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Publications

Epilogos: information-theoretic navigation of multi-tissue functional genomic annotations.

Quon J, Reynolds A, Tripician N, et al. Epilogos: information-theoretic navigation of multi-tissue functional genomic annotations. bioRxiv : the preprint server for biology. 2025. doi:10.1101/2025.06.18.660301

Microbiome diversity of low biomass skin sites is captured by metagenomics but not 16S amplicon sequencing.

Markey L, Qu EB, Mendall C, Finzel A, Materna A, Lieberman TD. Microbiome diversity of low biomass skin sites is captured by metagenomics but not 16S amplicon sequencing. bioRxiv : the preprint server for biology. 2025. doi:10.1101/2025.06.24.661265

The contribution of native protein complexes to targeted protein degradation.

Glennie L, Curnutt N, Cartwright T, et al. The contribution of native protein complexes to targeted protein degradation. bioRxiv : the preprint server for biology. 2025. doi:10.1101/2025.06.17.660125

Spatially defined multicellular functional units in colorectal cancer revealed from single cell and spatial transcriptomics.

Avraham-Davidi I, Mages S, Klughammer J, et al. Spatially defined multicellular functional units in colorectal cancer revealed from single cell and spatial transcriptomics. bioRxiv : the preprint server for biology. 2025. doi:10.1101/2022.10.02.508492

Pan-cancer prediction of tumor immune activation and response to immune checkpoint blockade from tumor transcriptomics and histopathology.

Mukherjee S, Patiyal S, Pal LR, et al. Pan-cancer prediction of tumor immune activation and response to immune checkpoint blockade from tumor transcriptomics and histopathology. bioRxiv : the preprint server for biology. 2025. doi:10.1101/2025.06.27.661875

Improving spliced alignment by modeling splice sites with deep learning.

Yang S, Huang N, Li H. Improving spliced alignment by modeling splice sites with deep learning. ArXiv. 2025.

The relationship between lifetime trauma exposure and psychosis in a multi-country case-control study in Africa.

Stevenson A, Misra S, Girma E, et al. The relationship between lifetime trauma exposure and psychosis in a multi-country case-control study in Africa. SSM. Mental health. 2025;7. doi:10.1016/j.ssmmh.2025.100466

Controversy in Hypertension: Pro-Side of the Argument Using Artificial Intelligence for Hypertension Diagnosis and Management.

Armoundas AA, Ahmad FS, Attia ZI, et al. Controversy in Hypertension: Pro-Side of the Argument Using Artificial Intelligence for Hypertension Diagnosis and Management. Hypertension (Dallas, Tex. : 1979). 2025;82(6):929-944. doi:10.1161/HYPERTENSIONAHA.124.22349

Transcriptomic profiling after B cell depletion reveals central and peripheral immune cell changes in multiple sclerosis.

Wei J, Moon J, Yasumizu Y, et al. Transcriptomic profiling after B cell depletion reveals central and peripheral immune cell changes in multiple sclerosis. The Journal of clinical investigation. 2025;135(11). doi:10.1172/JCI182790

Increased intestinal mucosal permeability and metabolic endotoxemia predict the risk of cardiovascular mortality.

Parantainen J, Barreto G, Strandberg TE, Mars N, Nurmi K, Eklund KK. Increased intestinal mucosal permeability and metabolic endotoxemia predict the risk of cardiovascular mortality. Atherosclerosis. 2025;405:119220. doi:10.1016/j.atherosclerosis.2025.119220