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Proteomics and bioinformatics approaches for the identification of plasma biomarkers to detect Parkinson's disease

The aim of the present study was to screen for biomarkers of Parkinson's disease (PD) using proteomics and bioinformatics approaches. PD patients were divided into three groups: Those without surgery (PD1 group); those who had undergone deep brain stimulation (DBS) surgery without electrode sti...

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Autores principales: Dong, Wenwen, Qiu, Chang, Gong, Dawei, Jiang, Xu, Liu, Wan, Liu, Weiguo, Zhang, Li, Zhang, Wenbin
Formato: Online Artículo Texto
Lenguaje:English
Publicado: D.A. Spandidos 2019
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6755458/
https://www.ncbi.nlm.nih.gov/pubmed/31572530
http://dx.doi.org/10.3892/etm.2019.7888
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author Dong, Wenwen
Qiu, Chang
Gong, Dawei
Jiang, Xu
Liu, Wan
Liu, Weiguo
Zhang, Li
Zhang, Wenbin
author_facet Dong, Wenwen
Qiu, Chang
Gong, Dawei
Jiang, Xu
Liu, Wan
Liu, Weiguo
Zhang, Li
Zhang, Wenbin
author_sort Dong, Wenwen
collection PubMed
description The aim of the present study was to screen for biomarkers of Parkinson's disease (PD) using proteomics and bioinformatics approaches. PD patients were divided into three groups: Those without surgery (PD1 group); those who had undergone deep brain stimulation (DBS) surgery without electrode stimulation (PD2 group); and those who had undergone DBS surgery with 1 month of electrode stimulation (PD3 group). The non-Parkinson control group (CK group) was also involved. Quantitative proteomic analysis of human sera was performed through the use of tandem mass tag markers and liquid chromatography-mass spectrometry (LC-MS)-based techniques. For the proteins with quantitative information, a systematic bioinformatics analysis was then performed, including protein annotation, functional classification, functional enrichment and cluster analysis based on functional enrichment. Of the 739 proteins identified, quantitative information was available for 644. With regard to differential expression, 18 upregulated and 21 downregulated proteins were screened in the PD1/CK comparison group; 12 upregulated and 12 downregulated proteins in the PD2/PD1 comparison group; and 16 upregulated and 19 downregulated proteins in the PD3/PD2 comparison group. Coiled-coil domain-containing protein 154 (CCDC154) and tripartite motif-containing protein 3 (TRIM3) were key proteins involved in the molecular mechanisms of PD, participating in intracellular vesicle, ubiquitin protein ligase and transition metal ion-binding activities. After DBS surgery, desert hedgehog protein (DHH) was downregulated, whereas neuropilin-2 (NRP2) was upregulated; these participated in the ensheathment of neurons and the semaphorin receptor complex, respectively. The expression level of chloride intracellular channel protein 1 (CLIC1) was increased after 1 month of electrode stimulation following DBS. By combining proteomic approaches and LC-MS methods, significant proteins including CCDC154, TRIM3, DHH, NRP2 and CLIC1 were detected with high specificity and sensitivity. These may be used as novel biomarkers for early diagnosis of PD and the future development of treatments.
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spelling pubmed-67554582019-09-30 Proteomics and bioinformatics approaches for the identification of plasma biomarkers to detect Parkinson's disease Dong, Wenwen Qiu, Chang Gong, Dawei Jiang, Xu Liu, Wan Liu, Weiguo Zhang, Li Zhang, Wenbin Exp Ther Med Articles The aim of the present study was to screen for biomarkers of Parkinson's disease (PD) using proteomics and bioinformatics approaches. PD patients were divided into three groups: Those without surgery (PD1 group); those who had undergone deep brain stimulation (DBS) surgery without electrode stimulation (PD2 group); and those who had undergone DBS surgery with 1 month of electrode stimulation (PD3 group). The non-Parkinson control group (CK group) was also involved. Quantitative proteomic analysis of human sera was performed through the use of tandem mass tag markers and liquid chromatography-mass spectrometry (LC-MS)-based techniques. For the proteins with quantitative information, a systematic bioinformatics analysis was then performed, including protein annotation, functional classification, functional enrichment and cluster analysis based on functional enrichment. Of the 739 proteins identified, quantitative information was available for 644. With regard to differential expression, 18 upregulated and 21 downregulated proteins were screened in the PD1/CK comparison group; 12 upregulated and 12 downregulated proteins in the PD2/PD1 comparison group; and 16 upregulated and 19 downregulated proteins in the PD3/PD2 comparison group. Coiled-coil domain-containing protein 154 (CCDC154) and tripartite motif-containing protein 3 (TRIM3) were key proteins involved in the molecular mechanisms of PD, participating in intracellular vesicle, ubiquitin protein ligase and transition metal ion-binding activities. After DBS surgery, desert hedgehog protein (DHH) was downregulated, whereas neuropilin-2 (NRP2) was upregulated; these participated in the ensheathment of neurons and the semaphorin receptor complex, respectively. The expression level of chloride intracellular channel protein 1 (CLIC1) was increased after 1 month of electrode stimulation following DBS. By combining proteomic approaches and LC-MS methods, significant proteins including CCDC154, TRIM3, DHH, NRP2 and CLIC1 were detected with high specificity and sensitivity. These may be used as novel biomarkers for early diagnosis of PD and the future development of treatments. D.A. Spandidos 2019-10 2019-08-14 /pmc/articles/PMC6755458/ /pubmed/31572530 http://dx.doi.org/10.3892/etm.2019.7888 Text en Copyright: © Dong et al. This is an open access article distributed under the terms of the Creative Commons Attribution-NonCommercial-NoDerivs License (https://creativecommons.org/licenses/by-nc-nd/4.0/) , which permits use and distribution in any medium, provided the original work is properly cited, the use is non-commercial and no modifications or adaptations are made.
spellingShingle Articles
Dong, Wenwen
Qiu, Chang
Gong, Dawei
Jiang, Xu
Liu, Wan
Liu, Weiguo
Zhang, Li
Zhang, Wenbin
Proteomics and bioinformatics approaches for the identification of plasma biomarkers to detect Parkinson's disease
title Proteomics and bioinformatics approaches for the identification of plasma biomarkers to detect Parkinson's disease
title_full Proteomics and bioinformatics approaches for the identification of plasma biomarkers to detect Parkinson's disease
title_fullStr Proteomics and bioinformatics approaches for the identification of plasma biomarkers to detect Parkinson's disease
title_full_unstemmed Proteomics and bioinformatics approaches for the identification of plasma biomarkers to detect Parkinson's disease
title_short Proteomics and bioinformatics approaches for the identification of plasma biomarkers to detect Parkinson's disease
title_sort proteomics and bioinformatics approaches for the identification of plasma biomarkers to detect parkinson's disease
topic Articles
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6755458/
https://www.ncbi.nlm.nih.gov/pubmed/31572530
http://dx.doi.org/10.3892/etm.2019.7888
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