Andrew S. Belmont

Rewired mRNA homeostasis enforces cell-size associated senescence

This study shows that excess cell size drives senescence by altering mRNA homeostasis and reorganizing the genome, leading to the secretory phenotype and cell cycle arrest.

Acidic transcription factors position the genome at nuclear speckles through transcription dependent and independent mechanisms

The paper identifies acidic transcription factors that position genomic regions near nuclear speckles through both transcription-dependent and independent mechanisms.

Highly active chromosome regions preferentially associate with two perispeckle networks that partition the interchromatin space

The paper identifies two perispeckle networks that partition interchromatin space, showing differential gene expression associations compared to nuclear speckles.

Chromatin-associated lncRNA-splicing factor condensates regulate hypoxia responsive RNA processing of genes pre-positioned near nuclear speckles

The paper shows that MALAT1 long noncoding RNA forms condensates with splicing factors to regulate hypoxia-induced alternative splicing near nuclear speckles.

HSF1-dependent, long-range directional HSPA1 gene motion to nuclear speckles is coupled to DDX39B condensate dynamics

The paper shows HSPA1 genes move directionally near nuclear speckles, dependent on HSF1 and DDX39B condensates, enhancing gene expression.

An integrated view of the structure and function of the human 4D nucleome

The paper integrates 4D Nucleome data to analyze 3D genome structure and function in human cells, revealing chromatin domains, loops, and interactions, and showing how genetic variants affect genome folding.

Nonrandom interchromatin trafficking through dynamic multiphase speckle connections

The paper identifies dynamic multiphase connections between nuclear speckles that enable coordinated protein trafficking in response to physiological demands.

Beyond A and B Compartments: how major nuclear locales define nuclear genome organization and function

The paper examines genome organization in human cells relative to nuclear locales, finding that gene expression and replication timing correlate with different nuclear structures and that LADs and iLADs compete for lamina attachment.

Nucleome Browser: An integrative and multimodal data navigation platform for 4D Nucleome

Nucleome Browser integrates heterogeneous 4D Nucleome data into an interactive platform for visualization and exploration across biological contexts.

Identification of decondensed large-scale chromatin regions by TSA-seq and their localization to a subset of chromatin domain boundaries

The paper introduces TSA-seq to identify decondensed large-scale chromatin regions (DLCDs) and shows their association with chromatin domain boundaries.

TSA-Seq reveals a largely hardwired genome organization relative to nuclear speckles with small position changes tightly correlated with gene expression changes

SPIN reveals genome-wide landscape of nuclear compartmentalization

The paper introduces SPIN, a method to identify genome-wide nuclear spatial localization patterns by integrating nuclear compartment mapping and chromatin interaction data.

TSA-Seq Mapping of Nuclear Genome Organization

The paper introduces TSA-Seq, a method to measure chromosomal distances to nuclear structures and reveals a spatial gradient in genome activity correlated with nuclear compartments.

Nuclear speckle fusion via long-range directional motion regulates the number and size of speckles

The paper shows that nuclear speckles move directionally and fuse, reducing their number but increasing their size after transcriptional inhibition.

The 4D Nucleome Project

The paper outlines the goals and structure of the 4D Nucleome Project, which aims to map the spatial and temporal dynamics of the genome in human and mouse cells.