PXD018334

PXD018334 is an original dataset announced via ProteomeXchange.

Title	Single-cell transcriptomics and cell-specific proteomics reveals new molecular regulators of sleep
Description	Every day, we sleep for a third of the day. Sleep is important for cognition, brain waste clearance, metabolism, and immune responses. Homeostatic regulation of sleep is maintained by progressively rising sleep need during wakefulness, which then dissipates during sleep. The molecular mechanisms governing sleep are largely unknown. Here, we used a combination of single-cell RNA sequencing and cell-type specific proteomics to interrogate the molecular and functional underpinnings of sleep. Different cell-types in the brain regions show similar transcriptional response to sleep need whereas sleep deprivation changes overall expression indicative of altered antigen processing, synaptic transmission and cellular metabolism in brainstem, cortex and hypothalamus, respectively. Increased sleep need enhances expression of transcription factor Sox2, Mafb, and Zic1 in brainstem; Hlf, Cebpb and Sox9 in cortex, and Atf3, Fosb and Mef2c in hypothalamus. Results from cell-type proteome analysis suggest that sleep deprivation changes abundance of proteins in cortical neurons indicative of altered synaptic vesicle cycles and glucose metabolism whereas in astrocytes it alters the abundance of proteins associated with fatty acid degradation. Similarly, phosphoproteomics of each cell type demonstrates large shifts in site-specific protein phosphorylation in neurons and astrocytes of sleep deprived mice. Our results indicate that sleep deprivation regulates transcriptional, translational and post-translational responses in a cell-specific manner and advances our understanding of the cellular and molecular mechanisms that govern sleep-wake homeostasis in mammals.
HostingRepository	PRIDE
AnnounceDate	2023-11-14
AnnouncementXML	Submission_2023-11-14_07:48:30.558.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Sandipan Ray
SpeciesList	scientific name: Mus musculus (Mouse); NCBI TaxID: 10090;
ModificationList	phosphorylated residue; acetylated residue; iodoacetamide derivatized residue
Instrument	Orbitrap Fusion Lumos

Revision	Datetime	Status	ChangeLog Entry
0	2020-04-02 00:23:23	ID requested
1	2022-10-13 07:49:07	announced
⏵ 2	2023-11-14 07:48:31	announced	2023-11-14: Updated project metadata.

Jha PK, Valekunja UK, Ray S, Nollet M, Reddy AB, Single-cell transcriptomics and cell-specific proteomics reveals molecular signatures of sleep. Commun Biol, 5(1):846(2022) [pubmed]

submitter keyword: Phosphoproteomics, Differential proteomics, Tandem mass tag, Sleep deprivation, Neuron,strocyte, Single-cell RNA sequencing, Brainstem, Hypothalamus, Cortex

Akhilesh B. Reddy
contact affiliation	Department of Systems Pharmacology & Translational Therapeutics, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA 19104, USA
contact email	areddy@cantab.net
lab head
Sandipan Ray
contact affiliation	University of Pennsylvania
contact email	sandipan.ray@cantab.net
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/2022/10/PXD018334

PRIDE project URI

• PRIDE
  1. PXD018334
     1. Label: PRIDE project
     2. Name: Single-cell transcriptomics and cell-specific proteomics reveals new molecular regulators of sleep