研究者进一步通过多组学数据的整合分析(包括染色质可及性全基因组鉴定技术、转录组时序分析、高通量染色质构象技术和CTCF基因组结合位点捕获技术),研究发现,红系祖细胞中CTCF快速降解后,数千个特定的染色质可及性区域显著下降,而仅有数...
接下来，作者研究CBS的变化是否会影响“环挤出模型”以及其绝缘性能。作者通过转基因鼠模型发现，在全基因组水平，特定CBSs形成染色质环并不依赖于模体（motif）定向，而是很可能依赖于环结构变化。作者还发现，CBSs的序列多样性以及其定向与绝缘性能关系不大。再下来，作者研究CTCF结合与EP边界功能之间的关系。作者发现...
CTCF typically binds a 20 base-pair consensus DNA sequence, but the full diversity of CTCF binding sites (CBS) within the genome has not been interrogated. We assessed CTCF occupancy in cultured cortical neurons and observed surprisingly that~22% of CBS lack the consensus CTCF motif. We report...
3、 Jpx RNA拮抗CTCF对靶标基因的结合 从头基序分析(De novo motif analysis)鉴定出18种Jpx结合基序,其中数个与已知的转录因子结合基序显示出相似性,特别是CTCF的结合位点。此前研究发现Jpx可以将CTCF从Xist启动子上驱逐下去【5】,于是作者使用ChIP...
V. et al. A novel sequence-specific DNA binding protein which interacts with three regularly spaced direct repeats of the CCCTC-motif in the 5′-flanking sequence of the chicken c-myc gene. Oncogene 5, 1743–1753 (1990). CAS PubMed Google Scholar Heger, P., Marin, B., Bartkuhn, M...
while a conserved base at position 9 of the 19 bp CTCF binding motif was the most commonly mutated position at CBSs in general, the CBS hotspot mutations had the highest enrichment in the 4 bp sequence flanking the 5′ end of the CTCF motif. Furthermore, C>T changes, which are rel...
For CTCF binding site deletions, we removed 9, 13, and 16 bp of the core CTCF binding motif at the Malt1, Fbn2, and Sox2 loci, respectively, and replaced them by an EcoRI recognition site (GAATTC) to facilitate screening (Figure S2B). We obtained multiple homozygous deletion (del/del)...
优势二 数据高标准交付优势三 组织样本使用illumina原厂Tn5酶优势四 积累5年超过5000多例项目的冷冻组织提核实践，涉及干细胞、软骨，神经元、胎盘，各种昆虫等高难度样本类型。优势五 ATAC-seq motif分析，ATAC-seq与RNA-seq联合分析一网打尽，应有尽有。3嘉因生物-ATAC-seq客户文章 ...
If so, the CTCF binding sites may belong to distinct classes, each compatible with a specific functional role. Results We have classified approximately 26,000 CTCF binding sites in CD4+ T cells into three classes based on their similarity to the well-characterized CTCF DNA-binding motif. We ...
We have classified approximately 26,000 CTCF binding sites in CD4+ T cells into three classes based on their similarity to the well-characterized CTCF DNA-binding motif. We have comprehensively characterized these three classes of CTCF sites with respect to several evolutionary, genomic, epigenomic,...