PXD020296

PXD020296 is an original dataset announced via ProteomeXchange.

Title	Global quantitative analysis of the human brain proteome and phosphoproteome in Alzheimer’s diseaseGlobal quantitative analysis of the human brain proteome and phosphoproteome in Alzheimer’s disease
Description	Alzheimer’s disease (AD) is characterized by an early, asymptomatic phase (AsymAD) in which individuals exhibit amyloid-beta (Aβ) plaque accumulation in the absence of clinically detectable cognitive decline. Here we report an unbiased multiplex quantitative proteomic and phosphoproteomic analysis using tandem mass tag (TMT) isobaric labeling of human post-mortem cortex (n=27) across pathology-free controls, AsymAD and symptomatic AD individuals. With off-line high-pH fractionation and liquid chromatography coupled to tandem mass spectrometry (LC-MS/MS) on an Orbitrap Lumos mass spectrometer, we identified 11,378 protein groups across three TMT 11-plex batches. Immobilized metal affinity chromatography (IMAC) was used to enrich for phosphopeptides from the same TMT-labeled cases and 51,736 phosphopeptides were identified. Of these, 48,992 were quantified by TMT reporter ions representing 33,652 unique phosphosites. Two reference standards in each TMT 11-plex were included to assess intra- and inter-batch variance at the protein and peptide level. This comprehensive human brain proteome and phosphoproteome dataset will serve as a valuable resource for the identification of biochemical, cellular and signaling pathways altered during AD progression.
HostingRepository	PRIDE
AnnounceDate	2020-09-16
AnnouncementXML	Submission_2020-09-16_07:30:56.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	phosphorylated residue
Instrument	Orbitrap Fusion Lumos

Revision	Datetime	Status	ChangeLog Entry
0	2020-07-09 23:00:37	ID requested
⏵ 1	2020-09-16 07:30:56	announced

Dataset with its publication pending

submitter keyword: LC MS/MS, IMAC, TMT, Brain, Alzheimer's

Nicholas Seyfried
contact affiliation	Emory Biochemistry and Center for Neurodegenerative Diseases
contact email	nseyfri2@emory.edu
lab head
Duc Duong
contact affiliation	Center of Neurodegenerative Diseases
contact email	dduong@emory.edu
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD020296
     1. Label: PRIDE project
     2. Name: Global quantitative analysis of the human brain proteome and phosphoproteome in Alzheimer’s diseaseGlobal quantitative analysis of the human brain proteome and phosphoproteome in Alzheimer’s disease