The relevance of three-dimensional (3D) genome organization for transcriptional regulation
and thereby for cellular fate at large is now widely accepted. Our understanding of the …

Over the past decade, methods for predicting three-dimensional (3-D) chromosome and
genome structures have proliferated. This has been primarily due to the development of high …

Replication forks terminate at TERs and telomeres. Forks that converge or encounter
transcription generate topological stress. Combining genetics, genomics, and transmission …

High-throughput assays for measuring the three-dimensional (3D) configuration of DNA
have provided unprecedented insights into the relationship between DNA 3D configuration …

The chromosomes in eukaryotic cells are highly folded and organized to form dynamic three-
dimensional (3D) structures. In recent years, many technologies including chromosome …

Recent advances in chromosome conformation capture technologies have led to the
discovery of previously unappreciated structural features of chromatin. Computational …

Motivation The 3D structure of chromatin in the nucleus is important for gene expression and
regulation. Chromosome conformation capture techniques, such as Hi-C, generate large …

Abstract Motivation Three-dimensional (3D) genome organization plays important functional
roles in cells. User-friendly tools for reconstructing 3D genome models from chromosomal …

To investigate three-dimensional (3D) genome organization in prokaryotic and eukaryotic
cells, three main strategies are employed, namely nuclear proximity ligation-based methods …

We present ScaleTrotter, a conceptual framework for an interactive, multi-scale visualization
of biological mesoscale data and, specifically, genome data. ScaleTrotter allows viewers to …