James Denvir, PhD
Phone: (304) 696-7327
Advances in technology, combined with new discoveries at the molecular level, have significantly changed the nature of biomedical research during the past two decades. New tools give investigators the opportunity to perform experiments that generate many millions of data points. Developments in our understanding of molecular mechanisms of gene expression – for example, in actions of microRNA and in epigenetic modification – have both provided new methods of experimental analysis and added to the complexity of our understanding of the molecular basis of biological function. In pursuing the understanding of complex disease, its prevention, and treatment, we typically address several different questions: Are there genetic signatures that predispose individuals to the disease? Are there environmental factors that alter gene expression in such a way as to increase an individual’s risk of disease, and if so, what is the molecular mechanism of this increased risk? Once an individual contracts a disease, what is the mechanism of progression of the disease? The ultimate aims of the research are to use answers to these interrelated questions to develop prognostic tests, interventions, and behavioral modifications to prevent, slow progression of, and treat the disease.
Due to the complexity of these questions, and of the data generated in answering them, it is no longer feasible to achieve these aims by addressing them from the perspective of a single field of research. Consequently, we need teams of collaborative researchers with expertise in their own fields and the ability to communicate and collaborate with those outside of their fields of research.
My role in this research is as a biostatistician and bioinformaticist. As a collaborative researcher, I aim to maintain a full understanding of current statistical techniques, to determine which of those techniques are best applied to problems presented by the generation of data from biomedical research, to maintain the technical skills to perform those analyses, and to present and communicate the results to the research community at large. A key aspect to this collabortive research, is the ability to communicate with researchers outside one’s own field; both in terms of understanding the research being performed in the lab, and in terms of being able to explain the choices behind the analyses being used and their results. On occasion, it may be necessary to develop novel statistical techniques in order to perform the analyses required for a particular project.
I am specifically interested in research in complex disease, including cancer and cardiovascular disease. My interest stems both from an “applied” perspective (these are diseases in which our understanding and consequently our abilities to provide treatment have the greatest potential for further progress), and from a “theoretical” perspective (the mathematical relationships between the various causes of the disease and its manifestation are intellectually appealing to me). My particular expertise is in the application of multiple hypothesis testing procedures to high-throughput genomic data. I am interested in the future to combine different sources of genomic data (such as sequence data, gene expression data, microRNA expression data, methylation data, and proteomic data) to achieve a more global understanding of the molecular mechanisms of disease. At the clinical level, this translates to pursuing a unified understanding of the interaction of “traditional” genomics with the molecular effects of environment and its effect on disease.
Mitochondrial oxidative phosphorylation is impaired in TALLYHO mice, a new obesity and type 2 diabetes animal model. Hunter CA, Kartal F, Koc ZC, Murphy T, Kim JH, Denvir J, Koc EC. Biochem Cell Biol. 2019 Nov;116:105616. doi: 10.1016/j.biocel.2019.105616. Epub 2019 Sep 19.
mRNA expression data in breast cancers before and after consumption of walnut by women. Elaine Hardman W, Primerano DA, Legenza MT, Morgan J, Fan J, Denvir J. 2019 Aug;25:104050. doi: 10.1016/j.dib.2019.104050. eCollection 2019 Aug.
Dietary walnut altered gene expressions related to tumor growth, survival, and metastasis in breast cancer patients: a pilot clinical trial. Hardman WE, Primerano DA, Legenza MT, Morgan J, Fan J, Denvir J. Nutr Res. 2019 Jun;66:82-94. doi: 10.1016/j.nutres.2019.03.004. Epub 2019 Mar 10.
Cytokine Regulation in Human CD4 T Cells by the Aryl Hydrocarbon Receptor and Gq-Coupled Receptors. McAleer JP, Fan J, Roar B, Primerano DA, Denvir J. Sci Rep. 2018 Jul 19;8(1):10954. doi: 10.1038/s41598-018-29262-4.
Genomic Analysis of Demographic History and Ecological Niche Modeling in the Endangered Sumatran Rhinoceros Dicerorhinus sumatrensis. Mays HL Jr, Hung CM, Shaner PJ, Denvir J, Justice M, Yang SF, Roth TL, Oehler DA, Fan J, Rekulapally S, Primerano DA. Curr Biol. 2018 Jan 8;28(1):70-76.e4. doi: 10.1016/j.cub.2017.11.021. Epub 2017 Dec 14.
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