PXD018658 is an
original dataset announced via ProteomeXchange.
Dataset Summary
Title | Ultra Deep Mouse cerebrospinal fluid (CSF) profiling in 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. 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. |
HostingRepository | PRIDE |
AnnounceDate | 2021-09-09 |
AnnouncementXML | Submission_2021-09-09_00:24:30.554.xml |
DigitalObjectIdentifier | |
ReviewLevel | Peer-reviewed dataset |
DatasetOrigin | Original dataset |
RepositorySupport | Unsupported dataset by repository |
PrimarySubmitter | Kaushik Dey |
SpeciesList | scientific name: Mus musculus (Mouse); NCBI TaxID: 10090; |
ModificationList | monohydroxylated residue; iodoacetamide derivatized residue |
Instrument | Q Exactive HF |
Dataset History
Revision | Datetime | Status | ChangeLog Entry |
0 | 2020-04-19 09:51:19 | ID requested | |
⏵ 1 | 2021-09-09 00:24:31 | announced | |
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 affiliation | Junmin 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 email | Junmin.peng@STJUDE.ORG |
lab head | |
Kaushik Dey |
contact affiliation | Postdoctoral 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 email | kaushik1011@gmail.com |
dataset submitter | |
Full Dataset Link List
Dataset FTP location
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PRIDE project URI |
Repository Record List
[ + ]
[ - ]
- PRIDE
- PXD018658
- Label: PRIDE project
- Name: Ultra Deep Mouse cerebrospinal fluid (CSF) profiling in Alzheimer’s disease