Vesiclepedia: A Compendium for Extracellular Vesicles with Continuous Community Annotation

被引：974

作者：

Kalra, Hina ^{[1
]}

Simpson, Richard J. ^{[1
]}

Ji, Hong ^{[1
]}

Aikawa, Elena ^{[2
]}

Altevogt, Peter ^{[3
]}

Askenase, Philip ^{[4
]}

Bond, Vincent C. ^{[5
]}

Borras, Francesc E. ^{[6
]}

Breakefield, Xandra ^{[7
,8
]}

Budnik, Vivian ^{[9
]}

Buzas, Edit ^{[10
]}

Camussi, Giovanni ^{[11
,12
]}

Clayton, Aled ^{[13
]}

Cocucci, Emanuele ^{[14
,15
,16
]}

Falcon-Perez, Juan M. ^{[17
,18
]}

Gabrielsson, Susanne ^{[19
]}

Gho, Yong Song ^{[20
]}

Gupta, Dwijendra ^{[21
]}

Harsha, H. C. ^{[22
]}

Hendrix, An ^{[23
]}

Hill, Andrew F. ^{[24
]}

Inal, Jameel M. ^{[25
]}

Jenster, Guido ^{[26
]}

Kraemer-Albers, Eva-Maria ^{[27
]}

Lim, Sai Kiang ^{[28
,29
]}

Llorente, Alicia ^{[30
]}

Lotvall, Jan ^{[31
]}

Marcilla, Antonio ^{[32
]}

Mincheva-Nilsson, Lucia ^{[33
]}

Nazarenko, Irina ^{[34
]}

Nieuwland, Rienk ^{[35
]}

Nolte-'t Hoen, Esther N. M. ^{[36
]}

Pandey, Akhilesh ^{[22
,37
,38
,39
]}

Patel, Tushar ^{[40
]}

Piper, Melissa G. ^{[41
]}

Pluchino, Stefano ^{[42
,43
]}

Prasad, T. S. Keshava ^{[22
]}

Rajendran, Lawrence

Raposo, Graca ^{[44
,45
]}

Record, Michel ^{[46
]}

Reid, Gavin E. ^{[47
]}

Sanchez-Madrid, Francisco ^{[48
]}

Schiffelers, Raymond M. ^{[49
]}

Siljander, Pia ^{[50
]}

Stensballe, Allan ^{[51
]}

Stoorvogel, Willem ^{[52
,53
]}

Taylor, Douglas ^{[54
,55
]}

Thery, Clotilde ^{[56
,57
]}

Valadi, Hadi ^{[58
]}

van Balkom, Bas W. M. ^{[59
]}

机构：

[1] La Trobe Univ, La Trobe Inst Mol Sci, Dept Biochem, Melbourne, Vic, Australia

[2] Harvard Univ, Brigham & Womens Hosp, Sch Med, Boston, MA 02115 USA

[3] German Canc Res Ctr, Tumor Immunol Programme, D-6900 Heidelberg, Germany

[4] Yale Univ, Sch Med, Dept Med, New Haven, CT USA

[5] Morehouse Sch Med, Dept Microbiol Biochem & Immunol, Atlanta, GA 30310 USA

[6] Univ Autonoma Barcelona, Dept Biol Cellular Fisiol & Immunol, Inst Invest Germans Trias & Pujol, LIRAD BST,IVECAT, Badalona, Spain

[7] Harvard Univ, Sch Med, Neurosci Program, Boston, MA 02115 USA

[8] Massachusetts Gen Hosp, Dept Neurol, Boston, MA 02114 USA

[9] Univ Massachusetts, Sch Med, Dept Neurobiol, Worcester, MA USA

[10] Semmelweis Univ, Dept Genet Cell & Immunobiol, Budapest, Hungary

[11] Ctr Mol Biotechnol, Dept Internal Med, Turin, Italy

[12] Ctr Res Expt Med, Turin, Italy

[13] Cardiff Univ, Velindre Canc Ctr, Sch Med, Inst Canc & Genet, Cardiff, S Glam, Wales

