Chromatin-associated RNAs as facilitators of functional genomic ...
网页2019年6月3日 · This study reports a technology called GRID-seq to detect the RNA–chromatin interactome in fly and mammalian cells and revealed nascent-RNA-associated transcription hubs that link...
A simple and robust method for isolating and analyzing chromatin …
网页2022年12月12日 · In this study, we provided a detailed protocol for isolation of the chromatin-bound RNA from A. thaliana seedlings. Given the unique advantages of this approach, the CB-RNA extraction method is considered the most straightforward way for nascent RNA isolation.
Chromatin-Associated RNA Sequencing (ChAR-seq) - PubMed
网页In ChAR-seq, proximity ligation of RNA and DNA to a linker molecule is used to construct a chimeric RNA-DNA molecule that is converted to DNA for sequencing. In a single assay, ChAR-seq can discover de novo chromatin interactions of distinct RNAs, including nascent transcripts, splicing RNAs, and long noncoding RNAs (lncRNAs).
Chromatin isolation by RNA purification (ChIRP) and its applications
网页2020年1月1日 · Chromatin isolation by RNA purification (ChIRP) is a valuable method to map the genomic binding profile of chromatin-associated RNAs, such as long noncoding RNAs (lncRNAs) and circular RNAs (circRNAs).
Cellular Fractionation and Isolation of Chromatin-Associated RNA
网页Here, we describe a simple two-step differential centrifugation protocol for the isolation of cytoplasmic, nucleoplasmic, and chromatin-associated RNA that can be used in downstream applications such as qPCR or deep sequencing.
Chrom-seq identifies RNAs at chromatin marks | Science …
网页2024年7月31日 · Here, we developed a method termed Chrom-seq to efficiently capture RNAs associated with various chromatin marks in living cells. Chrom-seq jointly applies highly specific chromatin mark reader with APEX2, which catalyzes the oxidation of biotin-aniline to label the adjacent RNAs for isolation by streptavidin-coated beads.
Chromatin-associated RNAs as facilitators of functional genomic ...
网页The RNA-chromatin interactome of mammalian cells generated by global RNA interaction with DNA sequencing (GRID-seq) and that of Drosophila melanogaster produced by both GRID-seq and chromatin-associated RNA sequencing (ChAR-seq) provide a general landscape of chromatin-associated RNAs that belong to several important classes.
Cellular Fractionation and Isolation of Chromatin-Associated RNA …
网页2016年9月24日 · Here, we describe a simple two-step differential centrifugation protocol for the isolation of cytoplasmic, nucleoplasmic, and chromatin-associated RNA that can be used in downstream applications such as qPCR or deep sequencing.
A simple and robust method for isolating and analyzing chromatin …
网页2022年12月12日 · On-demand, the isolated chromatin-bound RNAs can be either used directly for gene-specific analysis or subject to further rRNA removal and also the optional polyadenylated RNA removal, followed by high-throughput sequencing. Detailed protocols for these procedures are also provided.
Chromatin-associated RNA sequencing (ChAR-seq) maps genome-wide RNA …
网页2018年4月12日 · RNA is a critical component of chromatin in eukaryotes, both as a product of transcription, and as an essential constituent of ribonucleoprotein complexes that regulate both local and global chromatin states. Here, we present a proximity ligation and sequencing method called Ch romatin- A ssociated R NA seq uencing (ChAR-seq) that maps all RNA ...