PXD018367-1

PXD018367 is an original dataset announced via ProteomeXchange.

Title	Patient-derived scaffolds uncover breast cancer promoting properties of the microenvironment
Description	Tumor cells interact with the microenvironment that specifically supports and promotes tumor development. Key components in the tumor environment have been linked to various aggressive cancer features and can further influence the presence of subpopulations of cancer cells with specific functions, including cancer stem cells and migratory cells. To model and further understand the influence of specific microenvironments we have developed an experimental platform using cell-free patient-derived scaffolds (PDSs) from primary breast cancers infiltrated with standardized breast cancer cell lines. This PDS culture system induced a series of orchestrated changes in differentiation, epithelial-mesenchymal transition, stemness and proliferation of the cancer cell population, where an increased cancer stem cell pool was confirmed using functional assays. Furthermore, global gene expression profiling showed that PDS cultures were similar to xenograft cultures. Mass spectrometry analyses of cell-free PDSs identified subgroups based on their protein composition that were linked to clinical properties, including tumor grade. Finally, we observed that an induction of epithelial-mesenchymal transition-related genes in cancer cells growing on the PDSs were significantly associated with clinical disease recurrences in breast cancer patients. Patient-derived scaffolds thus mimics in vivo-like growth conditions and uncovers unique information about the malignancy-inducing properties of tumor microenvironment.
HostingRepository	PRIDE
AnnounceDate	2020-06-25
AnnouncementXML	Submission_2020-06-24_23:15:36.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Evelin Berger
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	methylthiolated residue; monohydroxylated residue
Instrument	Orbitrap Fusion

Revision	Datetime	Status	ChangeLog Entry
0	2020-04-04 09:37:16	ID requested
⏵ 1	2020-06-24 23:15:37	announced
2	2020-07-16 03:34:26	announced	2020-07-16: Updated publication reference for PubMed record(s): 32637480, 31978840.

Landberg G, Fitzpatrick P, Isakson P, Jonasson E, Karlsson J, Larsson E, Svanstr, ö, m A, Rafnsdottir S, Persson E, Gustafsson A, Andersson D, Rosendahl J, Petronis S, Ranji P, Gregersson P, Magnusson Y, H, å, kansson J, St, å, hlberg A, Patient-derived scaffolds uncover breast cancer promoting properties of the microenvironment. Biomaterials, 235():119705(2020) [pubmed]

submitter keyword: Breast cancer, Cancer stem cells, Differentiation, Infiltration, Malignancy, Scaffold

Carina Sihlbom
contact affiliation	Proteomics Core Facility, University of Gothenburg, Gothenburg, Sweden
contact email	carina.sihlbom@gu.se
lab head
Evelin Berger
contact affiliation	University of Gothenburg
contact email	evelin.berger@gu.se
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/2020/06/PXD018367

PRIDE project URI

• PRIDE
  1. PXD018367
     1. Label: PRIDE project
     2. Name: Patient-derived scaffolds uncover breast cancer promoting properties of the microenvironment