Publications

Gene Regulation Observatory

Refining the cis-regulatory grammar learned by sequence-to-activity models by increasing model resolution.

Chandra NA, Hu Y, Buenrostro JD, Mostafavi S, Sasse A. Refining the cis-regulatory grammar learned by sequence-to-activity models by increasing model resolution. bioRxiv : the preprint server for biology. 2025. doi:10.1101/2025.01.24.634804

Distance matters: How protein regulators facilitate enhancer-promoter interactions and transcription.

Nagano M, Hansen AS. Distance matters: How protein regulators facilitate enhancer-promoter interactions and transcription. Cell genomics. 2025;5(3):100817. doi:10.1016/j.xgen.2025.100817

Binding domain mutations provide insight into CTCF's relationship with chromatin and its contribution to gene regulation.

Do C, Jiang G, Cova G, et al. Binding domain mutations provide insight into CTCF’s relationship with chromatin and its contribution to gene regulation. Cell genomics. 2025:100813. doi:10.1016/j.xgen.2025.100813

Invigorating discovery and clinical translation of aging biomarkers.

Jacques E, Herzog C, Ying K, et al. Invigorating discovery and clinical translation of aging biomarkers. Nature aging. 2025. doi:10.1038/s43587-025-00838-w

Unified molecular approach for spatial epigenome, transcriptome, and cell lineages.

Huang YH, Belk JA, Zhang R, et al. Unified molecular approach for spatial epigenome, transcriptome, and cell lineages. Proceedings of the National Academy of Sciences of the United States of America. 2025;122(16):e2424070122. doi:10.1073/pnas.2424070122

scooby: Modeling multi-modal genomic profiles from DNA sequence at single-cell resolution.

Hingerl JC, Martens LD, Karollus A, et al. scooby: Modeling multi-modal genomic profiles from DNA sequence at single-cell resolution. bioRxiv : the preprint server for biology. 2024. doi:10.1101/2024.09.19.613754

Degradation of IKZF1 prevents epigenetic progression of T cell exhaustion in an antigen-specific assay.

Tay T, Bommakanti G, Jaensch E, et al. Degradation of IKZF1 prevents epigenetic progression of T cell exhaustion in an antigen-specific assay. Cell reports. Medicine. 2024:101804. doi:10.1016/j.xcrm.2024.101804

Evolving cell states and oncogenic drivers during the progression of IDH-mutant gliomas.

Wu J, Castro NG, Battaglia S, et al. Evolving cell states and oncogenic drivers during the progression of IDH-mutant gliomas. Nature cancer. 2024. doi:10.1038/s43018-024-00865-3

Single cell variant to enhancer to gene map for coronary artery disease.

Amrute JM, Lee PC, Eres I, et al. Single cell variant to enhancer to gene map for coronary artery disease. medRxiv : the preprint server for health sciences. 2024. doi:10.1101/2024.11.13.24317257

Transcriptional profile of the rat cardiovascular system at single-cell resolution.

Arduini A, Fleming SJ, Xiao L, et al. Transcriptional profile of the rat cardiovascular system at single-cell resolution. Cell reports. 2024;44(1):115091. doi:10.1016/j.celrep.2024.115091

ӳ����ý

Gene Regulation Observatory

ӳ��ý