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 BlancVincent 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 Ekström, Juan M. Falcon-Perez, Chris Gardiner, Bernd Giebel, David W. Greening, Julia Christina Gross, Dwijendra Gupta, An Hendrix, Andrew F. Hill, Michelle M. Hill, Esther Nolte-'T Hoen, Do Won Hwang, Jameel 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, Johannes Van Leeuwen, Thomas Lener, Ming Lin Liu, Jan Lötvall, Antonio Marcilla, Suresh Mathivanan, Andreas Möller, Jess Morhayim, Francois Mullier, Irina Nazarenko, Rienk Nieuwland, Diana N. Nunes, Ken Pang, Jaesung Park, Tushar Patel, Gabriella Pocsfalvi, Hernando Del Portillo, Ulrich Putz, Marcel I. Ramirez, Marcio L. Rodrigues, Tae Young Roh, Felix Royo, Susmita Sahoo, Raymond Schiffelers, Shivani Sharma, Pia Siljander, Richard J. Simpson, Carolina Soekmadji, Philip Stahl, Allan Stensballe, Ewa Stepień, Hidetoshi Tahara, Arne Trummer, Hadi Valadi, Laura J. Vella, Sun Nyunt Wai, Kenneth Witwer, Maria Yánez-Mó, Hyewon Youn, Reinhard Zeidler, Yong Song Gho

Research output: Contribution to journalArticle

154 Citations (Scopus)

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.

Original languageEnglish
Pages (from-to)933-939
Number of pages7
JournalBioinformatics
Volume31
Issue number6
DOIs
Publication statusPublished - Mar 15 2015

Fingerprint

Web Portal
Vesicles
Databases
Research
Proteolipids
Publications
Bioinformatics
Websites
Computational Biology
Throughput
Availability
Molecules
Web-based
High Throughput
Java
Community
Extracellular Vesicles
Resources

ASJC Scopus subject areas

  • Biochemistry
  • Molecular Biology
  • Computational Theory and Mathematics
  • Computer Science Applications
  • Computational Mathematics
  • Statistics and Probability

Cite this

Kim, D. K., Lee, J., Kim, S. R., Choi, D. S., Yoon, Y. J., Kim, J. H., ... Gho, Y. S. (2015). EVpedia: A community web portal for extracellular vesicles research. Bioinformatics, 31(6), 933-939. https://doi.org/10.1093/bioinformatics/btu741

EVpedia : A community web portal for extracellular vesicles research. / Kim, Dae Kyum; Lee, Jaewook; Kim, Sae Rom; Choi, Dong Sic; Yoon, Yae Jin; Kim, Ji Hyun; Go, Gyeongyun; Nhung, Dinh; Hong, Kahye; Jang, Su Chul; Kim, Si Hyun; Park, Kyong Su; Kim, Oh Youn; Park, Hyun Taek; Seo, Ji Hye; Aikawa, Elena; Baj-Krzyworzeka, Monika; Van Balkom, Bas W M; Belting, Mattias; Blanc, Lionel; Bond, Vincent; Bongiovanni, Antonella; Borràs, Francesc E.; Buée, Luc; Buzás, Edit I.; Cheng, Lesley; Clayton, Aled; Cocucci, Emanuele; Dela Cruz, Charles S.; Desiderio, Dominic M.; Di Vizio, Dolores; Ekström, Karin; Falcon-Perez, Juan M.; Gardiner, Chris; Giebel, Bernd; Greening, David W.; Christina Gross, Julia; Gupta, Dwijendra; Hendrix, An; Hill, Andrew F.; Hill, Michelle M.; Nolte-'T Hoen, Esther; Hwang, Do Won; Inal, Jameel; Jagannadham, Medicharla V.; Jayachandran, Muthuvel; Jee, Young Koo; Jørgensen, Malene; Kim, Kwang Pyo; Kim, Yoon Keun; Kislinger, Thomas; Lässer, Cecilia; Lee, Dong Soo; Lee, Hakmo; Van Leeuwen, Johannes; Lener, Thomas; Liu, Ming Lin; Lötvall, Jan; Marcilla, Antonio; Mathivanan, Suresh; Möller, Andreas; Morhayim, Jess; Mullier, Francois; Nazarenko, Irina; Nieuwland, Rienk; Nunes, Diana N.; Pang, Ken; Park, Jaesung; Patel, Tushar; Pocsfalvi, Gabriella; Del Portillo, Hernando; Putz, Ulrich; Ramirez, Marcel I.; Rodrigues, Marcio L.; Roh, Tae Young; Royo, Felix; Sahoo, Susmita; Schiffelers, Raymond; Sharma, Shivani; Siljander, Pia; Simpson, Richard J.; Soekmadji, Carolina; Stahl, Philip; Stensballe, Allan; Stepień, Ewa; Tahara, Hidetoshi; Trummer, Arne; Valadi, Hadi; Vella, Laura J.; Wai, Sun Nyunt; Witwer, Kenneth; Yánez-Mó, Maria; Youn, Hyewon; Zeidler, Reinhard; Gho, Yong Song.

