Encyclopedic Reference of Genomics and Proteomics in Molecular Medicine

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There are no discussion topics on this book yet. About Detlev Ganten. Detlev Ganten. Books by Detlev Ganten. Trivia About Encyclopedic Refe As a result, altering the abnormal expression of these genes in ND patients bares the potential to help reverse diseases. Here, Met-express has provided a pool of candidate genes that are of potential value for further therapeutic investigations. Using Met-express, which integrates gene coexpression network and the enzyme network to find key enzyme-coding genes for diseases, we identified 69 and 50 key enzyme-coding genes for Parkinson's disease and Huntington's disease, respectively.

Comparison between the functional analyses of the predicted genes indicated that there might be some common pathogenic metabolic pathways for NDs.

The predicted genes for PD had a significant overlap with the annotated enzymes in DrugBank. Moreover, predicted genes for PD and HD both showed significantly closer association with known disease genes from DrugBank, HGMD, and other databases than random as evaluated by the mean shortest path lengths. Some of the identified key genes have been reported to be important in the disease-related processes by previous publications. Some novel findings showed potential in influencing pathways that are important in NDs. Thus, application of Met-express to NDs can provide candidates for disease biomarkers and may help with the further research of the etiology, pathology, and therapy of these diseases.

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The authors declare that there is no conflict of interests regarding to the publication of this paper. Weidong Tian conceived the idea. Qi Ni and Xianming Su conducted the data analysis and drafted the paper. Jingqi Chen helped with the data analysis. Weidong Tian and Jingqi Chen helped in revising the paper.

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Proteomics in ageing.

Qi Ni and Xianming Su contributed equally to the work. National Center for Biotechnology Information , U. Journal List Biomed Res Int v. Biomed Res Int. Published online May 3. Author information Article notes Copyright and License information Disclaimer. Received Sep 7; Accepted Nov This is an open access article distributed under the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.

This article has been cited by other articles in PMC.

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Supplementary Table 2: The predicted key enzyme-coding genes of each disease. Introduction Neurodegenerative diseases NDs , such as Parkinson's disease PD and Huntington's disease HD , occur as a result of progressive loss of structure or function of neurons [ 1 ].

Materials and Methods 2. Met-Express Procedure We followed the procedures as Chen et al. Functional Association Test To test the connection between our predicted key enzyme-coding genes and known disease genes in database, we calculated the shortest path lengths between each pair of genes in a functional association network, specifically the FunCoup [ 15 ] network. Results and Discussion 3. A Brief Introduction of Met-Express Met-express is a published method originally applied to cancer expression data.

Open in a separate window. Figure 1. Application of Met-Express to Predict Key Enzyme-Coding Genes in Neurodegenerative Diseases We constructed a metabolic network with enzyme-coding genes and then applied Met-express to predict key enzyme-coding genes in each of the selected ND datasets. Figure 2. Figure 3. Table 1 Predicted enzyme-coding genes with top 10 closest mean shortest paths to known disease genes.

Discussion Met-express integrates gene coexpression network with metabolic network to predict the primary enzyme-coding genes that may be critical for the development of NDs. Conclusions Using Met-express, which integrates gene coexpression network and the enzyme network to find key enzyme-coding genes for diseases, we identified 69 and 50 key enzyme-coding genes for Parkinson's disease and Huntington's disease, respectively.

Click here to view. Conflict of Interests The authors declare that there is no conflict of interests regarding to the publication of this paper. Authors' Contribution Weidong Tian conceived the idea. References 1. Ross C. Protein aggregation and neurodegenerative disease.

Nature Medicine. National Collaborating Centre for Chronic Conditions. Baptista M. Berlin, Germany: Springer; Parkinson's Disease: Insights from Genetic Causes; pp. Walker F. Huntington's disease. The Lancet. Wieczorek S. Huntington's disease; pp. Kincses Z. Pharmacological therapy in Parkinson's disease: focus on neuroprotection. CNS Neuroscience and Therapeutics. Bae E. Exner N. Campbell A. Inflammation, neurodegenerative diseases, and environmental exposures.

Annals of the New York Academy of Sciences. Ischiropoulos H. Oxidative stress and nitration in neurodegeneration: cause, effect, or association? The Journal of Clinical Investigation. Grimm S. Protein oxidative modifications in the ageing brain: consequence for the onset of neurodegenerative disease.

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