PXD022015-3

PXD022015 is an original dataset announced via ProteomeXchange.

Title	Characterization of gastric tumor organoids with specific oncogenic pathway activations
Description	Gastric cancer ranks the fifth most common malignancy and the third leading cause of cancer related death worldwide. Classical chemotherapy is still the standard treatment in advanced stages, with only two targeted therapies currently in clinical use. Several targeted trials have failed, likely due to missing relevant biomarkers that predict response. Patient derived cancer organoids (PDOs) constitute a three dimensional cell culture system showing self renewal, self organization and regularly unlimited proliferation while faithfully recapitulating many aspects of the tumor they are derived from. Nevertheless, the complex individual mutational landscape hampers the use of PDOs for basic and translational research. We therefore characterized three murine tumor organoid models with defined mutational patterns altering specific oncogenic pathways: a RAS activated (KrasG12D, Tp53R172H), a WNT activated (Apcfl/fl, Tp53R172H) and a diffuse (Cdh1fl/fl, Apcfl/fl) tumor model. The models were analyzed phenotypically, a proteome signature was established and a drug screen performed. The models were morphologically diverse, were characterized by individual protein expression signatures and showed differential drug sensitivities. The developed organoid models allow functional assays as well as pathway specific drug interference testing in a genetically defined setting.
HostingRepository	PRIDE
AnnounceDate	2023-11-14
AnnouncementXML	Submission_2023-11-14_08:51:27.181.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Fernando Garcia
SpeciesList	scientific name: Mus musculus (Mouse); NCBI TaxID: 10090;
ModificationList	phosphorylated residue
Instrument	Q Exactive; maXis

Revision	Datetime	Status	ChangeLog Entry
0	2020-10-16 00:47:35	ID requested
1	2022-08-22 04:51:12	announced
2	2023-05-14 15:02:26	announced	2023-05-14: Updated project metadata.
⏵ 3	2023-11-14 08:51:27	announced	2023-11-14: Updated project metadata.

Dataset with its publication pending

ProteomeXchange project tag: Human proteome project, EPIC-XS

submitter keyword: phospho proteome signature, proteome signature, murine tumor organoid models,Gastric cancer

Javier Muñoz Peralta
contact affiliation	Head of Proteomics Unit Spanish National Cancer Research Centre (CNIO) Address: Melchor Fernández Almagro, 3. 28029 Madrid. SPAIN Phone: +34 917 328 000 Ext. 3110
contact email	jmunozpe@cnio.es
lab head
Fernando Garcia
contact affiliation	Fernando García Martínez, Ph.D. Proteomics Unit, Spanish National cancer Research Center, CNIO, MADRID, SPAIN
contact email	fgarcia@cnio.es
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/2022/08/PXD022015

PRIDE project URI

• PRIDE
  1. PXD022015
     1. Label: PRIDE project
     2. Name: Characterization of gastric tumor organoids with specific oncogenic pathway activations