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Jones, D. P.

Publications and source records attributed to Jones, D. P..

2 recordsLinked to original sources

Levodopa and dopamine dynamics in Parkinson’s disease metabolomics

Parkinsons disease (PD) is a progressive neurological disorder caused by a combination of genetic and environmental factors. Metabolomics is a powerful tool that can be used to screen for potential biomarkers, exogenous toxicants, and metabolic network changes associated with disease states. Here, we used high-resolution metabolomics to compare over 10,000 plasma metabolic features from older adults with and without PD in an untargeted approach. We performed a network analysis that demonstrates that the presence of the PD drug levodopa influences variation observed between PD and control patients. Metabolome wide association studies and discrimination analysis identified significant differentiation in the metabolomics profile of older adults with and without PD. Notably, 15 metabolic features (ten of which we putatively identified) differed between PD and control adults with p < 0.05 and a corrected false discovery rate less than 20%. Furthermore, 13 metabolic networks were identified to be functionally different between PD and non-PD patients. Lastly, the dopaminergic toxic intermediate DOPAL differed between PD and non-PD populations, which supports the dopaminergic sequestration model of PD. These individual metabolites and metabolic networks have been implicated in past PD pathogenesis models, including the beta-carboline harmalol and the glycosphingolipid metabolism pathway including the ganglioside GM2. We recommend that future studies take into account the confounding effects of levodopa in metabolomic analyses of disease versus control patients, and encourage validation of several promising metabolic markers of PD.

neuroscience

xMWAS: an R package for data-driven integration and differential network analysis

SummaryIntegrative omics is a central component of most systems biology studies. Computational methods are required for extracting meaningful relationships across different omics layers. Various tools have been developed to facilitate integration of paired heterogenous omics data; however most existing tools allow integration of only two omics datasets. Further-more, existing data integration tools do not incorporate additional steps of identifying sub-networks or communities of highly connected entities and evaluating the topology of the integrative network under different conditions. Here we present xMWAS, an R package for data integration, network visualization, clustering, differential network analysis of data from biochemical and phenotypic assays, and two or more omics platforms.\n\nAvailabilityhttps://sourceforge.net/projects/xmwas/\n\nContactkuppal2@emory.edu

bioinformatics