Open Access
EVpedia: A community web portal for extracellular vesicles research
Dae-Kyum Kim,Jaewook Lee,Sae Rom Kim,Dong-Sic Choi,Yae Jin Yoon,Joosup Kim,Gyeongyun Go,D. Nhung,Kahye Hong,Su Chul Jang,Si-Hyun Kim,Kyong-Su Park,Oh Youn Kim,Hyun Taek Park,Ji-Hye Seo,Elena Aikawa,Monika Baj-Krzyworzeka,B. W. M. van Balkom,Mattias Belting,Lionel Blanc,Vincent C. Bond,Antonella Bongiovanni,Francesc E. Borràs,Luc Buée,Edit I. Buzás,Lesley Cheng,Aled Clayton,Emanuele Cocucci,C. S. Dela Cruz,Dominic M. Desiderio,Dolores Di Vizio,Karin M. Ekström,Juan M. Falcón-Pérez,Chris Gardiner,Bernd Giebel,David W. Greening,Julia Christina Gross,Dwijendra K. Gupta,An Hendrix,Andrew F. Hill,Michelle M. Hill,E. Nolte-'t Hoen,Do Won Hwang,Jameel M. Inal,Medicharla V. Jagannadham,Muthuvel Jayachandran,Young Koo Jee,Malene Jørgensen,Kwang Pyo Kim,Yoon Keun Kim,Thomas Kislinger,Cecilia Lässer,Dong Soo Lee,Hakmo Lee,J. van Leeuwen,Thomas Lener,Ming-Lin Liu,Jan Lötvall,Antonio Marcilla,Suresh Mathivanan,Andreas Möller,Jess Morhayim,François Mullier,Irina Nazarenko,Rienk Nieuwland,Diana N. Nunes,Ken C Pang,Jaesung Park,Trushar R. Patel,Gabriella Pocsfalvi,H. del Portillo,Ulrich Putz,Marcel I. Ramirez,Marcio L. Rodrigues,Tae-Young Roh,Felix Royo,Susmita Sahoo,Raymond M. Schiffelers,Shivani Sharma,Pia Siljander,Richard J. Simpson,Carolina Soekmadji,Philip D. Stahl,Allan Stensballe,E. St pie,Hidetoshi Tahara,Arne Trummer,Hadi Valadi,Laura J Vella,Sun Nyunt Wai,Kenneth W. Witwer,María Yáñez-Mó,Hyewon Youn,Reinhard Zeidler,Yong Song Gho +94 more
TLDR
In this paper, the authors present an improved version of EVpedia, a public database for extracellular vesicles (EVs) research, which contains a database of publications and vesicular components, identification of orthologous vesicle components, bioinformatic tools and a personalized function.Abstract:
Motivation
Extracellular vesicles (EVs) are spherical bilayered proteolipids, harboring various bioactive molecules. Due to the complexity of the vesicular nomenclatures and components, online searches for EV-related publications and vesicular components are currently challenging.
Results
We present an improved version of EVpedia, a public database for EVs research. This community web portal contains a database of publications and vesicular components, identification of orthologous vesicular components, bioinformatic tools and a personalized function. EVpedia includes 6879 publications, 172 080 vesicular components from 263 high-throughput datasets, and has been accessed more than 65 000 times from more than 750 cities. In addition, about 350 members from 73 international research groups have participated in developing EVpedia. This free web-based database might serve as a useful resource to stimulate the emerging field of EV research.