[14] Harvard Univ, Sch Med, Dept Cell Biol, Boston, MA USA

[15] Boston Childrens Hosp, Immune Dis Inst, Boston, MA USA

[16] Boston Childrens Hosp, Program Cellular & Mol Med, Boston, MA USA

[17] CIBERehd, CIC bioGUNE, Metabol Unit, Derio, Bizkaia, Spain

[18] Basque Fdn Sci, IKERBASQUE, Bilbao, Spain

[19] Karolinska Inst, Dept Med Solna, Translat Immunol Unit, Stockholm, Sweden

[20] Pohang Univ Sci & Technol, Dept Life Sci, Pohang, South Korea

[21] Univ Allahabad, Inst Interdisciplinary Studies, Ctr Bioinformat, Allahabad 211002, Uttar Pradesh, India

[22] Inst Bioinformat, Bangalore, Karnataka, India

[23] Ghent Univ Hosp, Dept Radiat Oncol & Expt Canc Res, Lab Expt Canc Res, Ghent, Belgium

[24] Univ Melbourne, Mol Sci & Biotechnol Inst Bio21, Dept Biochem & Mol Biol, Parkville, Vic 3052, Australia

[25] London Metropolitan Univ, Fac Life Sci, Cellular & Mol Immunol Res Ctr, London, England

[26] Erasmus MC, Dept Urol, Rotterdam, Netherlands

[27] Johannes Gutenberg Univ Mainz, Dept Mol Cell Biol, Mainz, Germany

[28] Natl Univ Singapore, Yong Loo Lin Sch Med, A STAR Inst Med Biol, Singapore 117548, Singapore

[29] Natl Univ Singapore, Yong Loo Lin Sch Med, Dept Surg, Singapore 117548, Singapore

[30] Oslo Univ Hosp Norwegian Radium Hosp, Inst Canc Res, Dept Biochem, Oslo, Norway

[31] Univ Gothenburg, Sahlgrenska Acad, Inst Med, Dept Internal Med & Clin Nutr,Krefting Res Ctr, Gothenburg, Sweden

[32] Univ Valencia, Dept Biol Celular & Parasitol, Area Parasitol, E-46100 Burjassot, Valencia, Spain

[33] Umea Univ, Dept Clin Microbiol Clin Immunol, Umea, Sweden

[34] Univ Med Ctr Freiburg, Dept Environm Hlth Sci, Freiburg, Germany

[35] Univ Amsterdam, Acad Med Ctr, Dept Clin Chem, NL-1105 AZ Amsterdam, Netherlands

[36] Univ Utrecht, Fac Vet Med, Dept Biochem & Cell Biol, Utrecht, Netherlands

[37] Johns Hopkins Univ, Sch Med, McKusick Nathans Inst Genet Med, Baltimore, MD USA

[38] Johns Hopkins Univ, Sch Med, Dept Biol Chem, Baltimore, MD 21205 USA

[39] Johns Hopkins Univ, Sch Med, Dept Pathol & Oncol, Baltimore, MD USA

[40] Mayo Clin, Jacksonville, FL 32224 USA

[41] Ohio State Univ, Davis Heart & Lung Res Inst, Div Pulm Allergy Crit Care & Sleep Med, Dept Internal Med, Columbus, OH 43210 USA

[42] Univ Cambridge, Ctr Brain Repair, Cambridge, England

[43] Univ Cambridge, Wellcome Trust MRC Stem Cell Inst, Dept Clin Neurosci, Cambridge, England

[44] Univ Zurich, Div Psychiat Res, Zurich, Switzerland

[45] Inst Curie, Paris, France

[46] Canc Researaud, Toulouse, France

[47] Michigan State Univ, Dept Biochem & Mol Biol, Dept Chem, E Lansing, MI 48824 USA

