PXD060798

PXD060798 is an original dataset announced via ProteomeXchange.

Title	Novel PPT+SEC Workflow for High-Sensitivity Extracellular Vesicle Proteomics from Cell Media
Description	Size exclusion chromatography (SEC) is a well-established method for the isolation of extracellular vesicles (EVs), but the large elution volumes necessitate a concentration step prior to proteomics analysis. This concentration step can lead to significant EV loss. Here we report an EV proteomics approach that enables the isolation of EVs into just 80 µL, which is directly compatible with proteomics analysis without the need for prior concentration. EVs were characterized by transmission electron microscopy, Western blot, and nanoparticle tracking analysis, all of which confirmed the presence of small EVs. Proteomics analysis of the EVs was performed and benchmarked against those isolated using an automated UHPLC-SEC platform. The novel workflow identified more proteins and more EV markers, including 96 of the 100 top exosomal proteins from the ExoCarta database, compared to 91 identified using EV samples isolated by UHPLC-SEC. When applied to EVs isolated from pancreatic cancer cell lines the workflow demonstrated higher sensitivity for previously reported EV markers of pancreatic cancer.
HostingRepository	PRIDE
AnnounceDate	2025-05-03
AnnouncementXML	Submission_2025-05-03_00:36:32.070.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Asia Botto
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	acetylated residue; iodoacetamide derivatized residue
Instrument	Orbitrap Fusion

Revision	Datetime	Status	ChangeLog Entry
0	2025-02-13 19:40:48	ID requested
⏵ 1	2025-05-03 00:36:32	announced

10.1021/ACS.JPROTEOME.5C00082;

submitter keyword: micro proteomics,Extracellular vesicles, pancreatic cancer

Liam Andrew McDonnell
contact affiliation	Fondazione Pisana per la Scienza ONLUS
contact email	liam@fpscience.it
lab head
Asia Botto
contact affiliation	Fondazione Pisana per la Scienza ONLUS
contact email	asia.botto@gmail.com
dataset submitter

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/2025/05/PXD060798

PRIDE project URI

• PRIDE
  1. PXD060798
     1. Label: PRIDE project
     2. Name: Novel PPT+SEC Workflow for High-Sensitivity Extracellular Vesicle Proteomics from Cell Media