PXD052746

PXD052746 is an original dataset announced via ProteomeXchange.

Title	Proximity labelling and SILAC based proteomic approach identifies proteins at the interface of homotypic and heterotypic cancer cell interactions.
Description	Cell-cell interactions are critical for the growth of organisms and maintaining homeostasis. In the tumor microenvironment, these interactions promote cancer progression. Given their importance in healthy and diseased conditions, we have developed a method to analyze the cell-to-cell interactome. Our approach uses enzyme-catalyzed proximity labeling and SILAC-based proteomics to identify the proteins involved in cancer cell interactions. By targeting HRP to the outer leaflet of the plasma membrane in bait cells, we were able to label the neighboring prey cells and distinguish between the proteomes of bait and prey cells using SILAC labeling in a co-culture system. We mapped both the homotypic and heterotypic interactomes of epithelial and mesenchymal breast cancer cells. The enrichment of cell surface and extracellular proteins confirms the specificity of our methodology. This method revealed prominent signaling pathways orchestrating homotypic and heterotypic interactions of epithelial and mesenchymal cells. It also highlights the importance of exosomes in these interactions. Our methodology can be applied to any type of cell-cell interaction in 2D co-culture or 3D tumor models.
HostingRepository	PRIDE
AnnounceDate	2025-05-26
AnnouncementXML	Submission_2025-05-26_08:07:27.928.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Büşra Aytül KIRIM
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	6x(13)C; 6x(13)C; biotinylated residue; phosphorylated residue; acetylated residue; monohydroxylated residue; iodoacetamide derivatized residue
Instrument	Q Exactive HF; Q Exactive

Revision	Datetime	Status	ChangeLog Entry
0	2024-05-31 00:06:40	ID requested
⏵ 1	2025-05-26 08:07:28	announced

Saner N, Uzun C, Akarlar BA, Ö, zkan SN, Geiszler DJ, Ö, zt, ü, rk E, Tun, ç, ba, ğ N, Ö, zl, ü N, Proximity labeling and SILAC based proteomic approach identifies proteins at the interface of homotypic and heterotypic cancer cell interactions. Mol Cell Proteomics, ():100986(2025) [pubmed]

10.1016/j.mcpro.2025.100986;

submitter keyword: SILAC based, orbitrap, HRP,cell-cell interactions

Nurhan Ozlu
contact affiliation	Koç University, Science,Department of MBGE
contact email	nozlu@ku.edu.tr
lab head
Büşra Aytül KIRIM
contact affiliation	Koç University
contact email	bakarlar@ku.edu.tr
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/2025/05/PXD052746

PRIDE project URI

• PRIDE
  1. PXD052746
     1. Label: PRIDE project
     2. Name: Proximity labelling and SILAC based proteomic approach identifies proteins at the interface of homotypic and heterotypic cancer cell interactions.