PXD034851

PXD034851 is an original dataset announced via ProteomeXchange.

Title	Viral biomarker detection and validation using MALDI Mass Spectrometry Imaging (MSI)
Description	INTRODUCTION: Mass Spectrometry Imaging (MSI) is a hybrid mass spectrometry technique that integrates aspects of traditional microscopy and mass spectrometry-based omics analysis. The traditional MALDI TOF/TOF instrument still remains the dominant platform for this type of anal-ysis. However, with reduced mass resolution compared to other platforms it is insufficient to rely on mass resolution alone for peptide identification. Here we propose a hybrid method of data analysis that integrates both image-based analysis and a parallel protein identification workflow using peptide mass fingerprinting, and its successful application to the detection and validation of viral biomarkers. METHODS: FFPE samples were imaged as described previously in an UltrafleXtreme MALDI TOF/TOF. Total mass spectra were exported and searched against the mouse FASTA da-tabase, while companion images were exported and processed with image J. RESULTS: Peptide mass fingerprinting (PMF) revealed 14 target peptides that were successfully assigned to viral proteins while a pixel based correlational analysis revealed a very high R2 correlation (>0.81) be-tween those same peptides assigned to the NS1 and VP1 viral proteins. CONCLUSIONS: We successfully identified and validated the presence of viral biomarkers to a high degree of confidence using MALDI MSI.
HostingRepository	PRIDE
AnnounceDate	2023-11-14
AnnouncementXML	Submission_2023-11-14_06:48:29.233.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Matthew O'Rourke
SpeciesList	scientific name: Mus musculus (Mouse); NCBI TaxID: 10090;
ModificationList	No PTMs are included in the dataset
Instrument	ultraflex

Revision	Datetime	Status	ChangeLog Entry
0	2022-06-22 15:08:11	ID requested
1	2022-10-13 02:46:32	announced
⏵ 2	2023-11-14 06:48:30	announced	2023-11-14: Updated project metadata.

O'Rourke MB, Roediger BR, Jolly CJ, Crossett B, Padula MP, Hansbro PM, Viral Biomarker Detection and Validation Using MALDI Mass Spectrometry Imaging (MSI). Proteomes, 10(3):(2022) [pubmed]

submitter keyword: Peptide identification,Mass Spectrometry Imaging, MALDI

Phil P Hansbro
contact affiliation	Director, Centre for inflammation, Centenary Institute
contact email	matthew.orourke@uts.edu.au
lab head
Matthew O'Rourke
contact affiliation	University of Technology Sydney
contact email	matthew.orourke1@gmail.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/2022/10/PXD034851

PRIDE project URI

• PRIDE
  1. PXD034851
     1. Label: PRIDE project
     2. Name: Viral biomarker detection and validation using MALDI Mass Spectrometry Imaging (MSI)