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Small non-coding RNA profiling across cellular and biofluid compartments and their implications for multiple sclerosis immunopathology

SND-ID: SND 1150

Creator/Principal investigator(s)

Galina Zheleznyakova - Karolinska Institutet, Department of Clinical Neuroscience

Eliane Piket - Karolinska Institutet, Department of Clinical Neuroscience

Maria Needhamsen - Karolinska Institutet, Department of Clinical Neuroscience

Maja Jagodic - Karolinska Institutet, Department of Clinical Neuroscience

Description

To improve our understanding of MS pathology and heterogeneity and provide new strategies for biomarkers and treatments development we carried out a genome-wide small non-coding RNA analysis. The analysis was performed in paired peripheral blood mononuclear cells, plasma, cerebrospinal fluid (CSF) cells and cell-free CSF from 29 MS patients and 16 controls using next-generation sequencing. We aimed to detect differentially expressed small non-coding RNAs between MS and controls. The data contains unique molecular identifier (UMI) count information for each transcript.

Language

English

Research principal, contributors, and funding

Research principal

Karolinska Institutet

Responsible department/unit

Department of Clinical Neuroscience

Contributor(s)

Tomas Olsson - Karolinska Institutet, Department of Clinical Neuroscience

Faiez Al Nimer - Karolinska Institutet, Department of Clinical Neuroscience

Patrick Scicluna - Karolinska Institutet, Department of Clinical Neuroscience

Omid Faridani - Karolinska Institutet, Ludwig Institute for Cancer Research

Michael Hagemann-Jensen - Karolinska Institutet, Ludwig Institute for Cancer Research

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Funding 1

  • Funding agency: Swedish Research Council

Funding 2

  • Funding agency: Swedish MS Foundation

Funding 3

  • Funding agency: Swedish Society for Medical Research

Funding 4

  • Funding agency: AstraZeneca-Science for Life Laboratory collaboration

Funding 5

  • Funding agency: Stockholm County Council
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Protection and ethical review

Data contains personal data

No

Ethics Review

Stockholm - Ref. 2009/2107-31/2

Method and time period

Unit of analysis

Population

Multiple Sclerosis patients (29), non-inflammatory neurological disease patients (11), Systemic lupus erythematosus patients (5)

Study design

Observational study

Description of study design

Small non-coding RNAs were isolated from PBMC, plasma, CSF cells and CSF. The libraries were prepared as previously described (PMID: 27798564) and sequenced on two lanes of HiSeq2500. The data analysis was performed as previously described (PMID: 27798564).

Sampling procedure

Non-probability

Biobank is connected to the study

Yes

Geographic coverage

Geographic spread

Geographic location: Sweden, Stockholm County, Stockholm Municipality

Topic and keywords

Research area

Medical and Health Sciences (The Swedish standard of fields of research 2011)

Keywords

multiple sclerosis, multiple sclerosis, relapsing-remitting, small non-coding rna analysis, multiple sclerosis, secondary-progressive

Publications

Profiling of small non-coding RNAs across cellular and biofluid compartments: implications for multiple sclerosis immunopathology. Galina Yurevna Zheleznyakova, Eliane Piket, Maria Needhamsen, Michael Hagemann-Jensen, Diana Ekman, Mohsen Khademi, Faiez Al Nimer, Patrick Scicluna, Omid R Faridani, Tomas Olsson, Fredrik Piehl, Maja Jagodic. Deposited on bioRxiv. https://www.biorxiv.org/content/10.1101/2020.05.15.097519v1
DOI: https://doi.org/10.1101/2020.05.15.097519

If you have published anything based on these data, please notify us with a reference to your publication(s). If you are responsible for the catalogue entry, you can update the metadata/data description in DORIS.

Dataset
Small non-coding RNA profiling across cellular and biofluid compartments and their implications for multiple sclerosis immunopathology

Description

The small non-coding RNA analysis was performed in paired peripheral blood mononuclear cells, plasma, cerebrospinal fluid (CSF) cells and cell-free CSF from 29 MS patients and 16 controls using next-generation sequencing. One INDC control was missing a CSF cell and cell-free CSF sample and one NINDC control was missing a PBMC and plasma sample.
Small non-coding RNAs were isolated from 300 ul of plasma or CSF using the miRCURY RNA isolation kit for biofluids (Exiqon, Denmark) or from CSF cells an

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Version 1.0

Citation

Galina Zheleznyakova, Eliane Piket, Maria Needhamsen, Maja Jagodic. Karolinska Institutet (2021). Small non-coding RNA profiling across cellular and biofluid compartments and their implications for multiple sclerosis immunopathology. Swedish National Data Service. Version 1.0. https://doi.org/10.5878/c1mq-9r62

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Data format / data structure

Numeric

Text

Creator/Principal investigator(s)

Galina Zheleznyakova - Karolinska Institutet, Department of Clinical Neuroscience

Eliane Piket - Karolinska Institutet, Department of Clinical Neuroscience

Maria Needhamsen - Karolinska Institutet, Department of Clinical Neuroscience

Maja Jagodic - Karolinska Institutet, Department of Clinical Neuroscience

Data collection

  • Mode of collection: Focus group
  • Source of the data: Biological samples

Variables

4

Number of individuals/objects

176

Published: 2021-04-08
Last updated: 2021-04-09