Chromatin has distinct three-dimensional (3D) architectures important in key biological
processes, such as cell cycle, replication, differentiation, and transcription regulation. In turn …

Hi-C is a commonly used technology in 3D genomics which can depict global chromatin
interactions across eukaryotic genome. Integrating with different datasets, it can also be …

Increasing evidence suggests that transcriptional control and chromatin activities at large
involve regulatory RNAs, which likely enlist specific RNA-binding proteins (RBPs). Although …

Mapping chromatin loops from noisy Hi-C heatmaps remains a major challenge. Here we
present DeepLoop, which performs rigorous bias correction followed by deep-learning …

Topological-associated domains (TADs) are thought to be relatively stable across cell types,
although some TAD reorganization has been observed during cellular differentiation …

How spatial chromosome organization influences genome integrity is still poorly understood.
Here, we show that DNA double-strand breaks (DSBs) mediated by topoisomerase 2 (TOP2) …

Background The relationship between transcription and the 3D chromatin structure is
debated. Multiple studies have shown that transcription affects global Cohesin binding and …

Glioblastoma (GBM) is the most lethal primary brain cancer characterized by therapeutic
resistance, which is promoted by GBM stem cells (GSC). Here, we interrogated gene …

Interactions between regulatory elements are of crucial importance for the understanding of
transcriptional regulation and the interpretation of disease mechanisms. Hi-C technique has …

Superenhancers drive abnormal gene expression in tumors and promote malignancy.
However, the relationship between superenhancer‐associated long noncoding RNA …