PXD011482

PXD011482 is an original dataset announced via ProteomeXchange.

Title	Deep undepleted human serum proteome profiling toward biomarker discovery for Alzheimer’s disease
Description	Alzheimer's disease (AD) is a neurodegenerative disease, the most common cause of dementia in elderly persons. Accumulation of amyloid plaques in the brain is a characteristic of AD. The requirements for a biomarker include the ability to measure a pathologic process, predict outcome, distinguish disease or measure a pharmacological response to a drug treatment or therapeutic intervention. However, there are no reliable blood based biomarkers for AD. Serum-based protein measurement is a routine practice for biomarkers in human disease, but comprehensive profiling of serum proteome is often masked by the twenty most abundant proteins and impacted by large dynamic range. The commonly used depletion method can alleviate the challenge but introduce additional experimental variation. Here we present a deep analysis of un-depleted human serum proteome by combining 11-plex TMT labeling, exhaustive 2D liquid chromatography fractionation, and high resolution tandem mass spectrometry. This platform is capable of identifying 4,500 protein components, covering 6 orders of dynamic range, representing one of the deepest serum proteome datasets. Finally, a subset of proteins, show statistically significant difference between AD and control samples, which may serve as biomarker candidates.
HostingRepository	PRIDE
AnnounceDate	2019-04-23
AnnouncementXML	Submission_2019-05-14_07:24:40.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	xusheng wang
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	monohydroxylated residue; iodoacetamide derivatized residue
Instrument	Q Exactive

Revision	Datetime	Status	ChangeLog Entry
0	2018-10-26 03:36:54	ID requested
1	2019-04-23 03:59:04	announced
⏵ 2	2019-05-14 07:24:45	announced	Updated publication reference for PubMed record(s): 31019427.

Dey KK, Wang H, Niu M, Bai B, Wang X, Li Y, Cho JH, Tan H, Mishra A, High AA, Chen PC, Wu Z, Beach TG, Peng J, Deep undepleted human serum proteome profiling toward biomarker discovery for Alzheimer's disease. Clin Proteomics, 16():16(2019) [pubmed]

submitter keyword: Alzheimer’s disease, biomarker, human blood, plasma, serum, mass spectrometry, proteomics, proteome, tandem mass tag

Junmin Peng
contact affiliation	St. Jude Children's Research Hospital
contact email	junmin.peng@stjude.org
lab head
xusheng wang
contact affiliation	Proteomics
contact email	xushengwang78@gmail.com
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD011482
     1. Label: PRIDE project
     2. Name: Deep undepleted human serum proteome profiling toward biomarker discovery for Alzheimer’s disease