PXD008986

PXD008986 is an original dataset announced via ProteomeXchange.

Title	Parallel Reaction Monitoring (PRM)-Driven Profiling of Hypoxia-responsive Pathways Associated with Metastasis in Osteosarcoma
Description	In this study, we aimed to refine our understanding of the molecular events associated with the proteomic response to hypoxia in OS cells with different anatomic origins, namely from a primary and metastatic site. There are similarities in biology and treatment of OS in human and canine. We opted to use a canine parental osteosarcoma cell line (POS), which was cultured from a primary canine tumor24; and a highly metastatic POS cell line (HMPOS) that was derived from pulmonary metastatic lesions in mouse POS xenografts. We have chosen a protein-centric study design that combines 1) initially a label-free data dependent acquisition (DDA) method for enabling quantification of larger sets of proteins and global assessment of adaptive responses induced by hypoxia, 2) selection of hypoxia-responsive protein targets and 3) using parallel reaction monitoring (PRM) for quantitative monitoring of signature peptides of hypoxia-responsive protein targets to determine their precise response to hypoxia and to confirm hypoxia-regulated pathways. Functional biochemical assays provide additional validation of the proteomic findings. Taken together, our results describe the hypoxia response of OS cell phenotypes by inducing comprehensive alterations in the proteome biology that are associated with metabolic reprogramming, redox modulation and extra cellular matrix (EMC) remodeling.
HostingRepository	PRIDE
AnnounceDate	2024-10-08
AnnouncementXML	Submission_2024-10-08_11:17:47.858.xml
DigitalObjectIdentifier	https://dx.doi.org/10.6019/PXD008986
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Supported dataset by repository
PrimarySubmitter	Zifeng Song
SpeciesList	scientific name: Canis familiaris (Dog) (Canis lupus familiaris); NCBI TaxID: 9615;
ModificationList	Oxidation; Carbamidomethyl
Instrument	Orbitrap Fusion Lumos

Revision	Datetime	Status	ChangeLog Entry
0	2018-02-19 08:45:22	ID requested
⏵ 1	2024-10-08 11:17:48	announced

10.1038/s41598-019-56878-x;

10.6019/PXD008986;

Song Z, Pearce MC, Jiang Y, Yang L, Goodall C, Miranda CL, Milovancev M, Bracha S, Kolluri SK, Maier CS, Delineation of hypoxia-induced proteome shifts in osteosarcoma cells with different metastatic propensities. Sci Rep, 10(1):727(2020) [pubmed]

curator keyword: Biomedical

submitter keyword: Label Free Quantification, Parallel Reaction Monitoring,Hypoxia, Osteosarcoma, Metastasis

Claudia S. Maier
contact affiliation	Department of Chemistry, Oregon State University, US
contact email	claudia.maier@oregonstate.edu
lab head
Zifeng Song
contact affiliation	Oregon State University
contact email	songzi@oregonstate.edu
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/2020/05/PXD008986

PRIDE project URI

• PRIDE
  1. PXD008986
     1. Label: PRIDE project
     2. Name: Parallel Reaction Monitoring (PRM)-Driven Profiling of Hypoxia-responsive Pathways Associated with Metastasis in Osteosarcoma