Yixian Zheng

Lamins promote trophoblast lineage-associated transcription and trophoblast giant cell development in placental organogenesis

This study shows lamins are essential for placental development by supporting trophoblast giant cell polyploidization and lineage-specific gene expression.

Reconstitution of lamin assembly on nuclear pore complex-containing membranes

The paper demonstrates that lamin-B3 can assemble into filamentous structures in Xenopus laevis egg extracts under nucleoplasm-like conditions, independent of nuclear assembly.

Lamins gate nuclear and chromatin structures for cardiomyocyte maturation genes

This study shows lamin-B1 is essential for cardiomyocyte maturation and survival by maintaining chromatin organization and transcription programs during heart development.

Molecular underpinning of Hydra viridissima-algal facultative symbiosis and vertical algal transmission

This study investigates facultative endosymbiosis and vertical algal transmission in Hydra viridissima, identifying distinct host cell features and mechanisms of algal uptake and lipid acquisition in oocytes.

Lamins and lineage-relevant transcription factors coordinate gene expression in lineage development

The paper shows that lamins A and B1 maintain LADs and gene expression in yolk sac endoderm by interacting with transcription factors.

A model-based analysis reveals three-dimensional genome organization heterogeneity and functional sub-compartments in cell populations

The paper introduces CscoreTool-M, a model-based method for inferring 3D genome sub-compartments from Hi-C data, showing higher accuracy in identifying heterochromatin regions and quantifying sub-compartment heterogeneity in cell populations.

High quality mapping of chromatin at or near the nuclear lamina for small numbers of cells

This paper introduces cTSA-seq, a method to map chromatin near the nuclear lamina from small cell numbers, revealing insights into chromatin organization during early G1 and senescent cells.

aFARP-ChIP-seq, a convenient and reliable method for genome profiling in as few as 100 cells with a capability for multiplexing ChIP-seq

aFARP-ChIP-seq enables genome-wide profiling of histone modifications and transcription factor binding sites in as few as 100 cells with multiplexing capability.

Lamins organize the global three-dimensional genome from the nuclear periphery

This study shows that lamins maintain TAD-TAD interactions and regulate chromatin domain interactions, which are correlated with transcription changes in mouse ES cells.

CscoreTool: Fast Hi-C Compartment Analysis at High Resolution

CscoreTool provides a fast and memory-efficient method for high-resolution A/B compartment analysis from Hi-C data, even with low sequencing depth.