Vesiclepedia: A Compendium for Extracellular Vesicles with Continuous Community Annotation

Hina Kalra; Richard J. Simpson; Hong Ji; Elena Aikawa; Peter Altevogt; Philip Askenase; Vincent C. Bond; Francesc E. Borràs; Xandra Breakefield; Vivian Budnik; Edit Buzas; Giovanni Camussi; Aled Clayton; Emanuele Cocucci; Juan M. Falcon-Perez; Susanne Gabrielsson; Yong Song Gho; Dwijendra Gupta; H. C. Harsha; An Hendrix; Andrew F. Hill; Jameel M. Inal; Guido Jenster; Eva Maria Krämer-Albers; Sai Kiang Lim; Alicia Llorente; Jan Lötvall; Antonio Marcilla; Lucia Mincheva-Nilsson; Irina Nazarenko; Rienk Nieuwland; Esther N.M. Nolte-'t Hoen; Akhilesh Pandey; Tushar Patel; Melissa G. Piper; Stefano Pluchino; T. S.Keshava Prasad; Lawrence Rajendran; Graca Raposo; Michel Record; Gavin E. Reid; Francisco Sánchez-Madrid; Raymond M. Schiffelers; Pia Siljander; Allan Stensballe; Willem Stoorvogel; Douglas Taylor; Clotilde Thery; Hadi Valadi; Bas W.M. van Balkom; Jesús Vázquez; Michel Vidal; Marca H.M. Wauben; María Yáñez-Mó; Margot Zoeller; Suresh Mathivanan

doi:10.1371/journal.pbio.1001450

Vesiclepedia: A Compendium for Extracellular Vesicles with Continuous Community Annotation

Hina Kalra, Richard J. Simpson, Hong Ji, Elena Aikawa, Peter Altevogt, Philip Askenase, Vincent C. Bond, Francesc E. Borràs, Xandra Breakefield, Vivian Budnik, Edit Buzas, Giovanni Camussi, Aled Clayton, Emanuele Cocucci, Juan M. Falcon-Perez, Susanne Gabrielsson, Yong Song Gho, Dwijendra Gupta, H. C. Harsha, An HendrixAndrew F. Hill, Jameel M. Inal, Guido Jenster, Eva Maria Krämer-Albers, Sai Kiang Lim, Alicia Llorente, Jan Lötvall, Antonio Marcilla, Lucia Mincheva-Nilsson, Irina Nazarenko, Rienk Nieuwland, Esther N.M. Nolte-'t Hoen, Akhilesh Pandey, Tushar Patel, Melissa G. Piper, Stefano Pluchino, T. S.Keshava Prasad, Lawrence Rajendran, Graca Raposo, Michel Record, Gavin E. Reid, Francisco Sánchez-Madrid, Raymond M. Schiffelers, Pia Siljander, Allan Stensballe, Willem Stoorvogel, Douglas Taylor, Clotilde Thery, Hadi Valadi, Bas W.M. van Balkom, Jesús Vázquez, Michel Vidal, Marca H.M. Wauben, María Yáñez-Mó, Margot Zoeller, Suresh Mathivanan

Department of Cellular Biology, Physiology and Immunology

Research output: Contribution to journal › Article › Research › peer-review

932 Citations (Scopus)

Abstract

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. © 2012 Kalra et al.

Original language	English
Article number	e1001450
Journal	PLoS Biology
Volume	10
Issue number	12
DOIs	https://doi.org/10.1371/journal.pbio.1001450
Publication status	Published - 1 Dec 2012

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Kalra, H., Simpson, R. J., Ji, H., Aikawa, E., Altevogt, P., Askenase, P., Bond, V. C., Borràs, F. E., Breakefield, X., Budnik, V., Buzas, E., Camussi, G., Clayton, A., Cocucci, E., Falcon-Perez, J. M., Gabrielsson, S., Gho, Y. S., Gupta, D., Harsha, H. C., ... Mathivanan, S. (2012). Vesiclepedia: A Compendium for Extracellular Vesicles with Continuous Community Annotation. PLoS Biology, 10(12), Article e1001450. https://doi.org/10.1371/journal.pbio.1001450

@article{f5aa415431cf4582ad10c550e1ff7720,

title = "Vesiclepedia: A Compendium for Extracellular Vesicles with Continuous Community Annotation",

abstract = "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. {\textcopyright} 2012 Kalra et al.",

