PXD070149

PXD070149 is an original dataset announced via ProteomeXchange.

Title	Integration of Multiple Spatial Omics Modalities Reveals Unique Insights into Molecular Heterogeneity of Prostate Cancer
Description	This project introduces a spatial multi-omics (SMOx) pipeline integrating MALDI-2 mass spectrometry imaging (MSI) with Visium spatial transcriptomics (ST) and single-nucleus RNA sequencing (snRNA-seq) to investigate molecular heterogeneity in human prostate cancer (PCa). MALDI-2 MSI was used to map lipid distributions with enhanced sensitivity compared to conventional MALDI, enabling detailed visualization of metabolic alterations across tissue regions. Through non-rigid co-registration via H&E images and Gaussian-weighted granularity matching, MSI data were spatially aligned with transcriptomic and histological layers. This integration revealed lipid–gene expression relationships associated with distinct cell populations and pathological states within heterogeneous prostate tissues. The resulting dataset provides a high-resolution molecular atlas of PCa, demonstrating the power of MSI-driven spatial multi-omics to uncover lipid-based signatures that refine tissue annotation and support molecular pathology studies.
HostingRepository	PRIDE
AnnounceDate	2025-10-31
AnnouncementXML	Submission_2025-10-31_07:47:57.389.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Lorenzo Venturelli
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: NEWT:9606;
ModificationList	No PTMs are included in the dataset
Instrument	LTQ Orbitrap Elite

Revision	Datetime	Status	ChangeLog Entry
0	2025-10-31 05:29:04	ID requested
⏵ 1	2025-10-31 07:47:57	announced

10.1101/2023.08.28.555056;

submitter keyword: Human Tissue,Prostate Cancer, MALDI, MSI, Multi-Omics

Johan Swinnen
contact affiliation	Laboratory of Lipid Metabolism and Cancer, Department of Oncology, KU Leuven
contact email	j.swinnen@kuleuven.be
lab head
Lorenzo Venturelli
contact affiliation	KU Leuven
contact email	lorenzo.venturelli@kuleuven.be
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/2025/10/PXD070149

PRIDE project URI

• PRIDE
  1. PXD070149
     1. Label: PRIDE project
     2. Name: Integration of Multiple Spatial Omics Modalities Reveals Unique Insights into Molecular Heterogeneity of Prostate Cancer