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Gut microbiome and metabolome profiling in Framingham heart study reveals cholesterol-metabolizing bacteria.
Cell. 2024 Apr 11;187(8):1834-1852.e19. doi: 10.1016/j.cell.2024.03.014. Epub 2024 Apr 2.
Cell. 2024.
PMID: 38569543
Protein Language Models Uncover Carbohydrate-Active Enzyme Function in Metagenomics.
Thurimella K, Mohamed AMT, Graham DB, Owens RM, La Rosa SL, Plichta DR, Bacallado S, Xavier RJ.
Thurimella K, et al.
bioRxiv [Preprint]. 2023 Oct 25:2023.10.23.563620. doi: 10.1101/2023.10.23.563620.
bioRxiv. 2023.
PMID: 37961379
Free PMC article.
Preprint.
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SCNIC: Sparse correlation network investigation for compositional data.
Shaffer M, Thurimella K, Sterrett JD, Lozupone CA.
Shaffer M, et al. Among authors: thurimella k.
Mol Ecol Resour. 2023 Jan;23(1):312-325. doi: 10.1111/1755-0998.13704. Epub 2022 Sep 1.
Mol Ecol Resour. 2023.
PMID: 36001047
Free PMC article.
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AMON: annotation of metabolite origins via networks to integrate microbiome and metabolome data.
Shaffer M, Thurimella K, Quinn K, Doenges K, Zhang X, Bokatzian S, Reisdorph N, Lozupone CA.
Shaffer M, et al. Among authors: thurimella k.
BMC Bioinformatics. 2019 Nov 28;20(1):614. doi: 10.1186/s12859-019-3176-8.
BMC Bioinformatics. 2019.
PMID: 31779604
Free PMC article.
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