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Cited In for PMID: 39827261

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Incomplete human reference genomes can drive false sex biases and expose patient-identifying information in metagenomic data.
Guccione C, Patel L, Tomofuji Y, McDonald D, Gonzalez A, Sepich-Poore GD, Sonehara K, Zakeri M, Chen Y, Dilmore AH, Damle N, Baranzini SE, Hightower G, Nakatsuji T, Gallo RL, Langmead B, Okada Y, Curtius K, Knight R. Guccione C, et al. Nat Commun. 2025 Jan 18;16(1):825. doi: 10.1038/s41467-025-56077-5. Nat Commun. 2025. PMID: 39827261 Free PMC article.
Smart Microbiomes: How AI Is Revolutionizing Personalized Medicine.
Alexandrescu L, Tofolean IT, Condur LM, Tofolean DE, Nicoara AD, Serbanescu L, Rusu E, Twakor AN, Dumitru E, Dumitru A, Tocia C, Herlo LF, Alexandrescu DM, Stanigut AM. Alexandrescu L, et al. Bioengineering (Basel). 2025 Aug 31;12(9):944. doi: 10.3390/bioengineering12090944. Bioengineering (Basel). 2025. PMID: 41007192 Free PMC article. Review.
The multi-kingdom cancer microbiome.
Dohlman AB, Pan X, Zitvogel L, Iliev ID. Dohlman AB, et al. Nat Microbiol. 2025 Oct;10(10):2369-2383. doi: 10.1038/s41564-025-02103-7. Epub 2025 Sep 9. Nat Microbiol. 2025. PMID: 40926099 Review.
Targeted decontamination of sequencing data with CLEAN.
Lataretu M, Krautwurst S, Huska MR, Marquet M, Viehweger A, Braun SD, Brandt C, Hölzer M. Lataretu M, et al. NAR Genom Bioinform. 2025 Jul 24;7(3):lqaf105. doi: 10.1093/nargab/lqaf105. eCollection 2025 Sep. NAR Genom Bioinform. 2025. PMID: 40708849 Free PMC article.
Versatile wastewater monitoring of pathogens and antimicrobial resistance enabled by metatranscriptomics and long-read metagenomics.
Knight R, Din MO, Salido R, Wright G, Brennan C, Ambre M, Hansen L, Boyer T, Cao J, Oles R, Patel L, Weng Y, McDonald D, Bhute S, Solini G, Karthikeyan S, Humphrey G, DeHoff P, Kralicek S, Levy J, Zeller M, Hecht G, Laurent L, Yeo G, Andersen K, Bartko A. Knight R, et al. Res Sq [Preprint]. 2025 Sep 10:rs.3.rs-7492978. doi: 10.21203/rs.3.rs-7492978/v1. Res Sq. 2025. PMID: 40964040 Free PMC article. Preprint.
Environmental and Maternal Imprints on Infant Gut Metabolic Programming.
Kvitne KE, Allaband C, Onuora JC, Perry D, Zuffa S, Patel L, Charron-Lamoureux V, Mohanty I, Sejane K, Patan A, Al Mahmud A, Ahmed T, Bassani DG, González A, Hamer DH, Haque R, Ho B, Hossain MI, Islam MS, McDonald D, Pell LG, Qamar H, Roth DE, Saha S, Shah PS, Siddiqui MM, Sarker SA, Sultana S, Thomas S, Burnett LA, Tsunoda SM, Bode L, Dorrestein PC, Knight R. Kvitne KE, et al. bioRxiv [Preprint]. 2025 Jul 24:2025.07.24.666662. doi: 10.1101/2025.07.24.666662. bioRxiv. 2025. Update in: Cell Host Microbe. 2025 Nov 26:S1931-3128(25)00456-1. doi: 10.1016/j.chom.2025.11.002. PMID: 40777448 Free PMC article. Updated. Preprint.