PXD068129-1

PXD068129 is an original dataset announced via ProteomeXchange.

Title	On the feasibility of clinical studies with cross-linking mass spectrometry
Description	In living systems, protein function relies on many interactions within a network called the interactome. The majority of available interactome data has been acquired with isolated proteins and complexes, but understanding interactome changes in living systems is crucial to advance understanding of functional changes with diseases and for development of improved therapies. With model animal systems, quantitative cross-linking mass spectrometry has been successfully applied to uniquely mitochondrial interactome changes with mitochondrial dysfunction both in heart failure and with age-related muscle function decline. In this study, we investigated the feasibility of qualitative cross-linking mass spectrometry for mitochondrial interactome studies with clinically-relevant human muscle biopsy samples and amounts. By analyzing biopsy samples from two volunteers, 3175 unique peptides from 322 mitochondrial proteins were identified from all mitochondrial subcompartments. Many of the identified human biopsy cross-linked peptides were derived from protein complex and supercomplex assemblies that exhibited altered levels in model systems of heart failure and aging. The findings demonstrate the initial feasibility that these and other cross-linked species can be detected in human muscle biopsy samples to enable future studies of age- and disease-related changes in mitochondrial structure-function relationships.
HostingRepository	PRIDE
AnnounceDate	2025-09-26
AnnouncementXML	Submission_2025-09-26_13:35:21.715.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Sung-Gun Park
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	No PTMs are included in the dataset
Instrument	Q Exactive

Revision	Datetime	Status	ChangeLog Entry
0	2025-09-05 10:24:40	ID requested
⏵ 1	2025-09-26 13:35:22	announced

Dataset with its publication pending

submitter keyword: OXPHOS complex, DHE3, cross-linking, human muscle biopsy,: interactome, intra/inter cross-linked peptides, dead-end peptides, supercomplex, XL-MS, mitochondria, THIL., ACADV

James E. Bruce
contact affiliation	University of Washington
contact email	jimbruce@uw.edu
lab head
Sung-Gun Park
contact affiliation	University of Washington
contact email	sunggun20@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/2025/09/PXD068129

PRIDE project URI

• PRIDE
  1. PXD068129
     1. Label: PRIDE project
     2. Name: On the feasibility of clinical studies with cross-linking mass spectrometry