author = "Hina Kalra and Simpson, {Richard J.} and Hong Ji and Elena Aikawa and Peter Altevogt and Philip Askenase and Bond, {Vincent C.} and Borr{\`a}s, {Francesc E.} and Xandra Breakefield and Vivian Budnik and Edit Buzas and Giovanni Camussi and Aled Clayton and Emanuele Cocucci and Falcon-Perez, {Juan M.} and Susanne Gabrielsson and Gho, {Yong Song} and Dwijendra Gupta and Harsha, {H. C.} and An Hendrix and Hill, {Andrew F.} and Inal, {Jameel M.} and Guido Jenster and Kr{\"a}mer-Albers, {Eva Maria} and Lim, {Sai Kiang} and Alicia Llorente and Jan L{\"o}tvall and Antonio Marcilla and Lucia Mincheva-Nilsson and Irina Nazarenko and Rienk Nieuwland and {Nolte-'t Hoen}, {Esther N.M.} and Akhilesh Pandey and Tushar Patel and Piper, {Melissa G.} and Stefano Pluchino and Prasad, {T. S.Keshava} and Lawrence Rajendran and Graca Raposo and Michel Record and Reid, {Gavin E.} and Francisco S{\'a}nchez-Madrid and Schiffelers, {Raymond M.} and Pia Siljander and Allan Stensballe and Willem Stoorvogel and Douglas Taylor and Clotilde Thery and Hadi Valadi and {van Balkom}, {Bas W.M.} and Jes{\'u}s V{\'a}zquez and Michel Vidal and Wauben, {Marca H.M.} and Mar{\'i}a Y{\'a}{\~n}ez-M{\'o} and Margot Zoeller and Suresh Mathivanan",

year = "2012",

month = dec,

day = "1",

doi = "10.1371/journal.pbio.1001450",

language = "English",

volume = "10",

number = "12",

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Kalra, H, Simpson, RJ, Ji, H, Aikawa, E, Altevogt, P, Askenase, P, Bond, VC, Borràs, FE, Breakefield, X, Budnik, V, Buzas, E, Camussi, G, Clayton, A, Cocucci, E, Falcon-Perez, JM, Gabrielsson, S, Gho, YS, Gupta, D, Harsha, HC, Hendrix, A, Hill, AF, Inal, JM, Jenster, G, Krämer-Albers, EM, Lim, SK, Llorente, A, Lötvall, J, Marcilla, A, Mincheva-Nilsson, L, Nazarenko, I, Nieuwland, R, Nolte-'t Hoen, ENM, Pandey, A, Patel, T, Piper, MG, Pluchino, S, Prasad, TSK, Rajendran, L, Raposo, G, Record, M, Reid, GE, Sánchez-Madrid, F, Schiffelers, RM, Siljander, P, Stensballe, A, Stoorvogel, W, Taylor, D, Thery, C, Valadi, H, van Balkom, BWM, Vázquez, J, Vidal, M, Wauben, MHM, Yáñez-Mó, M, Zoeller, M & Mathivanan, S 2012, 'Vesiclepedia: A Compendium for Extracellular Vesicles with Continuous Community Annotation', PLoS Biology, vol. 10, no. 12, e1001450. https://doi.org/10.1371/journal.pbio.1001450

TY - JOUR

T1 - Vesiclepedia: A Compendium for Extracellular Vesicles with Continuous Community Annotation

AU - Kalra, Hina

AU - Simpson, Richard J.

AU - Ji, Hong

AU - Aikawa, Elena

AU - Altevogt, Peter

AU - Askenase, Philip

AU - Bond, Vincent C.

AU - Borràs, Francesc E.

AU - Breakefield, Xandra

AU - Budnik, Vivian

AU - Buzas, Edit

AU - Camussi, Giovanni

AU - Clayton, Aled

AU - Cocucci, Emanuele

AU - Falcon-Perez, Juan M.

AU - Gabrielsson, Susanne

AU - Gho, Yong Song

AU - Gupta, Dwijendra

AU - Harsha, H. C.

AU - Hendrix, An

AU - Hill, Andrew F.

AU - Inal, Jameel M.

AU - Jenster, Guido

AU - Krämer-Albers, Eva Maria

AU - Lim, Sai Kiang

AU - Llorente, Alicia

AU - Lötvall, Jan

AU - Marcilla, Antonio

AU - Mincheva-Nilsson, Lucia

AU - Nazarenko, Irina

AU - Nieuwland, Rienk

AU - Nolte-'t Hoen, Esther N.M.

AU - Pandey, Akhilesh

AU - Patel, Tushar

AU - Piper, Melissa G.

AU - Pluchino, Stefano

AU - Prasad, T. S.Keshava

AU - Rajendran, Lawrence

AU - Raposo, Graca

AU - Record, Michel

AU - Reid, Gavin E.

AU - Sánchez-Madrid, Francisco

AU - Schiffelers, Raymond M.

AU - Siljander, Pia

AU - Stensballe, Allan

AU - Stoorvogel, Willem

AU - Taylor, Douglas

AU - Thery, Clotilde

AU - Valadi, Hadi

AU - van Balkom, Bas W.M.

AU - Vázquez, Jesús

AU - Vidal, Michel

AU - Wauben, Marca H.M.

AU - Yáñez-Mó, María

AU - Zoeller, Margot

AU - Mathivanan, Suresh

PY - 2012/12/1

Y1 - 2012/12/1

N2 - 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. © 2012 Kalra et al.

AB - 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. © 2012 Kalra et al.

U2 - 10.1371/journal.pbio.1001450

DO - 10.1371/journal.pbio.1001450

M3 - Article

SN - 1544-9173

VL - 10

JO - PLoS Biology

JF - PLoS Biology

IS - 12

M1 - e1001450

ER -

Vesiclepedia: A Compendium for Extracellular Vesicles with Continuous Community Annotation

Abstract

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