PXD069794

PXD069794 is an original dataset announced via ProteomeXchange.

Title	Mouse Circadian Proteome Atlas by next-generation deep proteome analysis
Description	The circadian clock drives daily rhythms of gene expression and physiological functions across tissues throughout the body. Advances in next-generation DNA sequencing have provided extensive insights into gene expression at the RNA level, but more functional information at the protein level with sufficient depth has been limited by technical challenges. Recently, the next-generation mass spectrometer Orbitrap Astral was developed, allowing us to quantify protein abundance with greater sensitivity and accuracy. In this study, we generated a comprehensive mouse circadian proteome atlas (available in https://chiba1.dynacom.co.jp/mcp_atlas/) by analyzing protein abundance in 32 tissues including the suprachiasmatic nucleus (SCN) across the day using Orbitrap Astral. Data-independent acquisition of 584 samples including developmental samples revealed the spatiotemporal profiles of 18,956 proteins, accounting for 73.8% of all proteins registered in UniProt. Proteome and phospho-proteome analyses of whole-cell and nuclear proteins in the liver uncovered circadian profiles not only in protein abundance but also in subcellular localization and post-translational modification. Notably, proteome analysis revealed global changes in protein phosphorylation status in hPER2-S662G mutant mice, a genetic model of human familial advanced sleep phase (FASP). This multi-tissue circadian proteome atlas provides a fundamental resource for understanding when, where, and which proteins are expressed and function.
HostingRepository	PRIDE
AnnounceDate	2025-11-27
AnnouncementXML	Submission_2025-11-27_12:58:59.643.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Hikari Yoshitane
SpeciesList	scientific name: Mus musculus (Mouse); NCBI TaxID: NEWT:10090;
ModificationList	monohydroxylated residue
Instrument	Orbitrap Astral

Revision	Datetime	Status	ChangeLog Entry
0	2025-10-22 14:42:36	ID requested
⏵ 1	2025-11-27 12:59:00	announced

Dataset with its publication pending

submitter keyword: Orbitrap Astral,Circadian, Phosphorylation

Hikari Yoshitane
contact affiliation	Circadian Clock Project, TOkyo Metropolitan Institute of Health Science
contact email	yoshitane-hk@igakuken.or.jp
lab head
Hikari Yoshitane
contact affiliation	Tokyo Metropoitan Instituite of Medical Sciences
contact email	yoshitane-hk@igakuken.or.jp
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/2025/11/PXD069794

PRIDE project URI

• PRIDE
  1. PXD069794
     1. Label: PRIDE project
     2. Name: Mouse Circadian Proteome Atlas by next-generation deep proteome analysis