Hu Y, Horlbeck MA, Zhang R, et al. Multiscale footprints reveal the organization of cis-regulatory elements. Nature. 2025. doi:10.1038/s41586-024-08443-4
Gene Regulation Observatory
Li Z, Patel ZM, Song D, et al. Systematic benchmarking of computational methods to identify spatially variable genes. Genome biology. 2025;26(1):285. doi:10.1186/s13059-025-03731-2
Aboreden NG, Lam JC, Goel VY, et al. LDB1 establishes multi-enhancer networks to regulate gene expression. Molecular cell. 2024. doi:10.1016/j.molcel.2024.11.037
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
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
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
Tay T, Bommakanti G, Jaensch E, et al. Degradation of IKZF1 prevents epigenetic progression of TÂ cell exhaustion in an antigen-specific assay. Cell reports. Medicine. 2024:101804. doi:10.1016/j.xcrm.2024.101804
Goel VY, Aboreden NG, Jusuf JM, et al. Dynamics of microcompartment formation at the mitosis-to-G1 transition. bioRxiv : the preprint server for biology. 2024. doi:10.1101/2024.09.16.611917
Chen XD, Chen Z, Wythes G, et al. Helicase-assisted continuous editing for programmable mutagenesis of endogenous genomes. Science (New York, N.Y.). 2024;386(6718):eadn5876. doi:10.1126/science.adn5876
Rajachandran S, Xu Q, Cao Q, et al. Subcellular Level Spatial Transcriptomics with PHOTON. bioRxiv : the preprint server for biology. 2024. doi:10.1101/2024.09.10.612328