PXD069801-1

PXD069801 is an original dataset announced via ProteomeXchange.

Title	U87 Glioblastoma Cell-Derived Extracellular Vesicles Reflect 2D vs. 3D Culture Adaptations and Temozolomide Response
Description	Glioblastoma (GBM) is an aggressive brain tumor marked by extensive heterogeneity, resistance to therapy, and dismal prognosis. Extracellular vesicles (EVs) have emerged as key players in GBM biology, mediating intercellular communication and therapy adaptation. However, the exact functions, significance, and molecular impact of EVs in GBM are still unclear. In this study, we performed a comparative proteomic analysis of U87 GBM cells grown in two-dimensional (2D) monolayers and three-dimensional (3D) spheroids following temozolomide (TMZ) treatment, alongside the characterization of EVs derived from both types of cell cultures. 3D spheroids secreted more EVs of smaller size and exhibited a more TMZ-resistant, stem-like proteome under the TMZ-induced genotoxic stress. In contrast, 2D cells showed greater proteomic remodeling, with EVs enriched in protein families involved in DNA repair, oxidative stress adaptation, and methylation processes. Notably, several methyltransferases were downregulated intracellularly but selectively retained in EVs, suggesting active sorting to influence the tumor microenvironment or modulate epigenetic states in recipient cells. EVs also carried adhesion molecules and signaling proteins linked to migration, invasion, and Wnt pathway activation, as well as metabolic enzymes connecting serine metabolism and redox control to TMZ resistance. Mapping of the EV and cellular proteomes onto The Cancer Genome Atlas (TCGA) dataset identified prognostic protein families associated with either poor or favorable patient outcomes. Together, our data demonstrate how EV cargo composition reflects TMZ adaptation and tumor phenotype, offering insights into mechanisms of resistance to TMZ and potential biomarkers for patient stratification and therapeutic targeting in GBM.
HostingRepository	PRIDE
AnnounceDate	2026-08-16
AnnouncementXML	Submission_2026-08-15_20:07:10.186.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Alan Zimmerman
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: NEWT:9606;
ModificationList	iodoacetamide derivatized residue
Instrument	Orbitrap Exploris 480

Revision	Datetime	Status	ChangeLog Entry
0	2025-10-22 18:20:11	ID requested
⏵ 1	2026-08-15 20:07:10	announced

10.1016/J.MCPRO.2026.101610;

submitter keyword: cancer, Mass Spectrometry, Glioblastoma,Extracellular vesicles, U87

Alexander R. Ivanov
contact affiliation	Department of Chemistry and Chemical Biology, Barnett Institute of Chemical & Biological Analysis, Northeastern University, Boston, MA, United States
contact email	a.ivanov@northeastern.edu
lab head
Alan Zimmerman
contact affiliation	Northeastern University
contact email	zimmerman.alan@northeastern.edu
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/2026/08/PXD069801

PRIDE project URI

• PRIDE
  1. PXD069801
     1. Label: PRIDE project
     2. Name: U87 Glioblastoma Cell-Derived Extracellular Vesicles Reflect 2D vs. 3D Culture Adaptations and Temozolomide Response