WebFeb 7, 2024 · To further investigate whether all possible 23,679 CTCF sites correspond to genuine signal, we examined nucleosomal and THSSs ATAC-seq data around these sites. Results show that indeed all 23,679 CTCF sites are sensitive to Tn5 transposition and are flanked by five to seven well-positioned nucleosomes marked by H3K4me1 on either … We performed genome-wide functional annotation using the experimental design shown in Fig. 1a. Briefly, six epigenetic data types were profiled in eight tissues (liver, lung, spleen, skeletal muscle, subcutaneous adipose, cerebellum, brain cortex, and hypothalamus) collected from sexually mature male chickens, pigs, … See more The data generated allowed the discovery of co-occurring histone modifications, CTCF binding, chromatin accessibility, and gene expression, … See more The data generated in this study represents an important resource for comparative analysis as it provides a set of epigenomic assays from the same tissues at the same … See more Previous comparative studies from ENCODE and modENCODE have shown that while some properties of gene regulation are highly conserved, the specific sequence and genomic position of functional REs are … See more
Hardison RC. Promoter competition in globin gene control. Blood.
WebFeb 7, 2024 · The sperm genome is bound by CTCF and cohesin at sites that are also present in round spermatids and embryonic stem cells (ESCs). These sites mediate interactions that organize the sperm genome into domains and compartments that overlap extensively with those found in mESCs. These results suggest that sperm carry a rich … WebAug 24, 2024 · However, acute depletion of CTCF globally reduces chromatin interactions but does not significantly alter transcription. Results: Here, we systematically integrate multi-omics data including ATAC-seq, RNA-seq, WGBS, Hi-C, Cut&Run, and CRISPR-Cas9 survival dropout screens, and time-solved deep proteomic and phosphoproteomic … canon canoscan lide 500f treiber windows 10
CTCF-mediated transcriptional regulation through cell type
WebJul 11, 2024 · In the female germline, based on the presence of ATAC-seq sites containing the CTCF motif, CTCF sites appear to be present in the germinal vesicle (GV) oocyte, where they form loops, and remain in mature MII oocytes without contributing to the 3D organization of metaphase chromosomes at this stage. CTCF-dependent organization is … WebMouse ATAC-seq data were aligned and filtered based on the mm9 reference genome and analyzed with the same pipeline and tools as human Omni-ATAC ... J. E. J. Rasko, CTCF and BORIS in genome regulation and cancer. Curr. Opin. Genet. Dev. 24, 8–15 (2014). Crossref. PubMed. Google Scholar. 49. R. Brignall et al., Integration of kinase and ... WebJun 8, 2024 · The Hi-C, RNA-seq, CTCF ChIP–seq, ATAC-seq datasets generated and analyzed for the current study are available in the Gene Expression Omnibus (GEO) database under accession number GSE140528. flag of pennsylvania colony