Chromatin is organized into self-interacting topologically associating domains partitioned by boundary elements that insulate adjacent domains and restrict regulatory interactions. Yet, how sequence context and combinations of factors dictate …
Stem-like TCF7+ CD8 T cells sustain anti-tumor responses and support immune checkpoint blockade. We systematically identified regulators of this cell state using genome-wide CRISPR screens in primary T cells in vitro. Using random barcodes to link …
Loop extrusion has been clearly shown to be insufficient as a mechanism to explain TAD formation, leaving a large gap in our understanding of how the specificity of TAD boundary interactions and inter-TAD chromosomal interactions are determined. Many …
Perturbations of genes with functional importance in T cells could be used to change the distribution of CD8 T cell states to enhance anti-tumor functions for cancer immunotherapies. We launched a world-wide computational challenge to predict the …
Cell type deconvolution is essential for resolving multicellular composition in spatial transcriptomics data, yet the accuracy and consistency of current methods across biological contexts remain uncertain. We introduce a benchmarking framework using …
T cells protect against pathogens and tumors and can differentiate into various functionally distinct subsets. While each subset exhibits a characteristic epigenomic and transcriptional profile, essential immune functions such as self-renewal, …
Macroautophagy (autophagy hereafter) captures intracellular components and delivers them to lysosomes for degradation and recycling. In adult mice, autophagy sustains metabolism to prevent wasting by cachexia and to survive fasting, and also …