Dataset Information

Ultra Deep Mouse cerebrospinal fluid (CSF) profiling in Alzheimer’s disease

ABSTRACT: 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.

INSTRUMENT(S): Q Exactive HF

ORGANISM(S): Mus Musculus (mouse)

TISSUE(S): Cerebrospinal Fluid

DISEASE(S): Alzheimer's Disease 3

SUBMITTER: Kaushik Dey

LAB HEAD: Junmin Peng

PROVIDER: PXD018658 | Pride | 2021-09-09

REPOSITORIES: pride

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Dataset's files

Source:

			Action	DRS
	Mouse_CSF_Fra_33.1.pepXML	Pepxml
	Mouse_CSF_Fra_33.mzXML	Mzxml
	Mouse_CSF_Fra_33.raw	Raw
	Mouse_CSF_Fra_34.1.pepXML	Pepxml
	Mouse_CSF_Fra_34.mzXML	Mzxml

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Publications

Integrated analysis of ultra-deep proteomes in cortex, cerebrospinal fluid and serum reveals a mitochondrial signature in Alzheimer's disease.

Wang Hong H Dey Kaushik Kumar KK Chen Ping-Chung PC Li Yuxin Y Niu Mingming M Cho Ji-Hoon JH Wang Xusheng X Bai Bing B Jiao Yun Y Chepyala Surendhar Reddy SR Haroutunian Vahram V Zhang Bin B Beach Thomas G TG Peng Junmin J

Molecular neurodegeneration 20200725 1

<h4>Background</h4>Based on amyloid cascade and tau hypotheses, protein biomarkers of different Aβ and tau species in cerebrospinal fluid (CSF) and blood/plasma/serum have been examined to correlate with brain pathology. Recently, unbiased proteomic profiling of these human samples has been initiated to identify a large number of novel AD biomarker candidates, but it is challenging to define reliable candidates for subsequent large-scale validation.<h4>Methods</h4>We present a comprehensive stra ...[more]

PMID: 32711556

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