With training in both Computer Science and Biology, my primary interests are the study of human-associated microbial communities as they relate to health and disease, and the development and validation of improved visualization and analysis software necessary to further such analyses. I have significant experience studying microbial systems, Next Generation Sequencing technologies, phylogenetics, metagenomics, transcriptomics, and study of the human oral microbiome and related diseases. In addition, I have particular experience studying the peri-implant microbiome, and was the first to establish definitively that the peri-implant microbiome is significantly different from the periodontal microbiome, even when examining directly adjacent teeth. Furthermore, I regularly develop sophisticated software and algorithms, and have formal training in graph theory, artificial intelligence, machine learning, computer graphics, statistics, biochemistry, microbiology, and genetics.
Microbial ecology of the oral environment, including: profiling the peri-implant microbiome in health, mucositis, and implantitis, host-microbial interaction, resistance and resilience of the microbiome to environmental perturbations. Whole metagenome and RNA-Seq analysis, fluorescent microscopy, scientific data visualization, visual analytics, software development, and reproducibility in science.
Queiroz, L. A. et al. Furcation Therapy With Enamel Matrix Derivative: Effects on the Subgingival Microbiome. Journal of Periodontology, 1-11, doi:10.1902/jop.2017.160542 (2017).
Ganesan, S. M. et al. A tale of two risks: smoking, diabetes and the subgingival microbiome. The ISME Journal, doi:10.1038/ismej.2017.73 (2017).
Dabdoub, S. M., Ganesan, S. M. & Kumar, P. S. Comparative metagenomics reveals taxonomically idiosyncratic yet functionally congruent communities in periodontitis. Scientific Reports6, 38993, doi:10.1038/srep38993 (2016).
Dabdoub, S. M. et al. PhyloToAST: Bioinformatics tools for species-level analysis and visualization of complex microbial datasets. Scientific Reports6, 29123, doi:10.1038/srep29123 (2016).
Tsigarida, A. A., Dabdoub, S. M., Nagaraja, H. N. & Kumar, P. S. The Influence of Smoking on the Peri-Implant Microbiome. Journal of Dental Research94, 1202-1217, doi:10.1177/0022034515590581 (2015).
Dabdoub, S., Rumpf, R., Shindhelm, A. & Ray, W. MoFlow: Visualizing conformational changes in molecules as molecular flow improves understanding. BMC Proceedings9, S5, doi:10.1186/1753-6561-9-S6-S5 (2015).
Mason, M. R. et al. The subgingival microbiome of clinically healthy current and never smokers. The ISME journal9, 1-5, doi:10.1038/ismej.2014.114 (2014).
Dabdoub, S. M., Tsigarida, A. A. & Kumar, P. S. Patient-specific Analysis of Periodontal and Peri-implant Microbiomes. Journal of Dental Research92, 168S-175S, doi:10.1177/0022034513504950 (2013).