PXD081329-1

PXD081329 is an original dataset announced via ProteomeXchange.

Title	Abdominal Aortic Calcification
Description	Abdominal aortic calcification (AAC) is driven by inflammation, structural remodeling, and vascular smooth muscle cell dysfunction, yet its ubiquitination-mediated regulatory mechanisms remain poorly defined. Using paired calcified and non-calcified abdominal aortic tissues from four donors, we performed integrated proteomic and ubiquitinomic profiling, quantifying 2,325 proteins and 7,041 lysine ubiquitination (Kub) sites. Upregulated proteins and proteins carrying upregulated ubiquitination sites were enriched in immune and inflammatory pathways, whereas their downregulated counterparts were enriched in vascular smooth muscle contraction and cytoskeletal regulation. To identify candidate ubiquitination-driven regulatory nodes, we applied a multi-layer filtering strategy. Protein–protein interaction network analysis identified TLN1, ITGB2, DMD, VCAM1, and SYK as the top five hub proteins among differentially expressed proteins. Among these, SYK showed concurrent upregulation at both the protein and ubiquitination levels and occupied a central position within an ITGAM–SYK–CRK functional module linked to Fcγ R-mediated phagocytosis and cytoskeletal regulation. UbiBrowser 2.0 analysis further revealed that SYK was simultaneously targeted by multiple predicted E3 ligases (CBL, CBLB, NEDD4) and a predicted deubiquitinase (USP10), placing it at the intersection of ubiquitin conjugation and removal networks, a property not shared by the other hub candidates. This study provides the first proteomic and ubiquitinomic landscape of human AAC and lays a foundation for investigating SYK-centered regulatory mechanisms in AAC.
HostingRepository	iProX
AnnounceDate	2026-07-19
AnnouncementXML	Submission_2026-07-20_00:51:05.125.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Kunling Liu
SpeciesList	scientific name: Homo sapiens; NCBI TaxID: 9606;
ModificationList	No PTMs are included in the dataset
Instrument	timsTOF HT

Revision	Datetime	Status	ChangeLog Entry
0	2026-07-20 00:50:48	ID requested
⏵ 1	2026-07-20 00:51:05	announced

Dataset with its publication pending

submitter keyword: Abdominal aortic calcification, ubiquitination, proteomics, SYK, bioinformatics

Juntao Yang
contact affiliation	Chinese Academy of Medical Sciences School of Basic Medicine, Peking Union Medical College
contact email	yangjt@pumc.edu.cn
lab head
Kunling Liu
contact affiliation	Chinese Academy of Medical Sciences School of Basic Medicine, Peking Union Medical College
contact email	15885793862@163.com
dataset submitter

iProX dataset URI