A multi-phenotype genome-wide association study of clades causing tuberculosis in a Ghanaian- and South African cohort. Müller, S. J., Schurz, H., Tromp, G., van der Spuy, G. D., Hoal, E. G., van Helden, P. D., Owusu-Dabo, E., Meyer, C. G., Muntau, B., Thye, T., Niemann, S., Warren, R. M., Streicher, E., Möller, M., & Kinnear, C. Genomics, 113(4):1802–1815, July, 2021. doi abstract bibtex Despite decades of research and advancements in diagnostics and treatment, tuberculosis remains a major public health concern. New computational methods are needed to interrogate the intersection of host- and bacterial genomes. Paired host genotype datum and infecting bacterial isolate information were analysed for associations using a multinomial logistic regression framework implemented in SNPTest. A cohort of 853 admixed South African participants and a Ghanaian cohort of 1359 participants were included. Two directly genotyped variants, namely rs529920 and rs41472447, were identified in the Ghanaian cohort as being statistically significantly associated with risk for infection with strains of different members of the MTBC. Thus, a multinomial logistic regression using paired host-pathogen data may prove valuable for investigating the complex relationships driving infectious disease.
@article{muller_multi-phenotype_2021,
title = {A multi-phenotype genome-wide association study of clades causing tuberculosis in a {Ghanaian}- and {South} {African} cohort},
volume = {113},
issn = {1089-8646},
doi = {10.1016/j.ygeno.2021.04.024},
abstract = {Despite decades of research and advancements in diagnostics and treatment, tuberculosis remains a major public health concern. New computational methods are needed to interrogate the intersection of host- and bacterial genomes. Paired host genotype datum and infecting bacterial isolate information were analysed for associations using a multinomial logistic regression framework implemented in SNPTest. A cohort of 853 admixed South African participants and a Ghanaian cohort of 1359 participants were included. Two directly genotyped variants, namely rs529920 and rs41472447, were identified in the Ghanaian cohort as being statistically significantly associated with risk for infection with strains of different members of the MTBC. Thus, a multinomial logistic regression using paired host-pathogen data may prove valuable for investigating the complex relationships driving infectious disease.},
language = {eng},
number = {4},
journal = {Genomics},
author = {Müller, Stephanie J. and Schurz, Haiko and Tromp, Gerard and van der Spuy, Gian D. and Hoal, Eileen G. and van Helden, Paul D. and Owusu-Dabo, Ellis and Meyer, Christian G. and Muntau, Birgit and Thye, Thorsten and Niemann, Stefan and Warren, Robin M. and Streicher, Elizabeth and Möller, Marlo and Kinnear, Craig},
month = jul,
year = {2021},
pmid = {33862184},
keywords = {Genome-Wide Association Study, Genotype, Ghana, Humans, Imputation, Multi-phenotype GWAS, Mycobacterium tuberculosis, Mycobacterium tuberculosis complex, Phenotype, South Africa, Tuberculosis},
pages = {1802--1815},
}
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