PXD070222-1

PXD070222 is an original dataset announced via ProteomeXchange.

Title	Sequence context specific DNA de-methylation shapes progression of IDH mutant oligodendrogliomas and astrocytomas
Description	Background: Aggressiveness guides treatment in IDH-mutant gliomas. Objective grading of oligodendrogliomas is therefore urgently needed. Material and Methods: 211 primary and recurrent resections from 111 oligodendroglioma patients were collected, complemented with 91 samples for validation. Samples were subjected to Ki-67 staining, proteomics and DNA-methylation profiling. Data were analyzed using various multivariate differential models and algorithms. Results & conclusion: We developed CGCψ, a continuous grading coefficient independent of tumor typing, and demonstrate its prognostic value in oligodendrogliomas. Its prognostic value outperformed WHO grade at tumor recurrence. CGCψ is linked to large scale DNA de-methylation, but increased DNA methylation of polycomb transcription factors, aging, Ki-67, and losses on chr4 and chr9p. DNA de-methylation at tumor recurrence/higher grade is sequence context specific and associated with TET recognition sites. Both oligodendrogliomas and astrocytomas progress along this shared epi-genetic axis. Oligosarcomas are characterized by a high CGCψ and low tumor purity.
HostingRepository	PRIDE
AnnounceDate	2026-01-20
AnnouncementXML	Submission_2026-01-20_08:33:13.609.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Adela Brzobohata
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: NEWT:9606;
ModificationList	No PTMs are included in the dataset
Instrument	timsTOF Pro

Revision	Datetime	Status	ChangeLog Entry
0	2025-11-03 04:24:58	ID requested
⏵ 1	2026-01-20 08:33:14	announced

Dataset with its publication pending

submitter keyword: LC-MS, oligodendroglioma,IDH-mutant

Tobias Weiss
contact affiliation	Department of Neurology, University Hospital and University of Zurich
contact email	tobias.weiss@usz.ch
lab head
Adela Brzobohata
contact affiliation	University Hospital and University of Zurich
contact email	adela.brzobohata@usz.ch
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/2026/01/PXD070222

PRIDE project URI

• PRIDE
  1. PXD070222
     1. Label: PRIDE project
     2. Name: Sequence context specific DNA de-methylation shapes progression of IDH mutant oligodendrogliomas and astrocytomas