PXD060304

PXD060304 is an original dataset announced via ProteomeXchange.

Title	Automated enrichment and co-extraction pipeline for efficient analysis of urinary extracellular vesicle protein and RNA
Description	Extracellular vesicles (EVs) cargoes have great potential as promising biomarkers for disease diagnosis. However, traditional methods for EV enrichment and cargo extraction are inefficient, limiting the accessibility of valuable biological information. Here, we present a bead-based pipeline, designed to efficiently enrich EVs from urine while simultaneously extracting both EV protein and RNA. Compared to traditional methods involving ultracentrifugation (UC) for EV isolation, acetone precipita-tion for protein extraction, and TRIzol for RNA extraction, the new pipeline achieved over a 5-fold improvement in EV protein and RNA yield. Additionally, it reduced the whole duration from approximately 2 days to just 1 h. When applied to the non-invasive diagnosis of prostate cancer (PCa), the pipeline demonstrated excellent diagnostic performance, with a panel of EV protein and RNA markers achieving an AUC of 0.82. This efficient and streamlined pipeline provides a robust tool for com-prehensive EV cargo analysis and holds great potential for advancing non-invasive diagnostics in clinical settings.
HostingRepository	PRIDE
AnnounceDate	2025-04-12
AnnouncementXML	Submission_2025-04-11_16:02:51.659.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Yufeng Liu
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	acetylated residue; monohydroxylated residue; iodoacetic acid derivatized residue
Instrument	Q Exactive HF

Revision	Datetime	Status	ChangeLog Entry
0	2025-01-28 22:23:42	ID requested
⏵ 1	2025-04-11 16:02:52	announced

Dataset with its publication pending

submitter keyword: Protein, Co-extraction,Extracellular Vesicles, RNA, Automation, Urine

Ying Zhang
contact affiliation	Department of Chemistry and Institutes of Biomedical Sciences, Fudan University
contact email	ying@fudan.edu.cn
lab head
Yufeng Liu
contact affiliation	Southeast University
contact email	liuyufeng@seu.edu.cn
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/2025/04/PXD060304

PRIDE project URI

• PRIDE
  1. PXD060304
     1. Label: PRIDE project
     2. Name: Automated enrichment and co-extraction pipeline for efficient analysis of urinary extracellular vesicle protein and RNA