Koh, H. A general kernel machine comparative analysis framework for randomized block designs: Applications to human microbiome studies. Artificial Intelligence in Medicine, (In Review)
Koh, H. An ensemble learning method for joint kernel association testing and principal component analysis on multiple kernels. Artificial Intelligence in Medicine, (In Review)
Koh, H. (2026) Phylogeny-informed random forests for human microbiome studies. Microbiology Spectrum, (Accepted)
Koh†, H., Kim*, J., Jang*, H. (2025) MiCML: A causal machine learning cloud platform for the analysis of treatment effects using microbiome profiles. BioData Mining, 18(10), 1-18.
Koh, H. (2024) A general kernel machine regression framework using principal component analysis for jointly testing main and interaction effects: Applications to human microbiome studies. NAR Genomics & Bioinformatics, 6(4), lqae148.
Jang*, H., Koh¶†, H. (2024) A unified web cloud computing platform MiMedSurv for microbiome causal mediation analysis with survival responses. Scientific Reports, 14(20650).
Yanai, H., Park, B., Koh, H., Jang*, H., Vaughan, K.L., Tanaka-Yano, M., Aon, M., Blanton, M., Messaoudi, I., Diaz-Ruiz, A., Mattison, J.A., Beerman, I. (2024) Short-term periodic restricted feeding elicits metabolome-microbiome signatures with sex dimorphic persistence in primate intervention. Nature Communications, 15(1088), 1-11.
Kim*, D., Jang*, H., Koh†, H. (2024) MiMultiCat: A unified cloud platform for the analysis of microbiome data with multi-categorical responses. Bioengineering, 11(1), 60.
Koh, H. (2023) Subgroup identification using virtual twins for human microbiome studies. IEEE/ACM Transactions on Computational Biology & Bioinformatics, 20(6), 3800-3808.
Kim*, J., Koh¶†, H. (2023) MiTree: A unified web cloud analytic platform for user-friendly and interpretable microbiome data mining using tree-based methods. Microorganisms, 11(11), 2816.
Jang*, H., Park*, S., Koh¶†, H. (2023) Comprehensive microbiome causal mediation analysis using MiMed on user-friendly web interfaces. Biology Methods & Protocols, 8(1), bpad023.
Park, B., Koh¶, H., Patatanian, M., Reyes-Caballero, H., Zhao, N., Meinert, J., Holbrook, J.T., Leinbach, L.I., Biswal, S. (2023) The mediating roles of the oral microbiome in saliva and subgingival sites between e-cigarette smoking and gingival inflammation. BMC Microbiology, 23(35), 1-18.
Gu*, W., Koh¶†, H., Jang*, H., Lee*, B., Kang, B. (2023) MiSurv: An integrative web cloud platform for user-friendly microbiome data analysis with survival responses. Microbiology Spectrum, 11(3), e05059-22.
Jang*, H., Koh¶†, H., Gu*, W., Kang, B. (2022) Integrative web cloud computing and analytics using MiPair for design-based comparative analysis with paired microbiome data. Scientific Reports, 12(20465), 1-14.
Gu*, W., Moon, J., Chisina*, C., Kang, B., Park, T., Koh†, H. (2022) MiCloud: A unified web platform for comprehensive microbiome data analysis. PLoS One, 17(8), e0272354.
Koh†, H., Tuddenham, S., Sears, C.L., Zhao, N. (2021) Meta-analysis methods for multiple related markers: Applications to microbiome studies with the results on multiple α-diversity indices. Statistics in Medicine, 40(12), 2859-76.
Nazzal, L., Francois, F., Henderson, N., Liu, M., Li, H., Koh, H., Wang, C., Gao, Z., Perez, G.P., Asplin, J.R., Goldfarb, D.S., Blaser, M.J. (2021) Effect of antibiotic treatment on Oxalobacter formigenes colonization of the gut microbiome and urinary oxalate excretion. Scientific Reports, 11(16428), 1-11.
Wilson, N., Zhao, N., Zhan, X., Koh, H., Fu, W., Chen, J., Li, H., Wu, M.C., Plantinga, A.M. (2021) MiRKAT: Kernel machine regression-based global association tests for the microbiome. Bioinformatics, 37(11), 1595-97.