Availability and implementation
The web site was implemented in PHP, Java, MySQL and Apache, and is freely available at http://evpedia.info.read more
Citations
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Journal ArticleDOI
Minimal information for studies of extracellular vesicles 2018 (MISEV2018) : a position statement of the International Society for Extracellular Vesicles and update of the MISEV2014 guidelines
Clotilde Théry,Kenneth W. Witwer,Elena Aikawa,María José Alcaraz,Johnathon D. Anderson,Ramaroson Andriantsitohaina,Anna Antoniou,Anna Antoniou,Tanina Arab,Fabienne Archer,Georgia K. Atkin-Smith,D. Craig Ayre,Jean Marie Bach,Daniel Bachurski,Hossein Baharvand,Hossein Baharvand,Leonora Balaj,Shawn Baldacchino,Natalie N. Bauer,Amy A. Baxter,Mary Bebawy,Carla Beckham,Apolonija Bedina Zavec,Abderrahim Benmoussa,Anna Berardi,Paolo Bergese,Ewa Bielska,Cherie Blenkiron,Sylwia Bobis-Wozowicz,Eric Boilard,Wilfrid Boireau,Antonella Bongiovanni,Francesc E. Borràs,Steffi Bosch,Chantal M. Boulanger,Chantal M. Boulanger,Xandra O. Breakefield,Andrew M. Breglio,Andrew M. Breglio,Meadhbh Á. Brennan,Meadhbh Á. Brennan,David R. Brigstock,David R. Brigstock,Alain Brisson,Marike L. D. Broekman,Marike L. D. Broekman,Jacqueline Bromberg,Paulina Bryl-Górecka,Shilpa Buch,Amy H. Buck,Dylan Burger,Sara Busatto,Sara Busatto,Dominik Buschmann,Benedetta Bussolati,Edit I. Buzás,Edit I. Buzás,James Bryan Byrd,Giovanni Camussi,David R. F. Carter,Sarah Caruso,Lawrence W. Chamley,Yu Ting Chang,Amrita Datta Chaudhuri,Chihchen Chen,Shuai Chen,Lesley Cheng,Andrew Chin,Aled Clayton,Stefano P. Clerici,Alex Cocks,Emanuele Cocucci,Robert J. Coffey,Anabela Cordeiro-da-Silva,Yvonne Couch,Frank A. W. Coumans,Beth Coyle,Rossella Crescitelli,Miria Ferreira Criado,Crislyn D'Souza-Schorey,Saumya Das,Paola de Candia,Eliezer F. De Santana,Olivier De Wever,Hernando A. del Portillo,Tanguy Demaret,Sarah Deville,Sarah Deville,Andrew Devitt,Bert Dhondt,Dolores Di Vizio,Lothar C. Dieterich,Vincenza Dolo,Ana Paula Domínguez Rubio,Massimo Dominici,Mauricio Rocha Dourado,Mauricio Rocha Dourado,Tom A. P. Driedonks,Filipe V. Duarte,Heather M. Duncan,Ramon M. Eichenberger,Karin M. Ekström,Samir El Andaloussi,Celine Elie-Caille,Uta Erdbrügger,Juan M. Falcón-Pérez,Farah Fatima,Jason E. Fish,Jason E. Fish,Miguel Flores-Bellver,András Försönits,Annie Frelet-Barrand,Fabia Fricke,Fabia Fricke,Gregor Fuhrmann,Susanne Gabrielsson,Ana Gámez-Valero,Chris Gardiner,Kathrin Gärtner,Raphael Gaudin,Raphael Gaudin,Yong Song Gho,Bernd Giebel,Caroline Gilbert,Mario Gimona,Ilaria Giusti,Deborah C.I. Goberdhan,André Görgens,André Görgens,Sharon M. Gorski,David W. Greening,Julia Christina Gross,Alice Gualerzi,Gopal N. Gupta,Dakota Gustafson,Aase Handberg,Reka A. Haraszti,Paul Harrison,Hargita Hegyesi,An Hendrix,Andrew F. Hill,Fred H. Hochberg,Karl F. Hoffmann,Beth Holder,Harry Holthöfer,Baharak Hosseinkhani,Guoku Hu,Yiyao Huang,Yiyao Huang,Veronica Huber,Stuart Hunt,Ahmed Ibrahim,Tsuneya Ikezu,Jameel M. Inal,Mustafa Isin,Alena Ivanova,Hannah K Jackson,Søren Jacobsen,Steven M. Jay,Muthuvel Jayachandran,Guido Jenster,Lanzhou Jiang,Suzanne M. Johnson,Jennifer Jones,Ambrose Jong,Tijana Jovanovic-Talisman,Stephanie