Vladimir B. Teif

TL;DR: Nucleosome-depleted regions around transcription start and transcription termination sites were broad and more pronounced for active genes, with distinct patterns for promoters classified according to CpG content or histone methylation marks.

TL;DR: A brief description of main experimental features of DNA condensation inside viruses, bacteria, eukaryotes and the test tube and main theoretical approaches for the description of these systems are presented.

TL;DR: The linkages between DNA methylation, hydroxymethylation, nucleosome repositioning, and binding of the transcription factor CTCF during differentiation of embryonic stem cells are dissected and a quantitative biophysical model of competitive binding with the histone octamer is modeled.

TL;DR: A theoretical approach that takes into account both the intrinsic affinities of histone proteins to a given DNA sequence and the ATP-dependent activities of chromatin remodeling complexes that can translocate nucleosomes with respect to the DNA is reported.

TL;DR: An integrative biophysical and bioinformatics analysis in species ranging from yeast to frog to mouse where NRL was studied as a function of various parameters shows that in simple eukaryotes, a lower limit for the NRL value exists, determined by internucleosome interactions and remodeler action, and demonstrates that different regimes of the NRL dependence on histone concentrations exist depending on whether DNA sequence-specific effects dominate over boundary effects.