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Publications

Adversarial and variational autoencoders improve metagenomic binning.

Líndez PP, Johansen J, Kutuzova S, Sigurdsson AI, Nissen JN, Rasmussen S. Adversarial and variational autoencoders improve metagenomic binning. Communications biology. 2023;6(1):1073. doi:10.1038/s42003-023-05452-3

Liquid biopsy epigenomic profiling for cancer subtyping.

Baca SC, Seo JH, Davidsohn MP, et al. Liquid biopsy epigenomic profiling for cancer subtyping. Nature medicine. 2023. doi:10.1038/s41591-023-02605-z

Higher Maternal Body Mass Index is associated with Lower Placental Expression of EPYC: A Genome-Wide Transcriptomic Study.

Sordillo JE, White F, Majid S, et al. Higher Maternal Body Mass Index is associated with Lower Placental Expression of EPYC: A Genome-Wide Transcriptomic Study. The Journal of clinical endocrinology and metabolism. 2023. doi:10.1210/clinem/dgad619

SRCAP mutations drive clonal hematopoiesis through epigenetic and DNA repair dysregulation.

Chen CW, Zhang L, Dutta R, et al. SRCAP mutations drive clonal hematopoiesis through epigenetic and DNA repair dysregulation. Cell stem cell. 2023. doi:10.1016/j.stem.2023.09.011

Analyzing histone ChIP-seq data with a bin-based probability of being signal.

Hecht V, Dong K, Rajesh S, Shpilker P, Wekhande S, Shoresh N. Analyzing histone ChIP-seq data with a bin-based probability of being signal. PLoS computational biology. 2023;19(10):e1011568. doi:10.1371/journal.pcbi.1011568

Impact of piperaquine resistance in Plasmodium falciparum on malaria treatment effectiveness in French Guiana: a descriptive epidemiological study.

Florimond C, de Laval F, Early AM, et al. Impact of piperaquine resistance in Plasmodium falciparum on malaria treatment effectiveness in French Guiana: a descriptive epidemiological study. The Lancet. Infectious diseases. 2023. doi:10.1016/S1473-3099(23)00502-9

Sync for Genes Phase 5: Computable artifacts for sharing dynamically annotated FHIR-formatted genomic variants.

Dolin R, Heale BSE, Gupta R, et al. Sync for Genes Phase 5: Computable artifacts for sharing dynamically annotated FHIR-formatted genomic variants. Learning health systems. 2023;7(4):e10385. doi:10.1002/lrh2.10385

The carbapenem inoculum effect provides insight into the molecular mechanisms underlying carbapenem resistance in Enterobacterales.

Cartagena AJ, Taylor KL, Smith JT, et al. The carbapenem inoculum effect provides insight into the molecular mechanisms underlying carbapenem resistance in Enterobacterales. bioRxiv : the preprint server for biology. 2023. doi:10.1101/2023.05.23.541813

Quantitatively assessing early detection strategies for mitigating COVID-19 and future pandemics.

Liu AB, Lee D, Jalihal AP, Hanage WP, Springer M. Quantitatively assessing early detection strategies for mitigating COVID-19 and future pandemics. medRxiv : the preprint server for health sciences. 2023. doi:10.1101/2023.06.08.23291050

Quantitatively assessing early detection strategies for mitigating COVID-19 and future pandemics.

Liu AB, Lee D, Jalihal AP, Hanage WP, Springer M. Quantitatively assessing early detection strategies for mitigating COVID-19 and future pandemics. medRxiv : the preprint server for health sciences. 2023. doi:10.1101/2023.06.08.23291050