PXD050227

PXD050227 is an original dataset announced via ProteomeXchange.

Title	Long term adaptation of lymphoma cells to hypoxia
Description	This study explores the long-term adaptation mechanisms of lymphoma cells subjected to hypoxic conditions, with an emphasis on the HBL2 and Ramos cell lines under normoxia and 1% O2 environments. The research methodology encompassed lysing cells using a buffer containing sodium deoxycholate and TEAB, followed by protein quantification via a BCA assay. Subsequent steps involved protein digestion with trypsin, labelling with TMTpro™ 16plex Label Reagent Set for quantitative analysis, peptide fractionation, and LC-MS/MS analysis. The analytical process was supported by Proteome Discoverer 2.4 for protein identification and quantification. Experimental groups were categorized into "HBL2 normoxia," "HBL2 1% O2 adaptation," "Ramos normoxia," and "Ramos 1% O2 adaptation," conducted in triplicates to ensure reliability. This meticulous approach facilitated the delineation of unique proteomic landscapes indicative of hypoxia adaptation, unveiling cellular strategies employed by lymphoma cells to navigate low oxygen conditions. The findings advance our comprehension of how hypoxia influences cancer progression and potentially opens new avenues for targeting hypoxic niches within tumors.
HostingRepository	PRIDE
AnnounceDate	2025-02-27
AnnouncementXML	Submission_2025-02-27_02:01:00.489.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Matěj Běhounek
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	monohydroxylated residue; deamidated residue; iodoacetamide derivatized residue
Instrument	Orbitrap Fusion

Revision	Datetime	Status	ChangeLog Entry
0	2024-02-28 15:05:42	ID requested
⏵ 1	2025-02-27 02:01:01	announced

Daumova L, Manakov D, Petrak J, Sovilj D, Behounek M, Andera L, Vit O, Souckova O, Havranek O, Dolnikova A, Renesova N, Tuskova L, Winkowska L, Bettazova N, Kupcova K, Kalbacova MH, Sikorova M, Trneny M, Klener P, Long-term adaptation of lymphoma cell lines to hypoxia is mediated by diverse molecular mechanisms that are targetable with specific inhibitors. Cell Death Discov, 11(1):65(2025) [pubmed]

10.1038/s41420-025-02341-y;

submitter keyword: Lymphoma cells (HBL2, TMT Proteomic analysis,Hypoxia adaptation, Ramos), Cellular mechanisms

prof. MUDr. Pavel Klener, Ph.D.
contact affiliation	Institute of Pathological Physiology First Faculty of Medicine, Charles University
contact email	pavel.klener@gmail.com
lab head
Matěj Běhounek
contact affiliation	BIOCEV, First Faculty of Medicine, Charles University, Prague, Czech Republic
contact email	matej.behounek@lf1.cuni.cz
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/2025/02/PXD050227

PRIDE project URI

• PRIDE
  1. PXD050227
     1. Label: PRIDE project
     2. Name: Long term adaptation of lymphoma cells to hypoxia