Literature DB >> 25388151

EVpedia: a community web portal for extracellular vesicles research.

Dae-Kyum Kim1, Jaewook Lee1, Sae Rom Kim1, Dong-Sic Choi1, Yae Jin Yoon1, Ji Hyun Kim1, Gyeongyun Go1, Dinh Nhung1, Kahye Hong1, Su Chul Jang1, Si-Hyun Kim1, Kyong-Su Park1, Oh Youn Kim1, Hyun Taek Park1, Ji Hye Seo1, Elena Aikawa1, Monika Baj-Krzyworzeka1, Bas W M van Balkom1, Mattias Belting1, Lionel Blanc1, Vincent Bond1, Antonella Bongiovanni1, Francesc E Borràs1, Luc Buée1, Edit I Buzás1, Lesley Cheng1, Aled Clayton1, Emanuele Cocucci1, Charles S Dela Cruz1, Dominic M Desiderio1, Dolores Di Vizio1, Karin Ekström1, Juan M Falcon-Perez1, Chris Gardiner1, Bernd Giebel1, David W Greening1, Julia Christina Gross1, Dwijendra Gupta1, An Hendrix1, Andrew F Hill1, Michelle M Hill1, Esther Nolte-'t Hoen1, Do Won Hwang1, Jameel Inal1, Medicharla V Jagannadham1, Muthuvel Jayachandran1, Young-Koo Jee1, Malene Jørgensen1, Kwang Pyo Kim1, Yoon-Keun Kim1, Thomas Kislinger1, Cecilia Lässer1, Dong Soo Lee1, Hakmo Lee1, Johannes van Leeuwen1, Thomas Lener1, Ming-Lin Liu1, Jan Lötvall1, Antonio Marcilla1, Suresh Mathivanan1, Andreas Möller1, Jess Morhayim1, François Mullier1, Irina Nazarenko1, Rienk Nieuwland1, Diana N Nunes1, Ken Pang1, Jaesung Park1, Tushar Patel1, Gabriella Pocsfalvi1, Hernando Del Portillo1, Ulrich Putz1, Marcel I Ramirez1, Marcio L Rodrigues1, Tae-Young Roh1, Felix Royo1, Susmita Sahoo1, Raymond Schiffelers1, Shivani Sharma1, Pia Siljander1, Richard J Simpson1, Carolina Soekmadji1, Philip Stahl1, Allan Stensballe1, Ewa Stępień1, Hidetoshi Tahara1, Arne Trummer1, Hadi Valadi1, Laura J Vella1, Sun Nyunt Wai1, Kenneth Witwer1, María Yáñez-Mó1, Hyewon Youn1, Reinhard Zeidler1, Yong Song Gho1.   

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.
© The Author 2014. Published by Oxford University Press. All rights reserved. For Permissions, please e-mail: journals.permissions@oup.com.

Entities:  

Mesh：

Year:  2014        PMID： 25388151      PMCID： PMC4375401          DOI： 10.1093/bioinformatics/btu741

Source DB:  PubMed          Journal:  Bioinformatics        ISSN： 1367-4803            Impact factor:   6.937


  49 in total

1.  Expulsion of small molecules in vesicles shed by cancer cells: association with gene expression and chemosensitivity profiles.

Authors:  Kerby Shedden; Xue Tao Xie; Parthapratim Chandaroy; Young Tae Chang; Gustavo R Rosania
Journal:  Cancer Res       Date:  2003-08-01       Impact factor: 12.701

2.  Vesicle-mediated export and assembly of pore-forming oligomers of the enterobacterial ClyA cytotoxin.

Authors:  Sun Nyunt Wai; Barbro Lindmark; Tomas Söderblom; Akemi Takade; Marie Westermark; Jan Oscarsson; Jana Jass; Agneta Richter-Dahlfors; Yoshimitsu Mizunoe; Bernt Eric Uhlin
Journal:  Cell       Date:  2003-10-03       Impact factor: 41.582

3.  A multiplex quantitative proteomics strategy for protein biomarker studies in urinary exosomes.

Authors:  Delfin A A Raj; Immacolata Fiume; Giovambattista Capasso; Gabriella Pocsfalvi
Journal:  Kidney Int       Date:  2012-03-14       Impact factor: 10.612

Review 4.  Exosomes: proteomic insights and diagnostic potential.

Authors:  Richard J Simpson; Justin We Lim; Robert L Moritz; Suresh Mathivanan
Journal:  Expert Rev Proteomics       Date:  2009-06       Impact factor: 3.940

5.  Exosome secreted by MSC reduces myocardial ischemia/reperfusion injury.

Authors:  Ruenn Chai Lai; Fatih Arslan; May May Lee; Newman Siu Kwan Sze; Andre Choo; Tian Sheng Chen; Manuel Salto-Tellez; Leo Timmers; Chuen Neng Lee; Reida Menshawe El Oakley; Gerard Pasterkamp; Dominique P V de Kleijn; Sai Kiang Lim
Journal:  Stem Cell Res       Date:  2010-01-04       Impact factor: 2.020

Review 6.  Tumor-derived microvesicles: shedding light on novel microenvironment modulators and prospective cancer biomarkers.

Authors:  Crislyn D'Souza-Schorey; James W Clancy
Journal:  Genes Dev       Date:  2012-06-15       Impact factor: 11.361

Review 7.  Advances in membranous vesicle and exosome proteomics improving biological understanding and biomarker discovery.