Zhao, N., Khamash, D., Koh, H., Voskertchian, A., Egbert, E., Mongodin, E.F., White, J., Hittle, L., Colantouni, E., Milstone, A.M. (2021) Low diversity in nasal microbiome associated with Staphylococcus aureus colonization and bloodstream infections in hospitalized neonates. Open Forum Infectious Diseases, 8(10), 1-9.
Koh, H., Zhao, N. (2020) A powerful microbial group association test based on the higher criticism analysis for sparse microbial association signals. Microbiome, 8(63), 1-16.
Koh, H., Li, Y., Zhan, X., Chen, J., Zhao, N. (2019) A distance-based kernel association test based on the generalized linear mixed model for correlated microbiome studies. Frontiers in Genetics, 458(10), 1-14.
Koh, H. (2018) An adaptive microbiome α-diversity-based association analysis method. Scientific Reports, 8(18026), 1-12.
Hu, J., Koh, H., He, L., Liu, M., Blaser, M.J., Li, H. (2018) A two-stage microbial association mapping framework with advanced FDR control. Microbiome, 6(131), 1-15.
Koh, H., Livanos, A.E., Blaser, M.J., Li, H. (2018) A highly adaptive microbiome-based association test for survival traits. BMC Genomics, 19(210), 1-14.
Zhang, X., Li, J., Krautkramer, K., Badri, M., Battaglia, T., Borbet, T.C., Koh, H., Ng, S., Sibley, R.A., Li, Y., Pathmasiri, W., Jindal, S., Shields-Cutler, R.R., Hillmann, B., Al-Ghalith, G.A., Ruiz, V.E., Livanos, A., Wout, A., Nagalingam, N., Rogers, A.B., Sumner, S.J., Knights, D., Denu, J.M., Li, H., Ruggles, K.V., Bonneau, R., Williams, A.R., Rauch, M., Blaser, M.J. (2018) Antibiotic-induced acceleration of type 1 diabetes alters maturation of innate intestinal immunity. eLife, 7(e37816), 1-37.
Derk, J., Hernandez, K.B., Rodriguez, M., He, M., Koh, H., Abedini, A., Li, H., Fenyö, D., Schmidt, A.M. (2018) Diaphanous 1 (DIAPH1) is highly expressed in the aged human medial temporal cortex and upregulated in myeloid cells during alzheimer’s disease. Journal of Alzheimer’s Disease, 64 (3), 995-1007.
Abedini, A., Cao, P., Plesner, A., Zhang, J., He, M., Derk, J., Patil, S.A., Rosario, R., Lonier, J., Song, F., Koh, H., Li, H., Raleigh, D.P., Schmidt, A.M. (2018) RAGE binds preamyloid IAPP intermediates and mediates pancreatic β cell proteotoxicity. Journal of Clinical Investigation, 128(2), 682-98.
Koh, H., Blaser, M.J., Li, H. (2017) A powerful microbiome-based association test and a microbial taxa discovery framework for comprehensive association mapping. Microbiome, 5(45), 1-15.
Inman, C.K., Junaibi, A.A., Koh, H., Abdulle, A., Ali, R., Alnaeemi, A., Zaabi, E.A., Oumeziane, N., Bastaki, M.A., Al-Houqani, M., Al-Maskari, F., Dhaheri, A.A., Shah, S.M., Wareth, L.A., Mahmeed, W.A., Alsafar, H., Anouti, F.A., Hosani, A.A., Haji, M., Galani, D., O’Connor, M.J., Ahn, J., Kirchhoff, T., Sherman, S., Hayes, R.B., Li, H., Ramasamy, R., Schmidt, A.M. (2017) The AGE-RAGE axis in an Arab population: Results from the United Arab Emirates Healthy Futures (UAEHFS) pilot study. Journal of Clinical & Translational Endocrinology, 10, 1-8.
Liu, M., Koh, H., Kurtz, Z., Battaglia, T., PeBenito, A., Li, H., Nazzal, L., Blaser, M.J. (2017) Oxalobacter formigenes-associated host features and microbial community structures examined using the American Gut Project. Microbiome, 5(108), 1-17.
Yassine, H.N., Jackson, A.M., Borges, C.R., Billheimer, D., Koh, H., Smith, D., Reaven, P., Lau, S.S., Borchers, C.H. (2014) The application of multiple reaction monitoring and multi-analyte profiling to HDL proteins. Lipids in Health & Disease, 13(8), 1-11.
