<<< Full experiment listing

PXD015375-1

PXD015375 is an original dataset announced via ProteomeXchange.

Dataset Summary
TitleExtracellular vesicles from human plasma and serum are carriers of extravesicular cargo - implications for biomarker discovery
DescriptionExtracellular vesicles (EVs) may serve as biomarkers for multiple purposes, samples of plasma and serum offer in the form of liquid biopsy a relatively non-invasive means to obtain EV-mediated molecular information. High throughput sampling and analytics for the search of EV-borne biomarkers is facilitated by the availability of biobanks, but the samples in biobanks have not been collected with EVs in mind. In addition to anticoagulation, pre-analytical steps of EV-research as e.g. agitation and prolonged incubation cause ex vivo platelet activation and vesiculation. This study analyses the effects of common anticoagulation (citrate, EDTA and ACD) and clotting on EV-samples from plasma/serum pools that had been equally treated during the blood collection and utilizing the currently approved preanalytical steps. Blood samples were obtained from healthy, fasting volunteers. Volunteers had not used any medication for the previous 7 days. Pools of samples were analyzed with quantitative label-free proteomics using ultra-definition MSE. Statistical analyzes were performed to identify proteins distinguishing different sample types. With two or more unique proteins per identification, 163 proteins were quantified. A clear separation between sample types was seen in principal component analysis. 42 proteins showed statistically significant difference between sample types. The set of proteins was studied further with network, pathway and protein-protein interaction analyses, and found to participate in e.g. cell growth and maintenance.
HostingRepositoryPRIDE
AnnounceDate2020-07-21
AnnouncementXMLSubmission_2020-07-21_03:13:49.xml
DigitalObjectIdentifierhttps://dx.doi.org/10.6019/PXD015375
ReviewLevelPeer-reviewed dataset
DatasetOriginOriginal dataset
RepositorySupportSupported dataset by repository
PrimarySubmitterSakari Joenväärä
SpeciesList scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationListAmmonia-loss; Dehydrated; Oxidation; Carbamidomethyl
InstrumentSynapt MS
Dataset History
RevisionDatetimeStatusChangeLog Entry
02019-09-09 06:13:25ID requested
12020-07-21 03:13:50announced
Publication List
Dataset with its publication pending
Keyword List
submitter keyword: Extracellular vesicles, serum. plasma, isolation, proteomics
Contact List
Mari Palviainen, PhD
contact affiliationAcademy of Finland Postdoctoral Researcher EV Core and Research Faculty of Pharmacy, Division of Pharmaceutical Biosciences Viikinkaari 9 00014 University of Helsinki, Finland
contact emailmari.palviainen@helsinki.fi
lab head
Sakari Joenväärä
contact affiliationHelsinki University
contact emailsakari.joenvaara@helsinki.fi
dataset submitter
Full Dataset Link List
Dataset FTP location
NOTE: Most web browsers have now discontinued native support for FTP access within the browser window. But you can usually install another FTP app (we recommend FileZilla) and configure your browser to launch the external application when you click on this FTP link. Or otherwise, launch an app that supports FTP (like FileZilla) and use this address: ftp://ftp.pride.ebi.ac.uk/pride/data/archive/2020/07/PXD015375
PRIDE project URI
Repository Record List
[ + ]