Comprehensive Bioinformatics Meta-Analysis of Coronary Artery Disease and Myocardial Infarction
Project by Polygence alum Rachana
Rachana wrote a research paper published in the pre-print Research Archive of Rising Scholars and submitted to the Journal of Emerging Investigators.
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Coronary Artery Disease (CAD) and Myocardial Infarction (MI) are the leading causes of mortality in the United States. Certain genes have been shown through bioinformatics analysis to be related to CAD and MI, but are not incorporated into USPSTF Guidelines. In this study, we aimed to create a model of diagnosis and prognosis in adult patients with coronary artery disease and myocardial infarction from ten diverse datasets, and also aimed to identify biological pathways, immune cells, and drugs related to CAD and MI to improve biological understanding of these conditions. Using the R MetaIntegrator Package and multiple datasets including the Gene Expression Omnibus, the Library of Integrated Network-Based Cellular Signatures, and Reactome, we analyzed data from ten datasets and found a high predictive value for patients with either CAD or MI. We also used the gene signatures generated through our original meta-analysis to identify significant biological pathways, which included oncogene induced senescence (p < 0.05) and neutrophil degranulation (p = 0.000275), significant drugs that could be potential treatments for CAD or MI, which included enzalutamide (r = -0.5464015, p = 3.043318e-08, FDR = 3.800495e-05) and ibutilide (r = -0.5209267, p = 1.663780e-07, FDR = 9.198588e-05), and significant immune cells using immune cell deconvolution, which included natural killer cells. We conclude that through these results, we have created a more biologically heterogeneous gene signature and meta-analysis to predict diagnosis and prognosis in patients with CAD and MI, and found new biological pathways, drugs, and immune cells that can be used to improve understanding of the conditions and treat them.
PhD Doctor of Philosophy candidate
Computer Science, Biology, Quantitative
Bioinformatics, AI/ML, Genomics, Statistics
Review of mentor
My mentor walked me through the steps individually to conduct my research and was patient in teaching me the specific statistical and computational skills needed to complete this project significantly. He also has spent countless hours running code I have had errors with, suggested new ideas to make my research more unique and impactful, and edited my writing multiple times in preparation for submitting to science competitions and journals.