M. Jung,Raghu Kalluri,Shin Ichi Kano,Sukhbir Kaur,Yumi Kawamura,Yumi Kawamura,Evan T. Keller,Delaram Khamari,Elena Khomyakova,Anastasia Khvorova,Peter Kierulf,Kwang Pyo Kim,Thomas Kislinger,Thomas Kislinger,Mikael Klingeborn,David J. Klinke,Miroslaw Kornek,Maja Kosanović,Árpád Kovács,Eva-Maria Krämer-Albers,Susanne Krasemann,Mirja Krause,Igor V. Kurochkin,Gina D. Kusuma,Gina D. Kusuma,Sören Kuypers,Saara Laitinen,Scott M. Langevin,Lucia R. Languino,Joanne Lannigan,Cecilia Lässer,Louise C. Laurent,Grégory Lavieu,Elisa Lázaro-Ibáñez,Soazig Le Lay,Myung-Shin Lee,Yi Xin Fiona Lee,Débora S. Lemos,Metka Lenassi,Aleksandra Leszczynska,Isaac T. S. Li,Ke Liao,Sten F.W.M. Libregts,Erzsébet Ligeti,Rebecca Lim,Rebecca Lim,Sai Kiang Lim,Aija Linē,Karen Linnemannstöns,Alicia Llorente,Catherine Lombard,Magdalena J. Lorenowicz,Ákos M. Lörincz,Jan Lötvall,Jason Lovett,Michelle C. Lowry,Xavier Loyer,Xavier Loyer,Quan Lu,Barbara Lukomska,Taral R. Lunavat,Sybren L. N. Maas,Harmeet Malhi,Antonio Marcilla,Jacopo Mariani,Javier Mariscal,Elena S. Martens-Uzunova,Lorena Martin-Jaular,M. Carmen Martinez,Vilma R. Martins,Mathilde Mathieu,Suresh Mathivanan,Marco Maugeri,Lynda K. McGinnis,Mark J. McVey,David G. Meckes,Katie Meehan,Inge Mertens,Inge Mertens,Valentina R. Minciacchi,Andreas Möller,Malene Jørgensen,Aizea Morales-Kastresana,Jess Morhayim,François Mullier,Maurizio Muraca,Luca Musante,Veronika Mussack,Dillon C. Muth,Kathryn H. Myburgh,Tanbir Najrana,Muhammad Nawaz,Irina Nazarenko,Irina Nazarenko,Peter Nejsum,Christian Neri,Tommaso Neri,Rienk Nieuwland,Leonardo Nimrichter,John P. Nolan,Esther N. M. Nolte-‘t Hoen,Nicole Noren Hooten,Lorraine O'Driscoll,Tina O'Grady,Ana O'Loghlen,Takahiro Ochiya,Martin Olivier,Alberto Ortiz,Luis A. Ortiz,Xabier Osteikoetxea,Ole Ostegaard,Ole Ostegaard,Matias Ostrowski,Jaesung Park,D. Michiel Pegtel,Héctor Peinado,Francesca Perut,Michael W. Pfaffl,Donald G. Phinney,Bartijn C. H. Pieters,Ryan C. Pink,David S. Pisetsky,Elke Pogge von Strandmann,Iva Polakovicova,Ivan K. H. Poon,Bonita H. Powell,Ilaria Prada,Lynn Pulliam,Lynn Pulliam,Peter J. Quesenberry,Annalisa Radeghieri,Robert L. Raffai,Robert L. Raffai,Stefania Raimondo,Janusz Rak,Marcel I. Ramirez,Marcel I. Ramirez,Graça Raposo,Morsi S. Rayyan,Neta Regev-Rudzki,Franz Ricklefs,Paul D. Robbins,David D. Roberts,Silvia C Rodrigues,Eva Rohde,Sophie Rome,Kasper M.A. Rouschop,Aurelia Rughetti,Ashley E. Russell,Paula Saa,Susmita Sahoo,Edison Salas-Huenuleo,Catherine Sánchez,Julie A. Saugstad,Meike J. Saul,Raymond M. Schiffelers,Raphael Schneider,Tine Hiorth Schøyen,Aaron Scott,Eriomina Shahaj,Shivani Sharma,Olga Shatnyeva,Faezeh Shekari,Ganesh Vilas Shelke,Ashok K. Shetty,Kiyotaka Shiba,Pia Siljander,Andreia M. Silva,Agata Skowronek,Orman L. Snyder,Rodrigo Pedro Soares,Barbara W Sódar,Carolina Soekmadji,Carolina Soekmadji,Javier Sotillo,Philip D. Stahl,Willem Stoorvogel,Shannon L. Stott,Erwin Strasser,Simon Swift,Hidetoshi Tahara,Muneesh Tewari,Kate Timms,Swasti Tiwari,Swasti Tiwari,Rochelle Tixeira,Mercedes Tkach,Wei Seong Toh,Richard Tomasini,Ana Claudia Torrecilhas,Juan Pablo Tosar,Juan Pablo Tosar,Vasilis Toxavidis,Lorena Urbanelli,Pieter Vader,Bas W.M. van