PXD027878

PXD027878 is an original dataset announced via ProteomeXchange.

Title	Intra-tumor heterogeneity revealed by mass spectrometry im-aging is associated with the prognosis of breast cancer
Description	Intra-tumor heterogeneity (ITH) results from coexistence of genetically distinct cancer cell (sub)populations, their phenotypic plasticity, and the presence of heterotypic components of the tumor microenvironment (TME). Here we addressed potential association between phenotypic ITH revealed by mass spectrometry imaging (MSI) and the prognosis of breast cancer. Tissue specimens resected from 59 patients treated radically due to the locally advanced HER2-positive invasive ductal carcinoma were included in the study. After on-tissue trypsin digestion of cellu-lar proteins, peptide maps of all cancer regions (about 380,000 spectra in total) were segmented by an unsupervised approach to reveal their intrinsic heterogeneity. A high degree of similarity between spectra was observed, which indicated relative homogeneity of cancer regions. How-ever, when the number and diversity of the detected clusters of spectra were analyzed, differ-ences between patient groups were observed. It is noteworthy that a higher degree of heteroge-neity was found in tumors from patients who remained disease-free during a 5-year follow-up (n=38) compared to tumors from patients with progressive disease (distant metastases detected during follow-up, n=21). Interestingly, such differences were not observed between patients with different status of regional lymph nodes, cancer grade, or expression of estrogen receptor at the time of the primary treatment. Subsequently, spectral components with different abundance in cancer regions were detected in patients with different outcomes, and their hypothetical identity was established by assignment to measured masses of tryptic peptides identified in correspond-ing tissue lysates. Such differentiating components were associated with proteins involved in immune regulation and hemostasis. We postulate that a higher heterogeneity of tumors with a better prognosis could reflect the presence of heterotypic components including the microvas-culature and infiltrating immune cells, that facilitated response to treatment.
HostingRepository	PRIDE
AnnounceDate	2022-02-17
AnnouncementXML	Submission_2022-02-17_05:45:23.893.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Monika Pietrowska
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	monohydroxylated residue; iodoacetamide derivatized residue
Instrument	ultraflex

Revision	Datetime	Status	ChangeLog Entry
0	2021-08-11 22:19:57	ID requested
⏵ 1	2022-02-17 05:45:25	announced

Gawin M, Kurczyk A, Niemiec J, Stanek-Widera A, Grela-Wojewoda A, Adamczyk A, Biskup-Fru, ż, y, ń, ska M, Pola, ń, ska J, Wid, ł, ak P, Intra-Tumor Heterogeneity Revealed by Mass Spectrometry Imaging Is Associated with the Prognosis of Breast Cancer. Cancers (Basel), 13(17):(2021) [pubmed]

submitter keyword: HER2-positive breast cancer

intra-tumor heterogeneity

mass spectrometry imaging

prognosis

long-term outcome

tumor microenvironment

Piotr Widłak
contact affiliation	Maria Skłodowska-Curie National Research Institute of Oncology Gliwice Branch, Gliwice, Poland
contact email	piotr.widlak@io.gliwice.pl
lab head
Monika Pietrowska
contact affiliation	Maria Sklodowska-Curie National Research Institute of Oncology
contact email	monika.pietrowska@io.gliwice.pl
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/2022/02/PXD027878

PRIDE project URI

• PRIDE
  1. PXD027878
     1. Label: PRIDE project
     2. Name: Intra-tumor heterogeneity revealed by mass spectrometry im-aging is associated with the prognosis of breast cancer