Human cerebrospinal fluid data for use as spectral library, for biomarker research

Lukas M. Schilde; Simone Steinbach; Bettina Serschnitzki; Fabian Maass; Mathias Bähr; Paul Lingor; Katrin Marcus; Caroline May

doi:10.1016/j.dib.2020.106048

Human cerebrospinal fluid data for use as spectral library, for biomarker research

Lukas M. Schilde, Simone Steinbach, Bettina Serschnitzki, Fabian Maass, Mathias Bähr, Paul Lingor, Katrin Marcus, Caroline May

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Abstract

Spectral libraries generated by data dependent acquisition (DDA) are a useful tool for the analysis of data created by data independent acquisition (DIA) in mass spectrometry. The quality of DIA analysis is dependent on the quality of the spectral library. We used cerebrospinal fluid (CSF) of patients with Parkinson's disease and healthy controls to create a spectral library of human CSF proteome. To this date, there is no validated CSF biomarker for Parkinson's disease. This data set may therefore be valuable for the future analysis of CSF proteins. Part of the samples consisted of fractions that were separated by gel electrophoresis. After tryptic digestion, all samples were spiked with indexed retention time (iRT) peptides and were measured using a DDA mass spectrometry approach. The here provided data set can be used as a CSF-specific spectral library. Data files generated from the described workflow are hosted in the public repository ProteomeXchange under the identifier PXD013487.

Original language	English
Article number	106048
Journal	Data in Brief
Volume	32
DOIs	https://doi.org/10.1016/j.dib.2020.106048
State	Published - Oct 2020

Keywords

Cerebrospinal fluid
Data-independent acquisition
Mass spectrometry
Parkinson's disease
Proteomics
Spectral library

UN SDGs

This output contributes to the following UN Sustainable Development Goals (SDGs)

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10.1016/j.dib.2020.106048

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title = "Human cerebrospinal fluid data for use as spectral library, for biomarker research",

abstract = "Spectral libraries generated by data dependent acquisition (DDA) are a useful tool for the analysis of data created by data independent acquisition (DIA) in mass spectrometry. The quality of DIA analysis is dependent on the quality of the spectral library. We used cerebrospinal fluid (CSF) of patients with Parkinson's disease and healthy controls to create a spectral library of human CSF proteome. To this date, there is no validated CSF biomarker for Parkinson's disease. This data set may therefore be valuable for the future analysis of CSF proteins. Part of the samples consisted of fractions that were separated by gel electrophoresis. After tryptic digestion, all samples were spiked with indexed retention time (iRT) peptides and were measured using a DDA mass spectrometry approach. The here provided data set can be used as a CSF-specific spectral library. Data files generated from the described workflow are hosted in the public repository ProteomeXchange under the identifier PXD013487.",

keywords = "Cerebrospinal fluid, Data-independent acquisition, Mass spectrometry, Parkinson's disease, Proteomics, Spectral library",

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doi = "10.1016/j.dib.2020.106048",

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AU - Schilde, Lukas M.

AU - Steinbach, Simone

AU - Serschnitzki, Bettina

AU - Maass, Fabian

AU - Bähr, Mathias

AU - Lingor, Paul

AU - Marcus, Katrin

AU - May, Caroline

PY - 2020/10

Y1 - 2020/10

N2 - Spectral libraries generated by data dependent acquisition (DDA) are a useful tool for the analysis of data created by data independent acquisition (DIA) in mass spectrometry. The quality of DIA analysis is dependent on the quality of the spectral library. We used cerebrospinal fluid (CSF) of patients with Parkinson's disease and healthy controls to create a spectral library of human CSF proteome. To this date, there is no validated CSF biomarker for Parkinson's disease. This data set may therefore be valuable for the future analysis of CSF proteins. Part of the samples consisted of fractions that were separated by gel electrophoresis. After tryptic digestion, all samples were spiked with indexed retention time (iRT) peptides and were measured using a DDA mass spectrometry approach. The here provided data set can be used as a CSF-specific spectral library. Data files generated from the described workflow are hosted in the public repository ProteomeXchange under the identifier PXD013487.

AB - Spectral libraries generated by data dependent acquisition (DDA) are a useful tool for the analysis of data created by data independent acquisition (DIA) in mass spectrometry. The quality of DIA analysis is dependent on the quality of the spectral library. We used cerebrospinal fluid (CSF) of patients with Parkinson's disease and healthy controls to create a spectral library of human CSF proteome. To this date, there is no validated CSF biomarker for Parkinson's disease. This data set may therefore be valuable for the future analysis of CSF proteins. Part of the samples consisted of fractions that were separated by gel electrophoresis. After tryptic digestion, all samples were spiked with indexed retention time (iRT) peptides and were measured using a DDA mass spectrometry approach. The here provided data set can be used as a CSF-specific spectral library. Data files generated from the described workflow are hosted in the public repository ProteomeXchange under the identifier PXD013487.

KW - Cerebrospinal fluid

KW - Data-independent acquisition

KW - Mass spectrometry

KW - Parkinson's disease

KW - Proteomics

KW - Spectral library

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SN - 2352-3409

VL - 32

JO - Data in Brief

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ER -

Human cerebrospinal fluid data for use as spectral library, for biomarker research

Abstract

Keywords

UN SDGs

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