PXD072559

PXD072559 is an original dataset announced via ProteomeXchange.

Title	AI-powered Deep Visual Proteomics unmasks critical molecular transitions in pancreatic cancer precursors
Description	Pancreatic ductal adenocarcinoma (PDAC) evolves through precursors, yet the protein programs that govern early progression remain poorly defined. We applied Deep Visual Proteomics - computational pathology, laser microdissection, and mass spectrometry (MS) - to profile normal ducts, acinar-to-ductal metaplasia (ADM), low- and high-grade pancreatic intraepithelial neoplasia (PanIN), and invasive carcinoma from organ donors and patients with PDAC. Quantifying 9,181 proteins from ~100 cells per region, we uncovered a molecular field effect in histologically normal ducts and showed that low-grade PanINs diverge by cancer context. Four programs - stress adaptation, immune engagement, metabolic reprogramming, and mitochondrial remodeling - emerged early and intensified with progression. High-grade PanINs exhibited distinct metabolic signatures preceding invasion. Notably, mass spectrometry detected KRAS hotspot mutant peptides directly within PanINs and ADM, providing protein-level evidence of oncogenic alteration in precursor lesions. These findings demonstrate that molecular reprogramming precedes histological transformation, creating opportunities for earlier detection of this lethal cancer.
HostingRepository	PRIDE
AnnounceDate	2026-04-01
AnnouncementXML	Submission_2026-03-31_23:31:16.224.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Lisa Schweizer
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: NEWT:9606;
ModificationList	No PTMs are included in the dataset
Instrument	Orbitrap Astral

Revision	Datetime	Status	ChangeLog Entry
0	2025-12-31 09:12:34	ID requested
⏵ 1	2026-03-31 23:31:16	announced

Dataset with its publication pending

submitter keyword: Deep Visual Proteomics, laser microdissection, pathology foundation models, mass spectrometry, artificial intelligence, precursor, spatial, tumor, Pancreatic ductal adenocarcinoma

Andreas Mund
contact affiliation	OmicVision Biosciences ApS
contact email	amund@omicvision.com
lab head
Lisa Schweizer
contact affiliation	OmicVision Biosciences ApS
contact email	admin@omicvision.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/2026/03/PXD072559

PRIDE project URI

• PRIDE
  1. PXD072559
     1. Label: PRIDE project
     2. Name: AI-powered Deep Visual Proteomics unmasks critical molecular transitions in pancreatic cancer precursors