PXD018304

PXD018304 is an original dataset announced via ProteomeXchange.

Title	Multi-layered proteomic analysis for colorectal cancer
Description	Matrix metalloproteinase-2 (MMP-2) plays a role in cell migration and invasion that involve degradation of extracellular matrix proteins as well as vascular remodeling. Increased expression of MMP-2 has often been observed in the tumors of colorectal cancer (CRC) patients. In order to unveil the perturbed proteomic signal during MMP-2-induced cancer progression, we analyzed MMP-2 dependent secretome change in HCT116 cancer cells by stable isotopic labeling with amino acids in cell culture (SILAC), together with the plasma proteome profile of CRC patients by label-free quantification according to disease progression from TNM stage I to IV. We also analyzed public database of CRC tissue proteome deposited by Clinical Proteomic Tumor Analysis Consortium (NCI/NIH). As a strategy for integrating the multi-layered proteomes, we first performed unsupervised hierarchical clustering on plasma and tissue proteomes according to TNM stage, and then Fisher’s exact test to find out which clusters were significantly represented by the secretome decreased by more than 1.5-fold upon MMP-2 knock down. The resultant cluster included CD9-ITGB1-ITGA7 protein complex as well as MMP-2. The proteins included in this cluster were mostly related to cell-cell communications and cell motility, and showed remarkable increased expression in tissue and plasma upon disease progression from TNM I to II. MMP-2 induced activation of FAK phospho-signaling in an activity-dependent manner. With the comparative and integrative multi-layered proteomic analysis, we suggest that high invasiveness featured in the disease progression of colorectal cancer with increased secretion of MMP-2 is because MMP-2 activates FAK signaling through CD9-integrin complex and consequently induces positive feedback of MMP-2 upregulation.
HostingRepository	PRIDE
AnnounceDate	2024-10-22
AnnouncementXML	Submission_2024-10-22_05:24:54.431.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Yumi Kwon
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	No PTMs are included in the dataset
Instrument	Q Exactive; LTQ Orbitrap

Revision	Datetime	Status	ChangeLog Entry
0	2020-03-31 02:24:37	ID requested
1	2021-08-26 02:30:31	announced
2	2021-08-26 02:34:46	announced	2021-08-26: Updated project metadata.
⏵ 3	2024-10-22 05:24:55	announced	2024-10-22: Updated project metadata.

10.1038/s41598-021-96635-7;

Kwon Y, Park SJ, Nguyen BT, Kim MJ, Oh S, Lee H, Park N, Kim HS, Kang MJ, Min BS, Lee JW, Yang EG, Lee C, Multi-layered proteogenomic analysis unravels cancer metastasis directed by MMP-2 and focal adhesion kinase signaling. Sci Rep, 11(1):17130(2021) [pubmed]

submitter keyword: MMP-2, SILAC, plasma, label-free, focal adhesion kinase, secretome, colorectal cancer

Cheolju Lee
contact affiliation	Korea Institute of Science and Technology
contact email	clee270@kist.re.kr
lab head
Yumi Kwon
contact affiliation	Korea Institute of Science and Technology
contact email	ymkwon@kist.re.kr
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/2021/08/PXD018304

PRIDE project URI

• PRIDE
  1. PXD018304
     1. Label: PRIDE project
     2. Name: Multi-layered proteomic analysis for colorectal cancer