In: Bioinformatics, Vol. 31, No. 6, 15.03.2015, p. 933-939.

Research output: Contribution to journalArticle

Kim, DK, Lee, J, Kim, SR, Choi, DS, Yoon, YJ, Kim, JH, Go, G, Nhung, D, Hong, K, Jang, SC, Kim, SH, Park, KS, Kim, OY, Park, HT, Seo, JH, Aikawa, E, Baj-Krzyworzeka, M, Van Balkom, BWM, Belting, M, Blanc, L, Bond, V, Bongiovanni, A, Borràs, FE, Buée, L, Buzás, EI, Cheng, L, Clayton, A, Cocucci, E, Dela Cruz, CS, Desiderio, DM, Di Vizio, D, Ekström, K, Falcon-Perez, JM, Gardiner, C, Giebel, B, Greening, DW, Christina Gross, J, Gupta, D, Hendrix, A, Hill, AF, Hill, MM, Nolte-'T Hoen, E, Hwang, DW, Inal, J, Jagannadham, MV, Jayachandran, M, Jee, YK, Jørgensen, M, Kim, KP, Kim, YK, Kislinger, T, Lässer, C, Lee, DS, Lee, H, Van Leeuwen, J, Lener, T, Liu, ML, Lötvall, J, Marcilla, A, Mathivanan, S, Möller, A, Morhayim, J, Mullier, F, Nazarenko, I, Nieuwland, R, Nunes, DN, Pang, K, Park, J, Patel, T, Pocsfalvi, G, Del Portillo, H, Putz, U, Ramirez, MI, Rodrigues, ML, Roh, TY, Royo, F, Sahoo, S, Schiffelers, R, Sharma, S, Siljander, P, Simpson, RJ, Soekmadji, C, Stahl, P, Stensballe, A, Stepień, E, Tahara, H, Trummer, A, Valadi, H, Vella, LJ, Wai, SN, Witwer, K, Yánez-Mó, M, Youn, H, Zeidler, R & Gho, YS 2015, 'EVpedia: A community web portal for extracellular vesicles research', Bioinformatics, vol. 31, no. 6, pp. 933-939. https://doi.org/10.1093/bioinformatics/btu741
Kim DK, Lee J, Kim SR, Choi DS, Yoon YJ, Kim JH et al. EVpedia: A community web portal for extracellular vesicles research. Bioinformatics. 2015 Mar 15;31(6):933-939. https://doi.org/10.1093/bioinformatics/btu741
Kim, Dae Kyum ; Lee, Jaewook ; Kim, Sae Rom ; Choi, Dong Sic ; Yoon, Yae Jin ; Kim, Ji Hyun ; Go, Gyeongyun ; Nhung, Dinh ; Hong, Kahye ; Jang, Su Chul ; Kim, Si Hyun ; Park, Kyong Su ; Kim, Oh Youn ; Park, Hyun Taek ; Seo, Ji Hye ; Aikawa, Elena ; Baj-Krzyworzeka, Monika ; Van Balkom, Bas W M ; Belting, Mattias ; Blanc, Lionel ; Bond, Vincent ; Bongiovanni, Antonella ; Borràs, Francesc E. ; Buée, Luc ; Buzás, Edit I. ; Cheng, Lesley ; Clayton, Aled ; Cocucci, Emanuele ; Dela Cruz, Charles S. ; Desiderio, Dominic M. ; Di Vizio, Dolores ; Ekström, Karin ; Falcon-Perez, Juan M. ; Gardiner, Chris ; Giebel, Bernd ; Greening, David W. ; Christina Gross, Julia ; Gupta, Dwijendra ; Hendrix, An ; Hill, Andrew F. ; Hill, Michelle M. ; Nolte-'T Hoen, Esther ; Hwang, Do Won ; Inal, Jameel ; Jagannadham, Medicharla V. ; Jayachandran, Muthuvel ; Jee, Young Koo ; Jørgensen, Malene ; Kim, Kwang Pyo ; Kim, Yoon Keun ; Kislinger, Thomas ; Lässer, Cecilia ; Lee, Dong Soo ; Lee, Hakmo ; Van Leeuwen, Johannes ; Lener, Thomas ; Liu, Ming Lin ; Lötvall, Jan ; Marcilla, Antonio ; Mathivanan, Suresh ; Möller, Andreas ; Morhayim, Jess ; Mullier, Francois ; Nazarenko, Irina ; Nieuwland, Rienk ; Nunes, Diana N. ; Pang, Ken ; Park, Jaesung ; Patel, Tushar ; Pocsfalvi, Gabriella ; Del Portillo, Hernando ; Putz, Ulrich ; Ramirez, Marcel