Experiment description of studies that identified RAB3D in exosomes

1 Experiment ID 224 ISEV standards ✔ EM|AFM EV Biophysical techniques ✔ Alix|TSG101 EV Cytosolic markers ✔ CD63|CD81 EV Membrane markers ✔ GOLGA2 EV Negative markers ✘ EV Particle analysis Identified molecule protein Identification method Mass spectrometry PubMed ID 25944692     Organism Homo sapiens Experiment description Proteogenomic analysis reveals exosomes are more oncogenic than ectosomes Authors Keerthikumar S, Gangoda L, Liem M, Fonseka P, Atukorala I, Ozcitti C, Mechler A, Adda CG, Ang CS, Mathivanan S Journal name Oncotarget Publication year 2015 Sample Neuroblastoma cells Sample name SH-SY5Y Isolation/purification methods Differential centrifugation Ultracentrifugation OptiPrep density gradient Flotation density 1.10 g/mL Molecules identified in the study Protein Methods used in the study Mass spectrometry Western blotting

2 Experiment ID 211 ISEV standards ✔ EM EV Biophysical techniques ✔ TSG101|Alix EV Cytosolic markers ✔ EpCAM|TFRC EV Membrane markers ✔ cytochrome c|GOLGA2 EV Negative markers ✘ EV Particle analysis Identified molecule protein Identification method Mass spectrometry PubMed ID 23333927     Organism Homo sapiens Experiment description Characterization and proteomic analysis of ovarian cancer-derived exosomes. Authors Liang B, Peng P, Chen S, Li L, Zhang M, Cao D, Yang J, Li H, Gui T, Li X, Shen K. Journal name J Proteomics Publication year 2013 Sample Ovarian cancer cells Sample name IGROV1 Isolation/purification methods Differential centrifugation Ultracentrifugation Sucrose density gradient Flotation density 1.09-1.15 g/mL Molecules identified in the study Protein Methods used in the study Mass spectrometry

3 Experiment ID 212 ISEV standards ✔ CEM EV Biophysical techniques ✔ TSG101|Alix EV Cytosolic markers ✔ EpCAM|TFRC EV Membrane markers ✔ Cytochrome C|GOLGA2 EV Negative markers ✘ EV Particle analysis Identified molecule protein Identification method Mass spectrometry PubMed ID 23333927     Organism Homo sapiens Experiment description Characterization and proteomic analysis of ovarian cancer-derived exosomes. Authors Liang B, Peng P, Chen S, Li L, Zhang M, Cao D, Yang J, Li H, Gui T, Li X, Shen K. Journal name J Proteomics Publication year 2013 Sample Ovarian cancer cells Sample name OVCAR-3 Isolation/purification methods Differential centrifugation Ultracentrifugation Sucrose density gradient Flotation density 1.09-1.15 g/mL Molecules identified in the study Protein Methods used in the study Mass spectrometry

4 Experiment ID 274 ISEV standards ✔ EM EV Biophysical techniques ✔ TSG101|Alix|RAB5A EV Cytosolic markers ✔ CD9|CD82|CD63|CD81 EV Membrane markers ✔ AIF EV Negative markers ✔ NTA EV Particle analysis Identified molecule protein Identification method Mass spectrometry PubMed ID 25844599     Organism Homo sapiens Experiment description Molecular profiling of prostate cancer derived exosomes may reveal a predictive signature for response to docetaxel. Authors Kharaziha P, Chioureas D, Rutishauser D, Baltatzis G, Lennartsson L, Fonseca P, Azimi A, Hultenby K, Zubarev R, Ullen A, Yachnin J, Nilsson S, Panaretakis T. Journal name Oncotarget Publication year 2015 Sample Prostate cancer cells Sample name DU145 - Docetaxel resistant Isolation/purification methods Filtration Ultracentrifugation Sucrose density gradient Flotation density 1.13-1.18 g/mL Molecules identified in the study Protein Methods used in the study Mass spectrometry Flow cytometry Western blotting

5 Experiment ID 13 ISEV standards ✔ IEM EV Biophysical techniques ✔ Alix|RAB4|RAB5B|RAB11|TSG101 EV Cytosolic markers ✔ CD9|AQP2|AQP1 EV Membrane markers ✘ EV Negative markers ✘ EV Particle analysis Identified molecule protein Identification method Mass spectrometry PubMed ID 15326289     Organism Homo sapiens Experiment description Identification and proteomic profiling of exosomes in human urine. Authors Pisitkun T, Shen RF, Knepper MA Journal name PNAS Publication year 2004 Sample Urine Sample name Urine - Normal Isolation/purification methods Ultracentrifugation Flotation density - Molecules identified in the study Protein Methods used in the study Mass spectrometry [LCQ DECA XP] Western blotting

