Xiakun Chu

Nov 7, 2024 | pubs.acs.org | Tao Zhu |Chunhe Li |Xiakun Chu |Eileen E. M

Precise spatiotemporal regulation of gene expression patterns is governed by DNA regulatory elements, particularly enhancers. (1−4) Enhancers can initiate transcription by activating target gene promoters, which are often located thousands to millions of base pairs away. (5,6) It is well established that these distantly separated enhancers and promoters in the 1D genomic sequence must come into close proximity in 3D nuclear space for gene expression.

Sep 1, 2024 | biorxiv.org | Tao Zhu |Chunhe Li |Xiakun Chu

AbstractEnhancers regulate gene expression by forming contacts with distant promoters. Phase-separated condensates or clusters formed by transcription factors (TFs) and co-factors are thought to facilitate these enhancer-promoter (E-P) interactions. Using polymer physics, we developed distinct coarse-grained chromatin models that produce similar ensemble-averaged Hi-C maps but with "stable" and "dynamic" characteristics.

Jul 30, 2023 | biorxiv.org | Xiakun Chu |Jin Wang |Stony Brook

New Results doi: https://doi.org/10.1101/2023.07.29.551121 AbstractCell cycle, essential for various cellular processes, is known to be precisely regulated by the underlying gene network. Accumulating evidence has revealed that the chromosome, which serves as the scaffold for the gene expressions, undergoes significant structural reorganizations during mitosis.