I. ; Rodrigues, Marcio L. ; Roh, Tae Young ; Royo, Felix ; Sahoo, Susmita ; Schiffelers, Raymond ; Sharma, Shivani ; Siljander, Pia ; Simpson, Richard J. ; Soekmadji, Carolina ; Stahl, Philip ; Stensballe, Allan ; Stepień, Ewa ; Tahara, Hidetoshi ; Trummer, Arne ; Valadi, Hadi ; Vella, Laura J. ; Wai, Sun Nyunt ; Witwer, Kenneth ; Yánez-Mó, Maria ; Youn, Hyewon ; Zeidler, Reinhard ; Gho, Yong Song. / EVpedia : A community web portal for extracellular vesicles research. In: Bioinformatics. 2015 ; Vol. 31, No. 6. pp. 933-939.
@article{fe60bdcd7b8744dfa0c3c49104e22cd8,
title = "EVpedia: A community web portal for extracellular vesicles research",
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.",
author = "Kim, {Dae Kyum} and Jaewook Lee and Kim, {Sae Rom} and Choi, {Dong Sic} and Yoon, {Yae Jin} and Kim, {Ji Hyun} and Gyeongyun Go and Dinh Nhung and Kahye Hong and Jang, {Su Chul} and Kim, {Si Hyun} and Park, {Kyong Su} and Kim, {Oh Youn} and Park, {Hyun Taek} and Seo, {Ji Hye} and Elena Aikawa and Monika Baj-Krzyworzeka and {Van Balkom}, {Bas W M} and Mattias Belting and Lionel Blanc and Vincent Bond and Antonella Bongiovanni and Borr{\`a}s, {Francesc E.} and Luc Bu{\'e}e and Buz{\'a}s, {Edit I.} and Lesley Cheng and Aled Clayton and Emanuele Cocucci and {Dela Cruz}, {Charles S.} and Desiderio, {Dominic M.} and {Di Vizio}, Dolores and Karin Ekstr{\"o}m and Falcon-Perez, {Juan M.} and Chris Gardiner and Bernd Giebel and Greening, {David W.} and {Christina Gross}, Julia and Dwijendra Gupta and An Hendrix and Hill, {Andrew F.} and Hill, {Michelle M.} and {Nolte-'T Hoen}, Esther and Hwang, {Do Won} and Jameel Inal and Jagannadham, {Medicharla V.} and Muthuvel Jayachandran and Jee, {Young Koo} and Malene J{\o}rgensen and Kim, {Kwang Pyo} and Kim, {Yoon Keun} and Thomas Kislinger and Cecilia L{\"a}sser and Lee, {Dong Soo} and Hakmo Lee and {Van Leeuwen}, Johannes and Thomas Lener and Liu, {Ming Lin} and Jan L{\"o}tvall and Antonio Marcilla and Suresh Mathivanan and Andreas M{\"o}ller and Jess Morhayim and Francois Mullier and Irina Nazarenko and Rienk Nieuwland and Nunes, {Diana N.} and Ken Pang and Jaesung Park and Tushar Patel and Gabriella Pocsfalvi and {Del Portillo}, Hernando and Ulrich Putz and Ramirez, {Marcel I.} and Rodrigues, {Marcio L.} and Roh, {Tae Young} and Felix Royo and Susmita Sahoo and Raymond Schiffelers and Shivani Sharma and Pia Siljander and Simpson, {Richard J.} and Carolina Soekmadji and Philip Stahl and Allan Stensballe and Ewa Stepień and Hidetoshi Tahara and Arne Trummer and Hadi Valadi and Vella, {Laura J.} and Wai, {Sun Nyunt} and Kenneth Witwer and Maria Y{\'a}nez-M{\'o} and Hyewon Youn and Reinhard Zeidler and Gho, {Yong Song}",
year = "2015",
month = "3",
day = "15",
doi = "10.1093/bioinformatics/btu741",
language = "English",
volume = "31",
pages = "933--939",
journal = "Bioinformatics",
issn = "1367-4803",
publisher = "Oxford University Press",
number = "6",

