PXD007160-3

PXD007160 is an original dataset announced via ProteomeXchange.

Title	Global quantitative analysis of the human brain proteome in Alzheimer’s and Parkinson’s Disease
Description	Patients with Alzheimer’s disease (AD) and Parkinson disease (PD) often have overlap in brain neuropathology and clinical presentation suggesting that these two diseases share common underlying mechanisms. Currently, the molecular events linking AD and PD are incompletely understood. Utilizing 10-plex Tandem Mass Tag (TMT) assays and MultiNotch MS3 mass spectrometry, we performed an unbiased quantitative proteomic analysis of post-mortem human brain tissues (n=80) from four different groups defined as healthy controls, AD, PD, and co-morbid AD/PD cases across two brain regions (frontal cortex and anterior cingulate gyrus). In total, we identified 11,840 protein groups representing 10,230 gene symbols, which map to ~65% of the protein coding genes in brain. The utility of including two reference standards in each TMT 10-plex assay to assess intra-batch and inter-batch variance is also described. Ultimately, this comprehensive human brain proteomic dataset serves as a valuable resource for various research endeavors including, but not limited to, the identification of protein signatures and neuro-centric signaling pathways that are common or distinct in AD and PD.
HostingRepository	PRIDE
AnnounceDate	2024-10-22
AnnouncementXML	Submission_2024-10-22_04:29:00.790.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Duc Duong
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	monohydroxylated residue; iodoacetamide derivatized residue; deamidated residue
Instrument	Orbitrap Fusion

Revision	Datetime	Status	ChangeLog Entry
0	2017-07-31 06:57:02	ID requested
1	2018-02-09 11:43:02	announced
2	2019-02-12 08:35:46	announced	Updated publication reference for PubMed record(s): 29533394.
⏵ 3	2024-10-22 04:29:02	announced	2024-10-22: Updated project metadata.

10.1038/sdata.2018.36;

Ping L, Duong DM, Yin L, Gearing M, Lah JJ, Levey AI, Seyfried NT, Global quantitative analysis of the human brain proteome in Alzheimer's and Parkinson's Disease. Sci Data, 5():180036(2018) [pubmed]

curator keyword: Biological, Biomedical

submitter keyword: Brain, TMT, Human, SPS, Parkinson's ,Alzheimer's, LC-MS/MS

Nicholas Seyfried
contact affiliation	Emory University School of Medicine Biochemistry Department
contact email	nseyfri@emory.edu
lab head
Duc Duong
contact affiliation	Center of Neurodegenerative Diseases
contact email	dduong@emory.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/2018/02/PXD007160

PRIDE project URI

• PRIDE
  1. PXD007160
     1. Label: PRIDE project
     2. Name: Global quantitative analysis of the human brain proteome in Alzheimer’s and Parkinson’s Disease