Systems Genomics Evaluation of the SH-SY5Y Neuroblastoma Cell Line As a Model for Parkinson's Disease

Overview

Journal BMC Genomics

Publisher Biomed Central

Specialty Genetics

Date 2014 Dec 22

PMID 25528190

Citations 64

Authors

Abhimanyu Krishna

Maria Biryukov

Christophe Trefois

Paul M A Antony

Rene Hussong

Jake Lin

Merja Heinaniemi

Gustavo Glusman

Sandra Koglsberger

Olga Boyd

Bart H J van den Berg

Dennis Linke

David Huang

Kai Wang

Leroy Hood

Andreas Tholey

Reinhard Schneider

David J Galas

Rudi Balling

Patrick May

Affiliations

Soon will be listed here.

Abstract

Background: The human neuroblastoma cell line, SH-SY5Y, is a commonly used cell line in studies related to neurotoxicity, oxidative stress, and neurodegenerative diseases. Although this cell line is often used as a cellular model for Parkinson's disease, the relevance of this cellular model in the context of Parkinson's disease (PD) and other neurodegenerative diseases has not yet been systematically evaluated.

Results: We have used a systems genomics approach to characterize the SH-SY5Y cell line using whole-genome sequencing to determine the genetic content of the cell line and used transcriptomics and proteomics data to determine molecular correlations. Further, we integrated genomic variants using a network analysis approach to evaluate the suitability of the SH-SY5Y cell line for perturbation experiments in the context of neurodegenerative diseases, including PD.

Conclusions: The systems genomics approach showed consistency across different biological levels (DNA, RNA and protein concentrations). Most of the genes belonging to the major Parkinson's disease pathways and modules were intact in the SH-SY5Y genome. Specifically, each analysed gene related to PD has at least one intact copy in SH-SY5Y. The disease-specific network analysis approach ranked the genetic integrity of SH-SY5Y as higher for PD than for Alzheimer's disease but lower than for Huntington's disease and Amyotrophic Lateral Sclerosis for loss of function perturbation experiments.

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FABP5-binding lipids regulate autophagy in differentiated SH-SY5Y cells.

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