PXD076071

PXD076071 is an original dataset announced via ProteomeXchange.

Title	Cell size-dependent mRNA transcription drives proteome remodeling
Description	Increasing cell size drives proteomic changes that impact cell physiology. However, the molecular basis of size-dependent proteome remodeling has remained unclear. Here, we develop an inducible Cyclin D1 expression system in human cells to generate populations of proliferating cells spanning over a two-fold size range. We use this genetic system to make comprehensive genome-wide measurements of mRNA and protein concentrations and stability. We find that protein and mRNA turnover rates are weakly related to cell size, but that mRNA concentrations are strongly size-dependent. This establishes that transcriptional regulation is the basis of proteome remodeling. Live-cell imaging of endogenous mRNAs using MS2 fluorescent protein binding motifs is used to measure how transcriptional dynamics change with cell size. Larger cells prolong transcriptional bursts and shorten inactive periods between bursts but maintain similar burst amplitudes to achieve transcriptional scaling. Taken together, our results show how transcription is modulated by cell size to remodel the proteome and alter cell physiology.
HostingRepository	PRIDE
AnnounceDate	2026-04-03
AnnouncementXML	Submission_2026-04-03_11:15:43.615.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Michael Lanz
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: NEWT:9606;
ModificationList	No PTMs are included in the dataset
Instrument	Orbitrap Fusion Lumos

Revision	Datetime	Status	ChangeLog Entry
0	2026-03-24 02:02:40	ID requested
⏵ 1	2026-04-03 11:15:44	announced

Dataset with its publication pending

submitter keyword: transcription, protein turnover,cell size, size scaling

Jan Skotheim
contact affiliation	Department of Biology, Stanford University
contact email	skotheim@stanford.edu
lab head
Michael Lanz
contact affiliation	Stanford University
contact email	mikelanz@stanford.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/2026/04/PXD076071

PRIDE project URI

• PRIDE
  1. PXD076071
     1. Label: PRIDE project
     2. Name: Cell size-dependent mRNA transcription drives proteome remodeling