Publications

Lysine-specific histone demethylase complex restricts Epstein-Barr virus lytic reactivation.

Liao Y, Yan J, Kong IY, et al. Lysine-specific histone demethylase complex restricts Epstein-Barr virus lytic reactivation. Nature microbiology. 2025. doi:10.1038/s41564-025-02165-7Google Scholar PubMed DOI

Haploinsufficiency of GRHL2 is associated with orofacial clefting in humans.

Curtis SW, Yang C, Sanchis-Juan A, et al. Haploinsufficiency of GRHL2 is associated with orofacial clefting in humans. Human molecular genetics. 2025. doi:10.1093/hmg/ddaf163Google Scholar PubMed DOI

insilicoSV: a flexible grammar-based framework for structural variant simulation and placement.

Battistella E, Jiang N, Rohlicek C, Shlyakhter I, Popic V. insilicoSV: a flexible grammar-based framework for structural variant simulation and placement. Bioinformatics (Oxford, England). 2025. doi:10.1093/bioinformatics/btaf594Google Scholar PubMed DOI

Multiple polygenic score approach in colorectal cancer risk prediction.

Jiang SJ, Thomas M, Rosenthal EA, et al. Multiple polygenic score approach in colorectal cancer risk prediction. Scientific reports. 2025;15(1):38006. doi:10.1038/s41598-025-21956-wGoogle Scholar PubMed DOI

Human immunodeficiency virus and antiretroviral therapies exert distinct influences across diverse gut microbiomes.

Jabbar KS, Priya S, Xu J, et al. Human immunodeficiency virus and antiretroviral therapies exert distinct influences across diverse gut microbiomes. Nature microbiology. 2025. doi:10.1038/s41564-025-02157-7Google Scholar PubMed DOI

Optimizing local control in the surgical management of bladder cancer.

Egger M, D’Andrea VD, Steiner C, et al. Optimizing local control in the surgical management of bladder cancer. Nature reviews. Urology. 2025. doi:10.1038/s41585-025-01098-4Google Scholar PubMed DOI

Integrating single-cell RNA-seq datasets with substantial batch effects.

Hrovatin K, Moinfar AA, Zappia L, et al. Integrating single-cell RNA-seq datasets with substantial batch effects. BMC genomics. 2025;26(1):974. doi:10.1186/s12864-025-12126-3Google Scholar PubMed DOI

Natural language processing of gene descriptions for overrepresentation analysis with GeneTEA.

Boyle IA, Aquib NA, Kocak M, et al. Natural language processing of gene descriptions for overrepresentation analysis with GeneTEA. Genome biology. 2025;26(1):376. doi:10.1186/s13059-025-03844-8Google Scholar PubMed DOI

The unexpected death of a loved one and risk for onset of PTSD and depression in the Nepal Chitwan Valley Family Study.

Garrison-Desany HM, Lee YH, Benjet C, et al. The unexpected death of a loved one and risk for onset of PTSD and depression in the Nepal Chitwan Valley Family Study. Journal of affective disorders. 2025:120522. doi:10.1016/j.jad.2025.120522Google Scholar PubMed DOI

Anomaly detection for high-content image-based phenotypic cell profiling.

Shpigler A, Kolet N, Golan S, Weisbart E, Zaritsky A. Anomaly detection for high-content image-based phenotypic cell profiling. Cell systems. 2025:101429. doi:10.1016/j.cels.2025.101429Google Scholar PubMed DOI