PXD056469

PXD056469 is an original dataset announced via ProteomeXchange.

Title	Human whole blood from patients with NSCLC and matching controls processed using VAMS device.
Description	Frozen whole blood cell pellets from NSCLC patients and healthy controls were processed using novel techniques to produce a unique sample using VAMS devices. Samples were analysed using liquid chromatography mass spectrometry to collectively screen 3914 proteins from the whole blood sample. Analysis of all fractions produced a set of 515 differentially expressed proteins. Boosted regression tree analysis of the differentially expressed proteins produced a panel of 13 proteins that were able to discriminate between controls and NSCLC patients with an area under the ROC curve (AUC) of 0.864 for the set. Our rapid and reproducible blood preparation and analysis methods enabled the production of high-quality data from small volumes of complex samples that are typically require significant fractionation prior to proteomic analysis.
HostingRepository	PRIDE
AnnounceDate	2025-06-04
AnnouncementXML	Submission_2025-06-03_22:21:06.326.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Elisabeth Karsten
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	iodoacetamide derivatized residue
Instrument	Q Exactive HF

Revision	Datetime	Status	ChangeLog Entry
0	2024-10-03 01:04:05	ID requested
⏵ 1	2025-06-03 22:21:07	announced

McMahon R, Lucas N, Hill C, Pascovici D, Herbert B, Karsten E, Investigating the Use of Novel Blood Processing Methods to Boost the Identification of Biomarkers for Non-Small Cell Lung Cancer: A Proof of Concept. J Proteome Res, 24(1):344-355(2025) [pubmed]

10.1021/acs.jproteome.4c00829;

submitter keyword: Human, NSCLC, VAMS, whole blood, lung cancer

Ben Herbert
contact affiliation	Chief Scientific Officer, Sangui Bio
contact email	Ben@Sanguibio.com
lab head
Elisabeth Karsten
contact affiliation	Sangui Bio
contact email	elisabeth@sanguibio.com
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/2025/06/PXD056469

PRIDE project URI

• PRIDE
  1. PXD056469
     1. Label: PRIDE project
     2. Name: Human whole blood from patients with NSCLC and matching controls processed using VAMS device.