Heterogeneous anomalous transport in cellular and molecular biology
TA Waigh, N Korabel - Reports on Progress in Physics, 2023 - iopscience.iop.org
It is well established that a wide variety of phenomena in cellular and molecular biology
involve anomalous transport eg the statistics for the motility of cells and molecules are …
involve anomalous transport eg the statistics for the motility of cells and molecules are …
Cohesin and CTCF control the dynamics of chromosome folding
In mammals, interactions between sequences within topologically associating domains
enable control of gene expression across large genomic distances. Yet it is unknown how …
enable control of gene expression across large genomic distances. Yet it is unknown how …
4D epigenomics: deciphering the coupling between genome folding and epigenomic regulation with biophysical modeling
Recent experimental observations suggest a strong coupling between the 3D nuclear
chromosome organization and epigenomics. However, the mechanistic and functional …
chromosome organization and epigenomics. However, the mechanistic and functional …
Stochastic motion and transcriptional dynamics of pairs of distal DNA loci on a compacted chromosome
Chromosomes in the eukaryotic nucleus are highly compacted. However, for many
functional processes, including transcription initiation, the pairwise motion of distal …
functional processes, including transcription initiation, the pairwise motion of distal …
Polymer folding through active processes recreates features of genome organization
From proteins to chromosomes, polymers fold into specific conformations that control their
biological function. Polymer folding has long been studied with equilibrium thermodynamics …
biological function. Polymer folding has long been studied with equilibrium thermodynamics …
Temporally correlated active forces drive segregation and enhanced dynamics in chromosome polymers
Understanding the mechanisms governing the structure and dynamics of flexible polymers
like chromosomes, especially the signatures of motor-driven active processes, is of great …
like chromosomes, especially the signatures of motor-driven active processes, is of great …
Transcription regulates the spatio-temporal dynamics of genes through micro-compartmentalization
Although our understanding of the involvement of heterochromatin architectural factors in
sha** nuclear organization is improving, there is still ongoing debate regarding the role of …
sha** nuclear organization is improving, there is still ongoing debate regarding the role of …
Genome modeling: from chromatin fibers to genes
The intricacies of the 3D hierarchical organization of the genome have been approached by
many creative modeling studies. The specific model/simulation technique combination …
many creative modeling studies. The specific model/simulation technique combination …
Painters in chromatin: a unified quantitative framework to systematically characterize epigenome regulation and memory
In eukaryotes, many stable and heritable phenotypes arise from the same DNA sequence,
owing to epigenetic regulatory mechanisms relying on the molecular cooperativity of 'reader …
owing to epigenetic regulatory mechanisms relying on the molecular cooperativity of 'reader …
Dynamical phase transition in models that couple chromatin folding with histone modifications
Genomic regions can acquire heritable epigenetic states through unique histone
modifications, which lead to stable gene expression patterns without altering the underlying …
modifications, which lead to stable gene expression patterns without altering the underlying …