PXD032047

PXD032047 is an original dataset announced via ProteomeXchange.

Title	Mimicking tumor cell heterogeneity of colorectal cancer in a patient-derived organoid-fibroblast model
Description	Patient derived organoids (PDOs) have been established as a 3D culture model which closely recapitulates the in vivo tumor biology. However, one limitation of this culture model is the lack of tumor microenvironment which has a significant role in tumor progression and drug response. To address this, we established and molecularly characterized a novel 3D co-culture model of colorectal cancer (CRC) based on PDOs and patient matched fibroblasts. Both normal and cancer associated fibroblasts, NFs and CAFs respectively, were able to support organoid growth without addition of niche factors to the media. Additionally, co-cultures showed closer resemblance to primary patient material than organoid mono-cultures as evaluated by histology. Finally, RNA gene expression signatures of tumor cells and fibroblasts isolated from mono- or co-cultures demonstrated that co-cultures support greater cell type heterogeneity. In this proteomics dataset we compared pairs of NFs and CAFs derived from five patients. Collectively, we present a newly established human derived organoid-fibroblast model which, closely recapitulates in vivo tumor heterogeneity and involves the tumor microenvironment.
HostingRepository	PRIDE
AnnounceDate	2023-11-14
AnnouncementXML	Submission_2023-11-14_08:44:17.580.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Markus Hartl
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	monohydroxylated residue; iodoacetamide derivatized residue
Instrument	Q Exactive HF-X

Revision	Datetime	Status	ChangeLog Entry
0	2022-03-03 12:06:40	ID requested
1	2023-03-14 09:21:43	announced
⏵ 2	2023-11-14 08:44:18	announced	2023-11-14: Updated project metadata.

Atanasova VS, de Jesus Cardona C, Hejret V, Tiefenbacher A, Mair T, Tran L, Pfneissl J, Dragani, ć K, Binder C, Kabiljo J, Clement J, Woeran K, Neudert B, Wohlhaupter S, Haase A, Domazet S, Hengstschl, ä, ger M, Mitterhauser M, M, ü, llauer L, Tich, ý B, Bergmann M, Schweikert G, Hartl M, Dolznig H, Egger G, Mimicking Tumor Cell Heterogeneity of Colorectal Cancer in a Patient-derived Organoid-Fibroblast Model. Cell Mol Gastroenterol Hepatol, 15(6):1391-1419(2023) [pubmed]

submitter keyword: cancer associated fibroblast, normal fibroblast, colorectal cancer

Gerda Egger
contact affiliation	Department of Pathology, Medical University of Vienna, Austria
contact email	gerda.egger@meduniwien.ac.at
lab head
Markus Hartl
contact affiliation	Mass Spectrometry Facility, Max Perutz Labs Vienna, University of Vienna, Vienna Biocenter, Dr.-Bohr-Gasse 7, 1030 Vienna
contact email	markus.hartl@univie.ac.at
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/2023/03/PXD032047

PRIDE project URI

• PRIDE
  1. PXD032047
     1. Label: PRIDE project
     2. Name: Mimicking tumor cell heterogeneity of colorectal cancer in a patient-derived organoid-fibroblast model