[48] Univ Autonoma Madrid, Hosp Princesa, Serv Inmunol, Madrid, Spain

[49] Univ Med Ctr Utrecht, Lab Clin Chem & Haematol, Utrecht, Netherlands

[50] Univ Helsinki, Div Biochem & Biotechnol, Dept Biosci, FIN-00014 Helsinki, Finland

来源：

PLOS BIOLOGY | 2012年 / 10卷 / 12期

基金：

澳大利亚国家健康与医学研究理事会;

关键词：

HUMAN PROTEINPEDIA; EXOSOMAL PROTEINS; URL DECAY; MICROVESICLES; BIOGENESIS; EXOCARTA; RESOURCE; DELIVERY; DATABASE; CELLS;

D O I：

10.1371/journal.pbio.1001450

中图分类号：

Q5 [生物化学]; Q7 [分子生物学];

学科分类号：

071010 ; 081704 ;

摘要：

Extracellular vesicles (EVs) are membraneous vesicles released by a variety of cells into their microenvironment. Recent studies have elucidated the role of EVs in intercellular communication, pathogenesis, drug, vaccine and gene-vector delivery, and as possible reservoirs of biomarkers. These findings have generated immense interest, along with an exponential increase in molecular data pertaining to EVs. Here, we describe Vesiclepedia, a manually curated compendium of molecular data (lipid, RNA, and protein) identified in different classes of EVs from more than 300 independent studies published over the past several years. Even though databases are indispensable resources for the scientific community, recent studies have shown that more than 50% of the databases are not regularly updated. In addition, more than 20% of the database links are inactive. To prevent such database and link decay, we have initiated a continuous community annotation project with the active involvement of EV researchers. The EV research community can set a gold standard in data sharing with Vesiclepedia, which could evolve as a primary resource for the field.

引用

页数：5

共 43 条

[21] Proteomics Analysis of A33 Immunoaffinity-purified Exosomes Released from the Human Colon Tumor Cell Line LIM1215 Reveals a Tissue-specific Protein Signature [J].

Mathivanan, Suresh ;

Lim, Justin W. E. ;

Tauro, Bow J. ;

Ji, Hong ;

Moritz, Robert L. ;

Simpson, Richard J. .

MOLECULAR & CELLULAR PROTEOMICS, 2010, 9 (02) :197-208

[22] ExoCarta: A compendium of exosomal proteins and RNA [J].

Mathivanan, Suresh ;

Simpson, Richard J. .

PROTEOMICS, 2009, 9 (21) :4997-5000

[23] The Role of Placental Exosomes in Reproduction [J].

Mincheva-Nilsson, Lucia ;

Baranov, Vladimir .

AMERICAN JOURNAL OF REPRODUCTIVE IMMUNOLOGY, 2010, 63 (06) :520-533

[24] Human protein reference database - 2006 update [J].

Mishra, Gopa R. ;

Suresh, M. ;

Kumaran, K. ;

Kannabiran, N. ;

Suresh, Shubha ;

Bala, P. ;

Shivakumar, K. ;

Anuradha, N. ;

Reddy, Raghunath ;

Raghavan, T. Madhan ;

Menon, Shalini ;

Hanumanthu, G. ;

Gupta, Malvika ;

Upendran, Sapna ;

Gupta, Shweta ;

Mahesh, M. ;

Jacob, Bincy ;

Mathew, Pinky ;

Chatterjee, Pritam ;

Arun, K. S. ;

Sharma, Salil ;

Chandrika, K. N. ;

Deshpande, Nandan ;

Palvankar, Kshitish ;

Raghavnath, R. ;

Krishnakanth, R. ;

Karathia, Hiren ;

Rekha, B. ;

Nayak, Rashmi ;

Vishnupriya, G. ;

Kumar, H. G. Mohan ;

Nagini, M. ;

Kumar, G. S. Sameer ;

Jose, Rojan ;

Deepthi, P. ;

Mohan, S. Sujatha ;

Gandhi, T. K. B. ;

Harsha, H. C. ;

Deshpande, Krishna S. ;

Sarker, Malabika ;

Prasad, T. S. Keshava ;

Pandey, Akhilesh .

