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

By Dae-Kyum Kim, Byeongsoo Kang, O. Y. Kim, Dong-Sic Choi, Jaewook Lee, S. Kim, Gyeongyun Go, Y. Yoon, J. Kim, S. Jang and 8 more. Journal of Extracellular Vesicles, 2013

488 citations recorded by the source corpus.

Secretion of extracellular vesicles is a general cellular activity that spans the range from simple unicellular organisms (e.g. archaea; Gram-positive and Gram-negative bacteria) to complex multicellular ones, suggesting that this extracellular vesicle-mediated communication is evolutionarily conserved. Extracellular vesicles are spherical bilayered proteolipids with a mean diameter of 20–1,000 nm, which are known to contain various bioactive molecules including proteins, lipids, and nucleic acids. Here, we present EVpedia, which is an integrated database of high-throughput datasets from prokaryotic and eukaryotic extracellular vesicles. EVpedia provides high-throughput datasets of vesicular components (proteins, mRNAs, miRNAs, and lipids) present on prokaryotic, non-mammalian eukaryotic, and mammalian extracellular vesicles. In addition, EVpedia also provides an array of tools, such as the search and browse of vesicular components, Gene Ontology enrichment analysis, network analysis of vesicular proteins and mRNAs, and a comparison of vesicular datasets by ortholog identification. Moreover, publications on extracellular vesicle studies are listed in the database. This free web-based database of EVpedia (http://evpedia.info) might serve as a fundamental repository to stimulate the advancement of extracellular vesicle studies and to elucidate the novel functions of these complex extracellular organelles.

Subfields: Microbiology, Molecular Biology

View Paper: https://www.semanticscholar.org/paper/94a47bbd4b103c55457744f8542b566fbf6117fb

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Citations in the corpus

Tetraspanins in Extracellular Vesicle Formation and Function (2014, result): “According to most recent proteomic results gathered in the ExoCarta and EVPedia databases (54, 55), exosomes have a defined protein signature, comprising conserved as well as cell type specific sets of exosomal proteins.”
Bioinspired exosome-mimetic nanovesicles for targeted delivery of chemotherapeutics to malignant tumors. (2013, background): “Exosomes contain various proteins andRNAs that havemany regulatory effects on recipient cells.(17) 22 Exosomes can deliver their cargo to other cells and can thereby change the phenotype of the recipient cells.”
Current knowledge on exosome biogenesis and release (2017, background): “In fact, proteins associated with MVBs such as several endosomal sorting complex required for transport (ESCRT) proteins or CD63 have been found in exosomes, as can been seen in databases that compile information about the molecular composition of exosomes [26, 27].”
Biogenesis, secretion, and intercellular interactions of exosomes and other extracellular vesicles. (2014, background): “Another database including studies of nonmammalian EVs of all sizes has also been established recently (http://evpedia.info) (Kim et al. 2013).”
Proteomic comparison defines novel markers to characterize heterogeneous populations of extracellular vesicle subtypes (2016, background): “, 100K pellets) secreted by mouse DCs (20) and other cells (21, 22), and listed by us as components of “canonical exosomes” (23), but our results now show that only a restricted subset of these proteins represent sEV-specific markers, among which a subfraction is associated to tetraspaninenriched EV”
Standardization of sample collection, isolation and analysis methods in extracellular vesicle research (2013, unknown): “org)] and EVpedia [(105); http://evpedia.”
EVpedia: a community web portal for extracellular vesicles research (2015, background): “Nevertheless, there is progress to- ward a single nomenclature, since the different names in use make it difficult to follow the progress in the field.”
Biological properties of extracellular vesicles and their physiological functions (2015, background): “Overall, CD9 and CD81 belong to the top 200 most frequently identified EV proteins (35).”