PXD062437-1

PXD062437 is an original dataset announced via ProteomeXchange.

Title	Divergent proteome tolerance against gain and loss of chromosome arms
Description	How aneuploid cells tolerate chromosome arm gains or losses remains an open question. Using an isogenic human lung cell model with either 3p loss or 3q gain, combined with quantitative mass spectrometry and isotopic labeling, we reveal distinct proteostasis mechanisms for gain- and loss-type aneuploidy. Surprisingly, while compensation for 3q gain is primarily driven by increased degradation of excess protein complex subunits, 3p loss is neither counteracted by global protein degradation nor selectively reduced degradation, but rather by relatively upregulated protein synthesis to maintain protein complex stoichiometry. Additionally, proteins encoded on 3p exhibit increased thermal stability in loss-type aneuploidy, potentially via their interactions with other proteins from euploid chromosomes. Together, our findings uncover distinct proteomic buffering strategies that enable cells to tolerate either excessive or deficient single-arm aneuploidy.
HostingRepository	PRIDE
AnnounceDate	2025-10-09
AnnouncementXML	Submission_2025-10-09_01:19:16.601.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Wenxue Li
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: NEWT:9606;
ModificationList	acetylated residue; iodoacetamide derivatized residue
Instrument	Orbitrap Fusion Lumos

Revision	Datetime	Status	ChangeLog Entry
0	2025-03-31 21:55:48	ID requested
⏵ 1	2025-10-09 01:19:17	announced

Dataset with its publication pending

submitter keyword: Proteostasis

Gain and loss

Chromosome 3

Lung Cancer

Proteomic buffering,: Aneuploidy

Proteomics

Dynamic SILAC

Protein degradation

Protein synthesis

Yansheng Liu
contact affiliation	Yale School of Medicine
contact email	yansheng.liu@yale.edu
lab head
Wenxue Li
contact affiliation	Yale University
contact email	wenxue.li@yale.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/2025/10/PXD062437

PRIDE project URI

• PRIDE
  1. PXD062437
     1. Label: PRIDE project
     2. Name: Divergent proteome tolerance against gain and loss of chromosome arms