens 63 ASCC1 51008 Affinity Capture-MS Homo sapiens Affinity Capture-MS Homo sapiens 64 FAM60A   Affinity Capture-MS Homo sapiens 65 TBC1D22B   Affinity Capture-MS Homo sapiens Affinity Capture-MS Homo sapiens 66 ITLN2   Affinity Capture-MS Homo sapiens 67 GOT1 2805 Affinity Capture-MS Homo sapiens 68 EGFR 1956 Affinity Capture-MS Homo sapiens Affinity Capture-MS Homo sapiens 69 FOXN3 1112 Affinity Capture-MS Homo sapiens 70 FTH1 2495 Affinity Capture-MS Homo sapiens 71 MYC   Affinity Capture-MS Homo sapiens 72 PDE4DIP 9659 Affinity Capture-MS Homo sapiens Affinity Capture-MS Homo sapiens 73 RIBC1   Affinity Capture-MS Homo sapiens 74 HBM   Affinity Capture-MS Homo sapiens Affinity Capture-MS Homo sapiens 75 EEF1A2 1917 Affinity Capture-MS Homo sapiens 76 TWF1 5756 Affinity Capture-MS Homo sapiens 77 RPIA 22934 Affinity Capture-MS Homo sapiens 78 NPB   Affinity Capture-MS Homo sapiens 79 STX17 55014 Affinity Capture-MS Homo sapiens 80 RIPPLY3   Affinity Capture-MS Homo sapiens 81 UBE2U   Affinity Capture-MS Homo sapiens 82 CIR1   Affinity Capture-MS Homo sapiens 83 KIAA0907   Affinity Capture-MS Homo sapiens 84 CDK15   Affinity Capture-MS Homo sapiens Affinity Capture-MS Homo sapiens 85 SLC25A6 293 Affinity Capture-MS Homo sapiens 86 ILF3 3609 Affinity Capture-RNA Homo sapiens 87 SCGB1D1   Affinity Capture-MS Homo sapiens 88 RRP1B 23076 Affinity Capture-MS Homo sapiens 89 MATN2 4147 Affinity Capture-MS Homo sapiens 90 EMC4 51234 Affinity Capture-MS Homo sapiens 91 TIMM10   Affinity Capture-MS Homo sapiens 92 NHLRC2 374354 Affinity Capture-MS Homo sapiens 93 SSBP2   Affinity Capture-MS Homo sapiens 94 MLH1 4292 Two-hybrid Homo sapiens 95 PTDSS1 9791 Affinity Capture-MS Homo sapiens 96 GTF2B 2959 Affinity Capture-MS Homo sapiens Affinity Capture-MS Homo sapiens 97 PDE6D 5147 Affinity Capture-MS Homo sapiens 98 FKBP14   Affinity Capture-MS Homo sapiens 99 MBNL1 4154 Affinity Capture-MS Homo sapiens 100 KLK10 5655 Affinity Capture-MS Homo sapiens 101 PINK1   Affinity Capture-MS Homo sapiens 102 DPF3   Affinity Capture-MS Homo sapiens 103 CDK5RAP3 80279 Affinity Capture-MS Homo sapiens 104 ITGA9 3680 Affinity Capture-MS Homo sapiens 105 PRKX 5613 Affinity Capture-MS Homo sapiens 106 OR2A4 79541 Affinity Capture-MS Homo sapiens 107 DDX31   Affinity Capture-MS Homo sapiens Affinity Capture-MS Homo sapiens 108 GABPA 2551 Affinity Capture-MS Homo sapiens 109 CCR1   Affinity Capture-MS Homo sapiens 110 APOA1 335 Affinity Capture-MS Homo sapiens View the network

Pathways in which IGKC is involved

No pathways found