PXD067935-1

PXD067935 is an original dataset announced via ProteomeXchange.

Title	Profiling histone post-translational modifications to identify signatures of epigenetic drug response in T-cell acute lymphoblastic leukemia
Description	Epigenetic modifications are dynamic and reversible, making them attractive targets for therapeutic intervention in cancer. Although several epigenetic drugs (epidrugs) have been clinically approved, their application in T-cell acute lymphoblastic leukemia (T-ALL) remains limited, and predictive biomarkers of response are lacking. Here, we present a mass spectrometry (MS)-based pharmacoepigenetic approach to profile histone post-translational modifications (hPTMs) to identify signatures associated with epidrug sensitivity in T-ALL. Baseline hPTM landscapes were previously established by our group for 21 T-ALL cell lines using liquid chromatography–tandem mass spectrometry (LC–MS/MS). Here, we treated these cell lines with a panel of nine epidrugs including anthracyclines, histone deacetylase inhibitors, and DNA methyltransferase inhibitors. Correlation of cell viability data with hPTM levels revealed distinct hPTM signatures linked to sensitivity for each drug class. These signatures were subsequently evaluated in T-ALL patient-derived xenograft (PDX) models. However, we our analysis revealed substantial discepancies in hPTM sensitivity signatures compared to those observed in vitro. Co-variation network analysis highlighted divergence in hPTM-hPTM correlation between the two models, underscoring limitations of cell lines for modeling dynamic epigenetic regulation in vivo. Our findings establish a framework for MS-based hPTM profiling in T-ALL and emphasize the importance of model selection in developing predictive epigenetic biomarkers.
HostingRepository	PRIDE
AnnounceDate	2026-06-08
AnnouncementXML	Submission_2026-06-07_16:29:15.896.xml
DigitalObjectIdentifier	https://doi.org/10.6019/PXD067935
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Supported dataset by repository
PrimarySubmitter	Laura Corveleyn
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: NEWT:9606;
ModificationList	monomethylated residue; phosphorylated residue; acetylated residue; formylated residue
Instrument	ZenoTOF 7600

Revision	Datetime	Status	ChangeLog Entry
0	2025-09-01 02:01:29	ID requested
⏵ 1	2026-06-07 16:29:16	announced

10.1038/s41598-026-44665-4;

10.6019/PXD067935;

Corveleyn L, Provez L, Satilmis O, Refhagen N, Landfors M, Sleeckx W, Lintermans B, De Maesschalck A, Kotecha RS, De Moerloose B, Lammens T, Deforce D, Degerman S, Goossens S, Van Vlierberghe P, Dhaenens M, Profiling histone post-translational modifications to identify signatures of epigenetic drug response in T-cell acute lymphoblastic leukemia. Sci Rep, 16(1):(2026) [pubmed]

submitter keyword: histone post-translational modifications, LC-MS, pharmacoepigenetics,Epigenetics, T-ALL

Maarten Dhaenens
contact affiliation	ProGenTomics Laboratory of Pharmaceutical Biotechnology, Ghent University, Belgium
contact email	maarten.dhaenens@ugent.be
lab head
Laura Corveleyn
contact affiliation	ProGenTomics, Ghent University
contact email	lcorvele@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/2026/06/PXD067935

PRIDE project URI

• PRIDE
  1. PXD067935
     1. Label: PRIDE project
     2. Name: Profiling histone post-translational modifications to identify signatures of epigenetic drug response in T-cell acute lymphoblastic leukemia