}

TY - JOUR

T1 - EVpedia

T2 - A community web portal for extracellular vesicles research

AU - Kim, Dae Kyum

AU - Lee, Jaewook

AU - Kim, Sae Rom

AU - Choi, Dong Sic

AU - Yoon, Yae Jin

AU - Kim, Ji Hyun

AU - Go, Gyeongyun

AU - Nhung, Dinh

AU - Hong, Kahye

AU - Jang, Su Chul

AU - Kim, Si Hyun

AU - Park, Kyong Su

AU - Kim, Oh Youn

AU - Park, Hyun Taek

AU - Seo, Ji Hye

AU - Aikawa, Elena

AU - Baj-Krzyworzeka, Monika

AU - Van Balkom, Bas W M

AU - Belting, Mattias

AU - Blanc, Lionel

AU - Bond, Vincent

AU - Bongiovanni, Antonella

AU - Borràs, Francesc E.

AU - Buée, Luc

AU - Buzás, Edit I.

AU - Cheng, Lesley

AU - Clayton, Aled

AU - Cocucci, Emanuele

AU - Dela Cruz, Charles S.

AU - Desiderio, Dominic M.

AU - Di Vizio, Dolores

AU - Ekström, Karin

AU - Falcon-Perez, Juan M.

AU - Gardiner, Chris

AU - Giebel, Bernd

AU - Greening, David W.

AU - Christina Gross, Julia

AU - Gupta, Dwijendra

AU - Hendrix, An

AU - Hill, Andrew F.

AU - Hill, Michelle M.

AU - Nolte-'T Hoen, Esther

AU - Hwang, Do Won

AU - Inal, Jameel

AU - Jagannadham, Medicharla V.

AU - Jayachandran, Muthuvel

AU - Jee, Young Koo

AU - Jørgensen, Malene

AU - Kim, Kwang Pyo

AU - Kim, Yoon Keun

AU - Kislinger, Thomas

AU - Lässer, Cecilia

AU - Lee, Dong Soo

AU - Lee, Hakmo

AU - Van Leeuwen, Johannes

AU - Lener, Thomas

AU - Liu, Ming Lin

AU - Lötvall, Jan

AU - Marcilla, Antonio

AU - Mathivanan, Suresh

AU - Möller, Andreas

AU - Morhayim, Jess

AU - Mullier, Francois

AU - Nazarenko, Irina

AU - Nieuwland, Rienk

AU - Nunes, Diana N.

AU - Pang, Ken

AU - Park, Jaesung

AU - Patel, Tushar

AU - Pocsfalvi, Gabriella

AU - Del Portillo, Hernando

AU - Putz, Ulrich

AU - Ramirez, Marcel I.

AU - Rodrigues, Marcio L.

AU - Roh, Tae Young

AU - Royo, Felix

AU - Sahoo, Susmita

AU - Schiffelers, Raymond

AU - Sharma, Shivani

AU - Siljander, Pia

AU - Simpson, Richard J.

AU - Soekmadji, Carolina

AU - Stahl, Philip

AU - Stensballe, Allan

AU - Stepień, Ewa

AU - Tahara, Hidetoshi

AU - Trummer, Arne

AU - Valadi, Hadi

AU - Vella, Laura J.

AU - Wai, Sun Nyunt

AU - Witwer, Kenneth

AU - Yánez-Mó, Maria

AU - Youn, Hyewon

AU - Zeidler, Reinhard

AU - Gho, Yong Song

PY - 2015/3/15

Y1 - 2015/3/15

N2 - 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.

AB - 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.

UR - http://www.scopus.com/inward/record.url?scp=84925267233&partnerID=8YFLogxK

UR - http://www.scopus.com/inward/citedby.url?scp=84925267233&partnerID=8YFLogxK

U2 - 10.1093/bioinformatics/btu741

DO - 10.1093/bioinformatics/btu741

M3 - Article

C2 - 25388151

AN - SCOPUS:84925267233

VL - 31

SP - 933

EP - 939

JO - Bioinformatics

JF - Bioinformatics

SN - 1367-4803

IS - 6

ER -