Authors:  Francesca Raimondo; Lavinia Morosi; Clizia Chinello; Fulvio Magni; Marina Pitto
Journal:  Proteomics       Date:  2011-01-17       Impact factor: 3.984

8.  Plasmatic level of leukocyte-derived microparticles is associated with unstable plaque in asymptomatic patients with high-grade carotid stenosis.

Authors:  Gabrielle Sarlon-Bartoli; Youssef Bennis; Romaric Lacroix; Marie Dominique Piercecchi-Marti; Michel A Bartoli; Laurent Arnaud; Julien Mancini; Audrey Boudes; Emmanuelle Sarlon; Benjamin Thevenin; Aurelie S Leroyer; Christian Squarcioni; Pierre Edouard Magnan; Françoise Dignat-George; Florence Sabatier
Journal:  J Am Coll Cardiol       Date:  2013-05-22       Impact factor: 24.094

9.  EVpedia: an integrated database of high-throughput data for systemic analyses of extracellular vesicles.

Authors:  Dae-Kyum Kim; Byeongsoo Kang; Oh Youn Kim; Dong-Sic Choi; Jaewook Lee; Sae Rom Kim; Gyeongyun Go; Yae Jin Yoon; Ji Hyun Kim; Su Chul Jang; Kyong-Su Park; Eun-Jeong Choi; Kwang Pyo Kim; Dominic M Desiderio; Yoon-Keun Kim; Jan Lötvall; Daehee Hwang; Yong Song Gho
Journal:  J Extracell Vesicles       Date:  2013-03-19

10.  Standardization of sample collection, isolation and analysis methods in extracellular vesicle research.

Authors:  Kenneth W Witwer; Edit I Buzás; Lynne T Bemis; Adriana Bora; Cecilia Lässer; Jan Lötvall; Esther N Nolte-'t Hoen; Melissa G Piper; Sarada Sivaraman; Johan Skog; Clotilde Théry; Marca H Wauben; Fred Hochberg
Journal:  J Extracell Vesicles       Date:  2013-05-27
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  136 in total

Review 1.  Exosomes or microvesicles? Two kinds of extracellular vesicles with different routes to modify protozoan-host cell interaction.

Authors:  Ingrid Evans-Osses; Luis H Reichembach; Marcel I Ramirez
Journal:  Parasitol Res       Date:  2015-08-15       Impact factor: 2.289

Review 2.  Circulating Exosomes of Neuronal Origin as Potential Early Biomarkers for Development of Stroke.

Authors:  Ghada Yousif; Shahnaz Qadri; Mahmoud Haik; Yousef Haik; Aijaz Sultan Parray; Ashfaq Shuaib
Journal:  Mol Diagn Ther       Date:  2021-01-16       Impact factor: 4.074

Review 3.  Isolation and characterization of urinary extracellular vesicles: implications for biomarker discovery.

Authors:  Michael L Merchant; Ilse M Rood; Jeroen K J Deegens; Jon B Klein
Journal:  Nat Rev Nephrol       Date:  2017-10-30       Impact factor: 28.314

4.  Translocation of Endogenous Danger Signal HMGB1 From Nucleus to Membrane Microvesicles in Macrophages.

Authors:  Yan Chen; Guangping Li; Yanxia Liu; Victoria P Werth; Kevin Jon Williams; Ming-Lin Liu
Journal:  J Cell Physiol       Date:  2016-03-09       Impact factor: 6.384

Review 5.  Extracellular vesicles in renal disease.

Authors:  Diana Karpman; Anne-Lie Ståhl; Ida Arvidsson
Journal:  Nat Rev Nephrol       Date:  2017-07-24       Impact factor: 28.314

Review 6.  Exosome release and cargo in Down syndrome.

Authors:  Eric D Hamlett; Angela LaRosa; Elliott J Mufson; Juan Fortea; Aurélie Ledreux; Ann-Charlotte Granholm
Journal:  Dev Neurobiol       Date:  2019-08-06       Impact factor: 3.964

Review 7.  Extracellular vesicles in liver diseases.

Authors:  Sayantan Maji; Akiko Matsuda; Irene K Yan; Mansi Parasramka; Tushar Patel
Journal:  Am J Physiol Gastrointest Liver Physiol       Date:  2016-12-30       Impact factor: 4.052

Review 8.  Extracellular membrane vesicles in the three domains of life and beyond.

Authors:  Sukhvinder Gill; Ryan Catchpole; Patrick Forterre
Journal:  FEMS Microbiol Rev       Date:  2019-05-01       Impact factor: 16.408

9.  Exosome-Mediated miR-29 Transfer Reduces Muscle Atrophy and Kidney Fibrosis in Mice.

Authors:  Haidong Wang; Bin Wang; Aiqing Zhang; Faten Hassounah; Yiqi Seow; Matthew Wood; Fuying Ma; Janet D Klein; S Russ Price; Xiaonan H Wang
Journal:  Mol Ther       Date:  2019-01-18       Impact factor: 11.454

10.  Exosome-Mediated Crosstalk between Keratinocytes and Macrophages in Cutaneous Wound Healing.

Authors:  Xiaoju Zhou; Brooke A Brown; Amanda P Siegel; Mohamed S El Masry; Xuyao Zeng; Woran Song; Amitava Das; Puneet Khandelwal; Andrew Clark; Kanhaiya Singh; Poornachander R Guda; Mahadeo Gorain; Lava Timsina; Yi Xuan; Stephen C Jacobson; Milos V Novotny; Sashwati Roy; Mangilal Agarwal; Robert J Lee; Chandan K Sen; David E Clemmer; Subhadip Ghatak
Journal:  ACS Nano       Date:  2020-09-25       Impact factor: 15.881
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