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PXD009646

PXD009646 is an original dataset announced via ProteomeXchange.

Dataset Summary
TitleDeep Dive in the Proteome of Human Cerebrospinal Fluid: A Valuable Data Resource for Biomarker Discovery and Missing Protein Identification
DescriptionCerebrospinal fluid (CSF) is a body fluid of choice for biomarker studies of brain disorders but remains relatively under-studied compared to other biological fluids such as plasma, partly due to the more invasive means of its sample collection. The present study establishes an in-depth CSF proteome through the analysis of a unique CSF sample from a pool of healthy donors. After immuno-affinity depletion, the CSF sample was fractionated using off-gel electrophoresis and analyzed with liquid chromatography tandem mass spectrometry (MS) using the latest generation of hybrid Orbitrap mass spectrometers. The shotgun proteomic analysis allowed the identification of 20689 peptides mapping on 3379 proteins. To the best of our knowledge, the obtained dataset constitutes the largest CSF proteome published so far. Among the CSF proteins identified, 34% correspond to genes defined as elevated in the brain by The Human Protein Atlas. The principal Alzheimer disease biomarkers (e.g., tau protein, amyloid-β, apolipoprotein E and neurogranin) were detected. Importantly, our dataset significantly contributes to the Chromosome-Centric Human Proteome Project (C-HPP), and 13 proteins considered as missing are proposed for validation in accordance with the HPP guidelines.
HostingRepositoryPRIDE
AnnounceDate2018-08-29
AnnouncementXMLSubmission_2018-08-29_03:49:18.xml
DigitalObjectIdentifierhttp://dx.doi.org/10.6019/PXD009646
ReviewLevelPeer-reviewed dataset
DatasetOriginOriginal dataset
RepositorySupportSupported dataset by repository
PrimarySubmitterCharlotte Macron
SpeciesList scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationListAmmonia-loss; Deamidated; TMT6plex; Dehydrated; Oxidation; Acetyl; Carbamidomethyl
InstrumentLTQ Orbitrap Elite
Dataset History
RevisionDatetimeStatusChangeLog Entry
02018-05-02 03:34:44ID requested
12018-08-29 03:49:19announced
Publication List
Macron C, Lane L, Núñez Galindo A, Dayon L, Deep Dive on the Proteome of Human Cerebrospinal Fluid: A Valuable Data Resource for Biomarker Discovery and Missing Protein Identification. J Proteome Res, 17(12):4113-4126(2018) [pubmed]
Keyword List
curator keyword: Biological
submitter keyword: augurin
brain
cerebrospinal fluid
Human Proteome Project
mass spectrometry
proteomics
missing proteins
tandem mass tag
Contact List
Loïc Dayon
contact affiliationProteomics Team Leader, Nestlé Institute of Health Sciences SA
contact emailLoic.Dayon@rd.nestle.com
lab head
Charlotte Macron
contact affiliationNIHS
contact emailcharlotte.macron@rd.nestle.com
dataset submitter
Full Dataset Link List
Dataset FTP location
PRIDE project URI
Repository Record List
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