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Epigenomics
Roseman SA, Siegenfeld AP, Lee C, Lue NZ, Waterbury AL, Liau BB. DNA methylation insulates genic regions from CTCF loops near nuclear speckles. eLife. 2025;13. doi:10.7554/eLife.102930
Yang J, Wang C, Fu D, et al. Mature and migratory dendritic cells promote immune infiltration and response to anti-PD-1 checkpoint blockade in metastatic melanoma. Nature communications. 2025;16(1):8151. doi:10.1038/s41467-025-62878-5
Liu Z, Zhang S, James BT, et al. Single-cell multiregion epigenomic rewiring in Alzheimer’s disease progression and cognitive resilience. Cell. 2025;188(18):4980-5002.e29. doi:10.1016/j.cell.2025.06.031
Waterbury AL, Kwok HS, Lee C, et al. An autoinhibitory switch of the LSD1 disordered region controls enhancer silencing. Molecular cell. 2024. doi:10.1016/j.molcel.2024.05.017
Kim KL, Rahme GJ, Goel VY, Farran CAE, Hansen AS, Bernstein BE. Dissection of a CTCF topological boundary uncovers principles of enhancer-oncogene regulation. Molecular cell. 2024. doi:10.1016/j.molcel.2024.02.007
Labade A, Chiang Z, Comenho C, et al. Expansion genome sequencing links nuclear abnormalities to hotspots of aberrant euchromatin repression. bioRxiv : the preprint server for biology. 2024. doi:10.1101/2024.09.24.614614
Mangiameli SM, Chen H, Earl AS, et al. Photoselective sequencing: microscopically guided genomic measurements with subcellular resolution. Nature methods. 2023;20(5):686-694. doi:10.1038/s41592-023-01845-8
Rahme GJ, Javed NM, Puorro KL, et al. Modeling epigenetic lesions that cause gliomas. Cell. 2023. doi:10.1016/j.cell.2023.06.022
Martin-Rufino JD, Castano N, Pang M, et al. Massively parallel base editing to map variant effects in human hematopoiesis. Cell. 2023. doi:10.1016/j.cell.2023.03.035