Balkom,Susanne G. van der Grein,Jan Van Deun,Martijn J. C. van Herwijnen,Kendall Van Keuren-Jensen,Guillaume van Niel,Martin E. van Royen,Andre J. van Wijnen,M. Helena Vasconcelos,Ivan J. Vechetti,Tiago Degani Veit,Laura J Vella,Laura J Vella,Emilie Velot,Frederik J. Verweij,Beate Vestad,Jose L. Viñas,Tamás Visnovitz,Krisztina V. Vukman,Jessica Wahlgren,Dionysios C. Watson,Marca H. M. Wauben,Alissa M. Weaver,Jason P. Webber,Viktoria Weber,Ann M. Wehman,Daniel J. Weiss,Joshua A. Welsh,Sebastian Wendt,Åsa M. Wheelock,Zoltán Wiener,Leonie Witte,Joy Wolfram,Joy Wolfram,Joy Wolfram,Angeliki Xagorari,Patricia Xander,Jing Xu,Xiaomei Yan,María Yáñez-Mó,María Yáñez-Mó,Hang Yin,Yuana Yuana,Valentina Zappulli,Jana Zarubova,Jana Zarubova,Vytautas Žėkas,Jian ye Zhang,Zezhou Zhao,Lei Zheng,Alexander R. Zheutlin,Antje M. Zickler,Pascale Zimmermann,Pascale Zimmermann,Angela M. Zivkovic,Davide Zocco,Ewa K. Zuba-Surma +417 more
TL;DR: The MISEV2018 guidelines include tables and outlines of suggested protocols and steps to follow to document specific EV-associated functional activities, and a checklist is provided with summaries of key points.
Journal ArticleDOI
Minimal experimental requirements for definition of extracellular vesicles and their functions: a position statement from the International Society for Extracellular Vesicles.
Jan Lötvall,Andrew F. Hill,Fred H. Hochberg,Edit I. Buzás,Dolores Di Vizio,Chris Gardiner,Yong Song Gho,Igor V. Kurochkin,Suresh Mathivanan,Peter J. Quesenberry,Susmita Sahoo,Hidetoshi Tahara,Marca H. M. Wauben,Kenneth W. Witwer,Clotilde Théry +14 more
TL;DR: The International Society for Extracellular Vesicles (ISEV) provides researchers with a minimal set of biochemical, biophysical and functional standards that should be used to attribute any specific biological cargo or functions to EVs.
Journal ArticleDOI
Applying extracellular vesicles based therapeutics in clinical trials - an ISEV position paper
Thomas Lener,Mario Gimona,Ludwig Aigner,Verena Börger,Edit I. Buzás,Giovanni Camussi,Nathalie Chaput,Devasis Chatterjee,Felipe A. Court,Hernando A. del Portillo,Lorraine O'Driscoll,Stefano Fais,Juan M. Falcón-Pérez,Ursula Felderhoff-Mueser,Lorenzo Fraile,Yong Song Gho,André Görgens,Ramesh C. Gupta,An Hendrix,Dirk M. Hermann,Andrew F. Hill,Fred H. Hochberg,Peter A. Horn,Dominique P.V. de Kleijn,Lambros Kordelas,Boris W. Kramer,Eva-Maria Krämer-Albers,Sandra Laner-Plamberger,Saara Laitinen,Tommaso Leonardi,Magdalena J. Lorenowicz,Sai Kiang Lim,Jan Lötvall,Casey A. Maguire,Antonio Marcilla,Irina Nazarenko,Takahiro Ochiya,Tushar Patel,Shona Pedersen,Gabriella Pocsfalvi,Stefano Pluchino,Peter J. Quesenberry,Ilona G. Reischl,Francisco J. Rivera,Ralf Sanzenbacher,Katharina Schallmoser,Ineke Slaper-Cortenbach,Dirk Strunk,Torsten Tonn,Pieter Vader,Pieter Vader,Bas W.M. van Balkom,Marca H. M. Wauben,Samir El Andaloussi,Samir El Andaloussi,Clotilde Théry,Eva Rohde,Bernd Giebel +57 more
TL;DR: In this paper, the authors summarize recent developments and the current knowledge of extracellular vesicles (EVs) and discuss safety and regulatory requirements that must be considered for pharmaceutical manufacturing and clinical application.
