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ATAC-seq (Assay for Transposase-Accessible Chromatin using sequencing) is a technique used in molecular biology to assess genome-wide chromatin accessibility. [1] In 2013, the technique was first described as an alternative advanced method for MNase-seq, FAIRE-Seq and DNase-Seq. [1]
Of interest in the context of Hi-C, and all 3C-based methods, is the ability of formaldehyde to capture cis chromosomal interactions between distal segments of chromatin. [ 1 ] [ 4 ] [ 15 ] [ 16 ] It does so by forming covalent links between spatially adjacent chromatin segments.
Chromosome conformation capture techniques (often abbreviated to 3C technologies or 3C-based methods [1]) are a set of molecular biology methods used to analyze the spatial organization of chromatin in a cell. These methods quantify the number of interactions between genomic loci that are nearby in 3-D space, but may be separated by many ...
Chromatin Immunoprecipitation sequencing, also known as ChIP-seq, is an experimental technique used to identify transcription factor binding events throughout an entire genome. Knowing how the proteins in the human body interact with DNA to regulate gene expression is a key component of our knowledge of human diseases and biological processes.
ChIP-sequencing, also known as ChIP-seq, is a method used to analyze protein interactions with DNA. ChIP-seq combines chromatin immunoprecipitation (ChIP) with massively parallel DNA sequencing to identify the binding sites of DNA-associated proteins. It can be used to map global binding sites precisely for any protein of interest.
Two methods for single-cell ATAC-seq [8]. ATAC-seq stands for Assay for Transposase-Accessible Chromatin with high throughput sequencing. [9] It is a technique used in molecular biology to identify accessible DNA regions, equivalent to DNase I hypersensitive sites. [9]
While MNase-seq is primarily used to sequence regions of DNA bound by histones or other chromatin-bound proteins, [2] the other three are commonly used for: mapping Deoxyribonuclease I hypersensitive sites (DHSs), [6] sequencing the DNA unbound by chromatin proteins, [7] or sequencing regions of loosely packaged chromatin through transposition ...
ChiRP-Seq (Chromatin Isolation by RNA purification) is a high-throughput sequencing method to discover regions of the genome which are bound by a specific RNA (or by a ribonucleoprotein containing the RNA of interest). Recent studies have shown that a significant proportion of some genomes (including mouse and human genomes) synthesize RNA that ...