PXD030142

PXD030142 is an original dataset announced via ProteomeXchange.

Title	Single-cell transcriptomic and proteomic analysis of Parkinson’s disease brains
Description	Parkinson’s disease (PD) is a common neurodegenerative disorder where recent evidence suggests may be mediated by inflammatory processes. The molecular architecture of the disease remains to be elucidated. We performed single-nucleus transcriptomics and unbiased proteomics using postmortem tissue obtained from the prefrontal cortex of 12 individuals with late-stage PD and age-matched controls. We analyzed ~80,000 nuclei and identified eight major cell types, including brain-resident T cells, each with distinct transcriptional changes in line with the known genetics of PD. By analyzing Lewy body pathology in the same tissue, we determined that α-synuclein pathology is inversely correlated to chaperone expression in excitatory neurons. Examining cell-cell interactions, we found a selective abatement of neuron-astrocyte interactions and enhanced neuroinflammation. Proteomic analyses of the same brains identified synaptic proteins that were preferentially negatively impacted in PD. Strikingly, comparing this dataset to a similar published analysis for Alzheimer’s disease (AD), we found no common, differentially expressed genes in neurons, but identified many in glial cells, suggesting that disease etiology in PD and AD are distinct. These data are presented as a resource for interrogating the molecular and cellular basis of PD and other neurodegenerative diseases.
HostingRepository	PRIDE
AnnounceDate	2024-09-11
AnnouncementXML	Submission_2024-09-11_13:02:06.131.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	TuKiet Lam
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	phosphorylated residue; acetylated residue; monohydroxylated residue; deamidated residue; iodoacetamide derivatized residue
Instrument	Orbitrap Fusion

Revision	Datetime	Status	ChangeLog Entry
0	2021-12-02 09:42:48	ID requested
⏵ 1	2024-09-11 13:02:06	announced

Dataset with its publication pending

submitter keyword: post-mortem brain tissue,Parkinson's Disease, Prefrontal Cortex

TuKiet Lam
contact affiliation	Keck MS & Proteomics Resource MBB Department Yale University
contact email	tukiet.lam@yale.edu
lab head
TuKiet Lam
contact affiliation	Yale University
contact email	tukiet.lam@yale.edu
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD030142
     1. Label: PRIDE project
     2. Name: Single-cell transcriptomic and proteomic analysis of Parkinson’s disease brains