Nick Gilbert

The paper compares two scRNA-seq platforms to quantify transcriptional noise and identifies gene length and CpG-island promoters as factors influencing noise levels.

The paper shows that nucleosome positioning determines chromatin's physical state, with irregular positioning enabling accessibility for transcription while maintaining genome protection.

The paper shows CpG islands act as topological sinks for transcription-induced DNA supercoiling by focusing torsional stress and promoting DNA melting.

This study identifies a non-centromeric role for CENP-B in binding hairpin motifs in chromosome arms, leading to dysregulated gene expression upon depletion.

The paper identifies cohesin-dependent 3D chromatin structures called fountains around active enhancers in C. elegans, showing their role in repressing enhancer activity and linking genome architecture to behavior.

The paper identifies TOP2B as a regulator of genome-nuclear lamina interactions, showing its role in partitioning genomic regions between the nuclear lamina and interior, with LBR playing a complementary role.

This study shows that embryonic stem cells (ESCs) have a chromatin structure similar to differentiated cells, challenging the idea that their pluripotency is driven by a globally open chromatin conformation.

This paper shows that RNA and SAF-A form a microgel network in the nucleus near the sol-gel transition, exhibiting viscoelastic properties and reconciling solid-like and fluid-like behaviors.

This study shows BRG1 creates subnucleosomes that allow OCT4 to bind and function at enhancers beyond its DNA motifs.

The paper uses simulations to link 3D gene structure with transcription noise in human chromosomes, showing structural heterogeneity drives gene expression variability.

The paper investigates the chromatin structure changes during human centromere formation, finding that it involves active transcription and open chromatin, while surrounding regions become repressed and compact.

This study identifies RIF1-Long's role in promoting G1 phase 53BP1 nuclear bodies to protect against replication stress and enhance cell survival.

SuperStructure identifies complex protein structures in SMLM data without prior assumptions or parameters.

The paper shows that common fragile sites (CFSs) have faulty condensin loading leading to chromatin instability and mitotic DNA synthesis during replication stress.

The paper introduces capC-MAP, a software package for analyzing Capture-C data, and benchmarks it against another package for similar data.

The paper develops a polymer model to predict 3-D chromatin folding using epigenetic and structural data, validated on gene loci across cell types.