NUCLEIC ACIDS RESEARCH, 2006, 34 :D411-D414

[25] Unidirectional transfer of microRNA-loaded exosomes from T cells to antigen-presenting cells [J].

Mittelbrunn, Maria ;

Gutierrez-Vazquez, Cristina ;

Villarroya-Beltri, Carolina ;

Gonzalez, Susana ;

Sanchez-Cabo, Fatima ;

Angel Gonzalez, Manuel ;

Bernad, Antonio ;

Sanchez-Madrid, Francisco .

NATURE COMMUNICATIONS, 2011, 2

[26] Melanoma exosomes educate bone marrow progenitor cells toward a pro-metastatic phenotype through MET [J].

Peinado, Hector ;

Aleckovic, Masa ;

Lavotshkin, Simon ;

Matei, Irina ;

Costa-Silva, Bruno ;

Moreno-Bueno, Gema ;

Hergueta-Redondo, Marta ;

Williams, Caitlin ;

Garcia-Santos, Guillermo ;

Ghajar, Cyrus M. ;

Nitadori-Hoshino, Ayuko ;

Hoffman, Caitlin ;

Badal, Karen ;

Garcia, Benjamin A. ;

Callahan, Margaret K. ;

Yuan, Jianda ;

Martins, Vilma R. ;

Skog, Johan ;

Kaplan, Rosandra N. ;

Brady, Mary S. ;

Wolchok, Jedd D. ;

Chapman, Paul B. ;

Kang, Yibin ;

Bromberg, Jacqueline ;

Lyden, David .

NATURE MEDICINE, 2012, 18 (06) :883-+

[27] Human Protein Reference Database-2009 update [J].

Prasad, T. S. Keshava ;

Goel, Renu ;

Kandasamy, Kumaran ;

Keerthikumar, Shivakumar ;

Kumar, Sameer ;

Mathivanan, Suresh ;

Telikicherla, Deepthi ;

Raju, Rajesh ;

Shafreen, Beema ;

Venugopal, Abhilash ;

Balakrishnan, Lavanya ;

Marimuthu, Arivusudar ;

Banerjee, Sutopa ;

Somanathan, Devi S. ;

Sebastian, Aimy ;

Rani, Sandhya ;

Ray, Somak ;

Kishore, C. J. Harrys ;

Kanth, Sashi ;

Ahmed, Mukhtar ;

Kashyap, Manoj K. ;

Mohmood, Riaz ;

Ramachandra, Y. L. ;

Krishna, V. ;

Rahiman, B. Abdul ;

Mohan, Sujatha ;

Ranganathan, Prathibha ;

Ramabadran, Subhashri ;

Chaerkady, Raghothama ;

Pandey, Akhilesh .

NUCLEIC ACIDS RESEARCH, 2009, 37 :D767-D772

[28] Alzheimer's disease β-amyloid peptides are released in association with exosomes [J].

Rajendran, Lawrence ;

Honsho, Masanori ;

Zahn, Tobias R. ;

Keller, Patrick ;

Geiger, Kathrin D. ;

Verkade, Paul ;

Simons, Kai .

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 2006, 103 (30) :11172-11177

[29] B lymphocytes secrete antigen-presenting vesicles [J].

Raposo, G ;

Nijman, HW ;

Stoorvogel, W ;

Leijendekker, R ;

Harding, CV ;

Melief, CJM ;

Geuze, HJ .

JOURNAL OF EXPERIMENTAL MEDICINE, 1996, 183 (03) :1161-1172

[30] Membrane-derived microvesicles: important and underappreciated mediators of cell-to-cell communication [J].

Ratajczak, J. ;

Wysoczynski, M. ;

Hayek, F. ;

Janowska-Wieczorek, A. ;

Ratajczak, M. Z. .

LEUKEMIA, 2006, 20 (09) :1487-1495

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