6 Experiment ID 63 ISEV standards ✘ EV Biophysical techniques ✘ EV Cytosolic markers ✔ AQP2 EV Membrane markers ✘ EV Negative markers ✘ EV Particle analysis Identified molecule protein Identification method Mass spectrometry PubMed ID 19056867     Organism Homo sapiens Experiment description Large-scale proteomics and phosphoproteomics of urinary exosomes. Authors Gonzales PA, Pisitkun T, Hoffert JD, Tchapyjnikov D, Star RA, Kleta R, Wang NS, Knepper MA Journal name JASN Publication year 2009 Sample Urine Sample name Urine - Normal Isolation/purification methods Differential centrifugation Flotation density - Molecules identified in the study Protein Methods used in the study Mass spectrometry [LTQ] Western blotting

7 Experiment ID 193 ISEV standards ✔ EM EV Biophysical techniques ✘ EV Cytosolic markers ✔ CD63|CD9 EV Membrane markers ✔ PHB EV Negative markers ✘ EV Particle analysis Identified molecule protein Identification method Mass spectrometry PubMed ID 21595033     Organism Homo sapiens Experiment description Proteomic analysis of urinary exosomes from patients of early IgA nephropathy and thin basement membrane nephropathy. Authors Moon PG, Lee JE, You S, Kim TK, Cho JH, Kim IS, Kwon TH, Kim CD, Park SH, Hwang D, Kim YL, Baek MC. Journal name Proteomics Publication year 2011 Sample Urine Sample name Urine - Normal Isolation/purification methods Differential centrifugation Ultracentrifugation Sucrose density gradient Flotation density - Molecules identified in the study Protein Methods used in the study Mass spectrometry

8 Experiment ID 194 ISEV standards ✘ EV Biophysical techniques ✘ EV Cytosolic markers ✘ EV Membrane markers ✘ EV Negative markers ✘ EV Particle analysis Identified molecule protein Identification method Mass spectrometry PubMed ID 21595033     Organism Homo sapiens Experiment description Proteomic analysis of urinary exosomes from patients of early IgA nephropathy and thin basement membrane nephropathy. Authors Moon PG, Lee JE, You S, Kim TK, Cho JH, Kim IS, Kwon TH, Kim CD, Park SH, Hwang D, Kim YL, Baek MC. Journal name Proteomics Publication year 2011 Sample Urine Sample name Urine - Patients of basement membrane nephropathy Isolation/purification methods Differential centrifugation Ultracentrifugation Sucrose density gradient Flotation density - Molecules identified in the study Protein Methods used in the study Mass spectrometry

9 Experiment ID 195 ISEV standards ✘ EV Biophysical techniques ✘ EV Cytosolic markers ✘ EV Membrane markers ✘ EV Negative markers ✘ EV Particle analysis Identified molecule protein Identification method Mass spectrometry PubMed ID 21595033     Organism Homo sapiens Experiment description Proteomic analysis of urinary exosomes from patients of early IgA nephropathy and thin basement membrane nephropathy. Authors Moon PG, Lee JE, You S, Kim TK, Cho JH, Kim IS, Kwon TH, Kim CD, Park SH, Hwang D, Kim YL, Baek MC. Journal name Proteomics Publication year 2011 Sample Urine Sample name Urine - Patients of early IgA nephropathy Isolation/purification methods Differential centrifugation Ultracentrifugation Sucrose density gradient Flotation density - Molecules identified in the study Protein Methods used in the study Mass spectrometry

10 Experiment ID 196 ISEV standards ✔ EM EV Biophysical techniques ✔ Alix|TSG101|HSP70 EV Cytosolic markers ✔ CD9 EV Membrane markers ✘ EV Negative markers ✘ EV Particle analysis Identified molecule protein Identification method Mass spectrometry PubMed ID 22418980     Organism Homo sapiens Experiment description A multiplex quantitative proteomics strategy for protein biomarker studies in urinary exosomes. Authors Raj DA, Fiume I, Capasso G, Pocsfalvi G. Journal name Kidney Int Publication year 2012 Sample Urine Sample name Urine - Normal high density Isolation/purification methods Differential centrifugation Sucrose cushion Flotation density - Molecules identified in the study Protein Methods used in the study Mass spectrometry

11 Experiment ID 197 ISEV standards ✔ EM EV Biophysical techniques ✔ Alix|TSG101|HSP70 EV Cytosolic markers ✔ CD9 EV Membrane markers ✘ EV Negative markers ✘ EV Particle analysis Identified molecule protein Identification method Mass spectrometry PubMed ID 22418980     Organism Homo sapiens Experiment description A multiplex quantitative proteomics strategy for protein biomarker studies in urinary exosomes. Authors Raj DA, Fiume I, Capasso G, Pocsfalvi G. Journal name Kidney Int Publication year 2012 Sample Urine Sample name Urine - Normal low density Isolation/purification methods Differential centrifugation Sucrose cushion Flotation density - Molecules identified in the study Protein Methods used in the study Mass spectrometry

Protein-protein interactions for RAB3D

Protein Interactor ExoCarta ID Identification method PubMed Species 1 RIMS1   Affinity Capture-Western Homo sapiens 2 RPH3A 22895 Affinity Capture-Western Homo sapiens 3 RIMS2   Affinity Capture-Western Homo sapiens 4 RAB3IP   Affinity Capture-MS Homo sapiens 5 RPH3AL 9501 Affinity Capture-Western Homo sapiens View the network

Pathways in which RAB3D is involved

No pathways found