PXD052582-1

PXD052582 is an original dataset announced via ProteomeXchange.

Title	Molecular and functional landscape of malignant serous effusions for precision oncology
Description	Personalized treatment for patients with advanced solid tumors critically depends on the deep characterization of tumor cells from patient biopsies. Here, we comprehensively characterize a pan-cancer cohort of 150 malignant serous effusion (MSE) samples at the cellular, molecular, and functional level. We find that MSE-derived cancer cells retain the genomic and transcriptomic profiles of their corresponding primary tumors, validating their use as a patient-relevant model system for solid tumor biology. Integrative analyses reveal that baseline gene expression patterns relate to global ex vivo drug sensitivity, while high-throughput drug-induced transcriptional changes in MSE samples are indicative of drug mode of action and acquired treatment resistance. A case study exemplifies the added value of multi-modal MSE profiling for patients who lack genetically stratified treatment options. In summary, our study provides a functional multi-omics view on a pan-cancer solid tumor cohort and underlines the feasibility and utility of MSE-based precision oncology.
HostingRepository	PRIDE
AnnounceDate	2024-10-04
AnnouncementXML	Submission_2024-10-04_05:30:56.394.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Valentina Cappelletti
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	No PTMs are included in the dataset
Instrument	Orbitrap Fusion Lumos

Revision	Datetime	Status	ChangeLog Entry
0	2024-05-27 01:48:07	ID requested
⏵ 1	2024-10-04 05:30:56	announced
2	2024-10-22 07:00:43	announced	2024-10-22: Updated project metadata.

10.1038/S41467-024-52694-8;

submitter keyword: MSE, cancer, DIA, Human,malignant serous effusion

Paola Picotti
contact affiliation	Institute of Molecular Systems Biology, Department of Biology, ETH Zurich, Zurich, Switzerland
contact email	picotti@imsb.biol.ethz.ch
lab head
Valentina Cappelletti
contact affiliation	ETH
contact email	cappelletti@imsb.biol.ethz.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/2024/10/PXD052582

PRIDE project URI

• PRIDE
  1. PXD052582
     1. Label: PRIDE project
     2. Name: Molecular and functional landscape of malignant serous effusions for precision oncology