Dataset Information

A translational protocol for the analysis of plasma-derived extracellular vesicle proteomics

ABSTRACT: We establish here an EV purification and proteomic analysis workflow in a real world clinical setting in which we evaluate different variables, from blood collection through protein preparation for mass spectrometry (MS). We compare blood collection tubes, sample transportation and storage conditions, EV enrichment methods, size exclusion chromatography columns, as well as lysis and protein preparation conditions. For each parameter tested, we assess hemolysis, particle concentration and size, protein quantity, protein markers (EV-related, cell-specific, co-isolates) and, for some, comprehensive proteomic analysis using mass spectrometry.

INSTRUMENT(S):

ORGANISM(S): Homo Sapiens (human)

TISSUE(S): Peripheral Blood

SUBMITTER: Katharina Clemm von Hohenberg

LAB HEAD: Dr. med. Katharina Clemm von Hohenberg

PROVIDER: PXD058373 | Pride | 2025-07-14

REPOSITORIES: Pride

ACCESS DATA

Dataset's files

Source:

			Action	DRS
	2022-10-26_canonical_UP000005640_9606.fasta	Fasta
	2024-02-09_UP000005640_9606_one_prot_seq_per_gene.fasta	Fasta
	JR0704-1_output.tsv	Tabular
	JR0704-1_parameters.setup.txt	Txt
	JR0888_output.tsv	Tabular

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Publications

A translational protocol optimizes the isolation of plasma-derived extracellular vesicle proteomics.

Ríos de Los Ríos Reséndiz Jussara J Herrmann-Sim Freya F Wilkesmann Liliana L Helm Dominic D Schneider Martin M Campione Giorgia G Plügge Klara K Greiner Giovanni G Lazaro García Leonie L Berker Julia J Richter Karsten K Zielske Lin L Hofmann Wolf-Karsten WK Clemm von Hohenberg Katharina K

Scientific reports 20250707 1

In translational research and clinical routine, liquid biopsy is a promising tool to direct individually targeted treatments. Among the components of liquid biopsy, extracellular vesicles (EVs) carry manyfold molecular cargo and are increasingly being studied for biomarker identification. In order to identify potential confounding factors and determine optimal conditions when studying blood-derived EV proteins, the impact of pre-analytical variables needs to be assessed. Here we establish an EV ...[more]

PMID: 40624148

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