PXD041457

PXD041457 is an original dataset announced via ProteomeXchange.

Title	An integrated multi-omic workflow reveals markers of host-microbe dynamics in clinical cystic fibrosis samples
Description	Airway microbiota composition correlates with cystic fibrosis (CF) progression, however, microbial drivers of disease remain unclear. MS-based metaproteomics of bronchoalveolar lavage fluid (BALF) offers insights into both host and microbe dynamics and potential interactions. However, detection of microbial proteins, and analysis of their interaction with host proteins is analytically challenging. As a solution, we have developed a novel, integrated workflow coupling deep MS-based BALF analysis, with customized bioinformatic processing of both host and microbial proteins, generating a panel of verified host and microbe peptide candidates suitable for targeted analysis within individual patient samples. We have utilized this workflow in our ongoing work to identify a promising host and microbe peptide panel for application to CF disease progression studies.
HostingRepository	PRIDE
AnnounceDate	2024-06-25
AnnouncementXML	Submission_2024-06-25_09:51:06.885.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Monica Kruk
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	monohydroxylated residue; iodoacetamide derivatized residue
Instrument	Orbitrap Eclipse; Orbitrap Fusion

Revision	Datetime	Status	ChangeLog Entry
0	2023-04-11 03:31:41	ID requested
⏵ 1	2024-06-25 09:51:07	announced

Dataset with its publication pending

submitter keyword: Human, FAIMS, cystic fibrosis, bronchoalveolar lavage, BAL, CF, PRM, immune, microbe, mass spectrometry, lung, infection

Timothy Griffin
contact affiliation	Department of Biochemistry, Molecular Biology and Biophysics, University of Minnesota, Minneapolis, MN, USA
contact email	tgriffin@umn.edu
lab head
Monica Kruk
contact affiliation	UMN
contact email	joh15006@umn.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/2024/06/PXD041457

PRIDE project URI

• PRIDE
  1. PXD041457
     1. Label: PRIDE project
     2. Name: An integrated multi-omic workflow reveals markers of host-microbe dynamics in clinical cystic fibrosis samples