Research in the Chapkin lab focuses on dietary/microbial modulators related to the prevention of cancer and chronic inflammatory diseases.

Our central goal is to (1) understand cancer chemoprevention at a fundamental level, and (2) to test pharmaceutical agents in combination with dietary/microbial (countermeasures to the Western diet) to more effectively improve gut health and reduce systemic chronic inflammation. Since diet influences gut microbiota composition and metabolite production, to unravel the interrelationships among gut health and the structure of the gut microbial ecosystem, we are in the process of evaluating (using transgenic mouse, Drosophila models and humans) how the gut microbiome modulates intestinal cells, innate immune cells and tumors. As part of this endeavor, we are modeling at the molecular level the dynamic relationship between diet and gut microbe-derived metabolites which modulate chronic inflammation and the hierarchical cellular organization of the intestine, e.g., stem cell niche.

education and training
selected publications
Academic Articles298
  • Zhao, D., Farnell, M. B., Kogut, M. H., Genovese, K. J., Chapkin, R. S., Davidson, L. A., Berghman, L. R., & Farnell, Y. Z. (2022). From crypts to enteroids: establishment and characterization of avian intestinal organoids. Poultry Science. 101(3), 101642-101642.
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  • Osorio, D., Zhong, Y., Li, G., Xu, Q., Yang, Y., Tian, Y., ... Cai, J. J. (2022). scTenifoldKnk: An efficient virtual knockout tool for gene function predictions via single-cell gene regulatory network perturbation. Patterns. 100434-100434.
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  • Petrov, M. E., Jiao, N., Panchanathan, S. S., Reifsnider, E., Coonrod, D. V., Liu, L. i., ... Whisner, C. M. (2021). Protocol of the Snuggle Bug/Acurrucadito Study: a longitudinal study investigating the influences of sleep-wake patterns and gut microbiome development in infancy on rapid weight gain, an early risk factor for obesity. BMC Pediatrics. 21(1), 374.
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  • Han, H., Safe, S., Jayaraman, A., & Chapkin, R. S. (2021). Diet–Host–Microbiota Interactions Shape Aryl Hydrocarbon Receptor Ligand Production to Modulate Intestinal Homeostasis. Annual Review of Nutrition. 41(1), 455-478.
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  • Chapkin, R. S., Davidson, L. A., Park, H., Jin, U., Fan, Y., Cheng, Y., ... Safe, S. (2021). Role of the Aryl Hydrocarbon Receptor (AhR) in Mediating the Effects of Coffee in the Colon. Molecular Nutrition & Food Research. 65(20), 2100539-2100539.
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  • Wang, M., Ivanov, I., Davidson, L. A., Chapkin, R. S., & Donovan, S. M. (2017). Infant nutrition and the microbiome. Nutrigenomics and Proteomics in Health and Disease. 220-257. John Wiley & Sons, Ltd.
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  • Hou, T. Y., McMurray, D. N., & Chapkin, R. S. (2017). Nutrition, Immunity, and Infection. Calder, P. C., & Kulkarni, A. D. (Eds.), Nutrition, Immunity, and Infection. 295-314. CRC Press.
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  • Turk, H. F., Monk, J. M., Hou, T. Y., & Chapkin, R. S. (2013). Omega-3 Fatty Acids in Cancer Prevention and Control: A Membrane Perspective. Obesity, Inflammation and Cancer. 305-339. Springer New York.
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  • Monk, J. M., McMurray, D. N., & Chapkin, R. S. (2011). Clinical Effects of n-3 PUFA Supplementation in Human Health and Inflammatory Diseases. Omega-3 Oils. 31-60. Elsevier.
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  • Chapkin, R. S. (2007). Reappraisal of the essential fatty acids. Fatty Acids in Foods and their Health Implications, Third Edition. 675-691.
Conference Papers122
  • Fuentes, N. R., Barhoumi, R., Mlih, M., Karpac, J., Hardin, P., Steele, T., ... Chapkin, R. S. (2018). Abstract 179: Plasma membrane lipid therapy: disruption of oncogenic Ras spatiotemporal organization by membrane-targeted dietary bioactives (MTDB). Cancer Research. 77(13_Supplement), 179-179.
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  • Salinas, M. L., Fuentes, N. R., Barhoumi, R., & Chapkin, R. S. (2017). Abstract 255: Dietary amphiphilic polyphenols modulate the biophysical properties of plasma membrane organization and membrane-dependent macropinocytosis. Cancer Research. 77(13_Supplement), 255-255.
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  • Kim, E., Ivanov, I., Hua, J., Chapkin, R. S., & Dougherty, E. R. (2016). Model-based study of the Effectiveness of Reporting Lists of Small Feature Sets using RNA-Seq Data. Proceedings of the 7th ACM International Conference on Bioinformatics, Computational Biology, and Health Informatics, BCB '16: ACM International Conference on Bioinformatics, Computational Biology, and Health Informatics. 470-471.
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  • Kim, E., Davidson, L. A., Patil, B. S., Jayaprakasha, G. K., Callaway, E. S., Turner, N. D., & Chapkin, R. S. (2014). Effects of chemoprotective diets on crypt adult stem cells the cells of origin of colon cancer (819.1). The FASEB Journal. 28(S1),
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Repository Documents / Preprints6
  • Osorio, D., Zhong, Y., Li, G., Xu, Q., Yang, Y., Hillhouse, A., ... Cai, J. J. (2021). scTenifoldKnk: An Efficient Virtual Knockout Tool for Gene Function Predictions via Single-Cell Gene Regulatory Network Perturbation.
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  • Roitershtein, A., Rastegar, R., Chapkin, R. S., & Ivanov, I. (2019). Extinction scenarios in evolutionary processes: A Multinomial Wright-Fisher approach.
  • Roitershtein, A., Rastegar, R., Chapkin, R. S., & Ivanov, I. (2019). Extinction scenarios in evolutionary processes: A Multinomial Wright-Fisher approach.
  • Bahadorinejad, A., Ivanov, I., Lampe, J. W., Hullar, M., Chapkin, R. S., & Braga-Neto, U. M. (2018). Bayesian Classification of Microbial Communities Based on 16S rRNA Metagenomic Data.
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researcher on
chaired theses and dissertations
First Name
Last Name
mailing address
Texas A&M University; Nutrition & Food Science; 2253 TAMU
College Station, TX 77843-2253