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PXD018658

PXD018658 is an original dataset announced via ProteomeXchange.

Dataset Summary
TitleUltra Deep Mouse cerebrospinal fluid (CSF) profiling in Alzheimer’s disease
DescriptionAlzheimer'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. CSF-based protein measurement can be used as a practice for biomarkers in human disease, but comprehensive profiling of Mouse CSF 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 CSF proteome by combining 11-plex TMT labeling, exhaustive 2D liquid chromatography fractionation, and high resolution tandem mass spectrometry. This platform is capable of identifying 1056 protein components, covering 6 orders of dynamic range, representing one of the proteome datasets. Finally, a subset of proteins, show statistically significant difference between AD and control samples, which may serve as biomarker candidates for the AD when further correlation can be drawn from the human proteome.
HostingRepositoryPRIDE
AnnounceDate2021-09-09
AnnouncementXMLSubmission_2021-09-09_00:24:30.554.xml
DigitalObjectIdentifier
ReviewLevelPeer-reviewed dataset
DatasetOriginOriginal dataset
RepositorySupportUnsupported dataset by repository
PrimarySubmitterKaushik Dey
SpeciesList scientific name: Mus musculus (Mouse); NCBI TaxID: 10090;
ModificationListmonohydroxylated residue; iodoacetamide derivatized residue
InstrumentQ Exactive HF
Dataset History
RevisionDatetimeStatusChangeLog Entry
02020-04-19 09:51:19ID requested
12021-09-09 00:24:31announced
Publication List
Wang H, Dey KK, Chen PC, Li Y, Niu M, Cho JH, Wang X, Bai B, Jiao Y, Chepyala SR, Haroutunian V, Zhang B, Beach TG, Peng J, Integrated analysis of ultra-deep proteomes in cortex, cerebrospinal fluid and serum reveals a mitochondrial signature in Alzheimer's disease. Mol Neurodegener, 15(1):43(2020) [pubmed]
Keyword List
submitter keyword: Alzheimer’s disease, biomarker, Mouse, CSF, mass spectrometry, proteomics, proteome, tandem mass tag
Contact List
Junmin Peng
contact affiliationJunmin Peng, PhD, Member (Professor) Structural Biology & Developmental Neurobiology Director, Center for Proteomics and Metabolomics St. Jude Children's Research Hospital 262 Danny Thomas Place Memphis, TN 38105-3678
contact emailJunmin.peng@STJUDE.ORG
lab head
Kaushik Dey
contact affiliationPostdoctoral Research Associate Department  Of  Structural Biology Mail Stop 311, Lab No: D1046 St. Jude Children's Research Hospital 262 Danny Thomas Place Memphis, TN 38105-3678
contact emailkaushik1011@gmail.com
dataset submitter
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