Journal ArticleDOI
ExoCarta: A Web-Based Compendium of Exosomal Cargo
Shivakumar Keerthikumar,David Chisanga,Dinuka Ariyaratne,Haidar Al Saffar,Sushma Anand,Kening Zhao,Monisha Samuel,Mohashin Pathan,Markandeya Jois,Naveen Chilamkurti,Lahiru Gangoda,Suresh Mathivanan +11 more
TL;DR: ExoCarta is described, a manually curated Web-based compendium of exosomal proteins, RNAs and lipids, which features dynamic protein-protein interaction networks and biological pathways of exOSomal proteins.
Journal ArticleDOI
Through the wall: extracellular vesicles in Gram-positive bacteria, mycobacteria and fungi
TL;DR: The current status of vesiculogenesis research in thick-walled microorganisms is described and the cargo and functions associated with EVs in these species are discussed.
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Related Papers (5)
EVpedia: a community web portal for extracellular vesicles research
Dae-Kyum Kim,Jaewook Lee,Sae Rom Kim,Dong-Sic Choi,Yae Jin Yoon,Ji-Hyun Kim,Gyeongyun Go,Dinh Nhung,Kahye Hong,Su Chul Jang,Si-Hyun Kim,Kyong-Su Park,Oh Youn Kim,Hyun Taek Park,Ji-Hye Seo,Elena Aikawa,Monika Baj-Krzyworzeka,Bas W.M. van Balkom,Mattias Belting,Lionel Blanc,Vincent C. Bond,Antonella Bongiovanni,Francesc E. Borràs,Luc Buée,Edit I. Buzás,Lesley Cheng,Aled Clayton,Emanuele Cocucci,Charles S. Dela Cruz,Dominic M. Desiderio,Dolores Di Vizio,Karin M. Ekström,Juan M. Falcón-Pérez,Chris Gardiner,Bernd Giebel,David W. Greening,Julia Christina Gross,Dwijendra K. Gupta,An Hendrix,Andrew F. Hill,Michelle M. Hill,Esther N. M. Nolte-‘t Hoen,Do Won Hwang,Jameel M. Inal,Medicharla V. Jagannadham,Muthuvel Jayachandran,Young Koo Jee,Malene Rytter Jørgensen,Kwang Pyo Kim,Yoon Keun Kim,Thomas Kislinger,Cecilia Lässer,Dong Soo Lee,Hakmo Lee,Johannes P.T.M. van Leeuwen,Thomas Lener,Ming-Lin Liu,Ming-Lin Liu,Jan Lötvall,Antonio Marcilla,Suresh Mathivanan,Andreas Möller,Jess Morhayim,François Mullier,Irina Nazarenko,Rienk Nieuwland,Diana N. Nunes,Ken C Pang,Ken C Pang,Jaesung Park,Tushar Patel,Gabriella Pocsfalvi,Hernando A. del Portillo,Ulrich Putz,Marcel I. Ramirez,Marcio L. Rodrigues,Marcio L. Rodrigues,Tae-Young Roh,Felix Royo,Susmita Sahoo,Raymond M. Schiffelers,Shivani Sharma,Pia Siljander,Richard J. Simpson,Carolina Soekmadji,Philip D. Stahl,Allan Stensballe,Ewa Stępień,Hidetoshi Tahara,Arne Trummer,Hadi Valadi,Laura J Vella,Sun Nyunt Wai,Kenneth W. Witwer,María Yáñez-Mó,Hyewon Youn,Reinhard Zeidler,Yong Song Gho +97 more