Where in the cell is RNA made? Why is chromatin packaged after DNA replication? What is the type of cell in which most DNA is found in the nucleus? What is the difference between DNA, chromatin, and chromosomes and what is the significance of each form?
What is meant by the “beads on a string” model of chromatin? The DNA and histone proteins provide the first level of compaction for DNA inside the nucleus. The basic unit of structure of chromatin is the nucleosome. A nucleosome is formed when DNA is wrapped around histones (the protein...
Chromatin architecture is a fundamental mediator of genome function. Fasting is a major environmental cue across the animal kingdom, yet how it impacts three-dimensional (3D) genome organization is unknown. Here we show that fasting induces an intestine-specific, reversible and large-scale spatial ...
Footprint-free prediction of TF binding and chromatin information One alternative to determine f-VICEs for TFs without ChIP-seq data is to rely on binding predictions using chromatin accessibility data. This motivated us to first evaluate the performance of current TF binding prediction algorithms. Mo...
Previous work has shown that there are three types of canonical sequences that strongly regulate nucleosome positioning and thus chromatin accessibility: putative nucleosome-positioning elements, putative nucleosome-repelling sequences, and homopolymeric runs of A/T. It is postulated that these elements ...
of remodeled chromatin. Current chromatin accessibility assays are used to separate the genome by enzymatic or chemical means and isolate either the accessible or protected locations. The isolated DNA is then quantified using a next-generation sequencing platform. Wide application of these assays has ...
Chromatin Immunoprecipitation (ChIP) coupled with high-throughput massively parallel sequencing as a detection method (ChIP-seq) has become one of the primary methods for epigenomics researchers, namely to investigate protein-DNA interaction on a genome-wide scale. This technique is now used in a ...
19, like in a “sea of nucleosomes”22. Nucleosomes within disordered chromatin are proposed to form heterogeneous groups of variable sizes and densities—interspersed with nucleosome-free regions23. Furthermore, the density of nucleosomes, rather than the structure of the 30-nm fiber, is what ...
What is it shaped like? Answer in full sentences. DNA, or deoxyribonucleic acid, is the hereditary material in humans and almost all other organisms. DNA is composed of molecules called nucleotides. DNA is often found in the cell’s nucleus, however, sometimes a small amount of DNA is found...
Intriguingly, while promoters are less methylated on the active X than on the inactive X, the opposite is true for CpGs in the bodies of genes on the X chromosome [30]. Highly expressed autosomal genes were also found to have hypomethylated promoters and hypermethylated gene bodies in a ...