PXD040397-1

PXD040397 is an original dataset announced via ProteomeXchange.

Dataset Summary

Title	Integrated Multi-Omic Analysis of Epithelial and Stromal Changes during Progression of Barrett s Esophagus to Adenocarcinoma
Description	Esophageal adenocarcinoma arises from Barrett s esophagus, the precancerous metaplastic replacement of squamous by columnar epithelium in response to chronic inflammation. Development of adenocarcinoma is accompanied by non-genetic plasticity of epithelial and stromal cells. Multiomics profiling, integrating single-cell transcriptomics, extracellular matrix proteomics, tissue mechanics and spatial multiplexed proteomics of 64 samples from 12 patient trajectories of progression from normal epithelium, to metaplasia, dysplasia and adenocarcinoma, revealed shared and patient-specific progression paths. We detected profound consistent alterations of type and composition of tumor microenvironment cells, matrix composition and cell neighborhoods. Stromal cells with characteristics of cancer-associated fibroblasts appear early at the premalignant metaplastic stage. Thus, Barrett s esophagus progresses as a coordinated multi-component system, supporting a treatment paradigm that incorporates tissue reprogramming beyond targeting cancerous cells.
HostingRepository	MassIVE
AnnounceDate	2025-04-01
AnnouncementXML	Submission_2025-04-01_16:00:36.305.xml
DigitalObjectIdentifier
ReviewLevel	Non peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Joanna Bons
SpeciesList	scientific name: Homo sapiens; common name: human; NCBI TaxID: 9606;
ModificationList	No PTMs are included in the dataset
Instrument	TripleTOF 6600

Dataset History

Revision	Datetime	Status	ChangeLog Entry
0	2023-02-25 20:01:05	ID requested
⏵ 1	2025-04-01 16:00:36	announced

Publication List

no publication

no publication

Keyword List

submitter keyword: Data-Independent Acquisition, Extracellular Matrix, Barrett's Esophagus, Esophageal Adenocarcinoma, Quantification

submitter keyword: Data-Independent Acquisition, Extracellular Matrix, Barrett's Esophagus, Esophageal Adenocarcinoma, Quantification

Contact List

Birgit Schilling
contact affiliation	Buck Institute
contact email	bschilling@buckinstitute.org
lab head
Joanna Bons
contact affiliation	Buck Institute for Research on Aging
contact email	jbons@buckinstitute.org
dataset submitter

Full Dataset Link List

MassIVE dataset URI
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://massive-ftp.ucsd.edu/v05/MSV000091366/

MassIVE dataset URI

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://massive-ftp.ucsd.edu/v05/MSV000091366/