R-loops are RNA-DNA hybrid sequences that are emerging players in various biological processes, occurring in both prokaryotic and eukaryotic cells. In viruses, R-loop investigation is limited and functional imp
1.Amplification-Free Analysis of Bladder Cancer MicroRNAs on Wrinkled Silica Nanoparticles with DNA-Functionalized Quantum Dots. PMID: 38478499 2.Endonuclear Circ-calm4 Regulates Ferroptosis via a circR-Loop of the COMP Gene in Pulmonary Artery Smooth Muscle Cells. PMID: 39187041 3.RAD52 resolves t...
根据1,185个R-loop调节因子的表达数据进行WGCNA分析,筛选出与EGFR突变、组织起源和TNM分期相关的四个模块,来自四个模块的92个调节因子在DNA损伤/修复相关途径中显着富集,以此构建评分模型来表征R-loop状态。结果显示,低评分细胞在晚期肿瘤的恶性细胞组成中占主导地位,且KRAS和TP53突变患者的评分均显着较低(图2左)。
Fig. 1: APOBEC3B (A3B) interacts with R-loop-associated proteins. a,b, Shared proteins in A3B and S9.6 AP–MS datasets. c, Immunoblot and IF microscopy analysis of MCF10A-TREx-A3B-eGFP cells treated with vehicle or Dox (1 µg ml−1, 24 h). A3B-eGFP (green) is pre...
2024年9月5日,Nature Communications发表题为RAD52 resolves transcription-replication conflicts to mitigate R-loop induced genome instability的论文,揭示了DNA修复因子RAD52在协调转录和复制过程,维持基因组稳定性的重要作用。 在同一条DNA链上,转录和复制的冲突对基因组稳定性构成重大威胁。新转录的RNA分子与DNA模板...
尽管文章说他按照默认参数分别找narrow peak 和 broad peak, 即"We used MACS2 with default settings to call narrow (or broad when necessary) R-loop peaks",但是MACS2的默认参数一开始会根据reads在正反链的分布建立双峰模型,确定偏移模型(shifting model),也就是它会认为示例CHTF8和CIRH1A位于正反链的信号...
R-loop所在非模板链(又称编码链)具有很强的序列偏好性,计算方式为(G-C)/(G+C) R-loop的高通量分析方法目前都是依赖于S9.6抗体捕获RNA/DNA杂合体,然后超声打断或酶切,如果后续对DNA进行测序,那就是DRIP-seq(DNA:RNA immunoprecipitation [DRIP] sequencing),如果后续对RNA逆转成的cDNA继续测序,那就是 [DRIP...
2024年9月5日,Nature Communications发表题为RAD52 resolves transcription-replication conflicts to mitigate R-loop induced genome instability的论文,揭示了DNA修复因子RAD52在协调转录和复制过程,维持基因组稳定性的重要作用。 在同一条DNA链上,转录和复制的冲突对基因组稳定性构成重大威胁。新转录的RNA分子与DNA模板...
一个研究直接对A、B两种干预进行比较，这个叫做直接证据；所谓的间接证据的意思是，我们有研究比较了A和C、有研究比较了B和C，此时可以构建一个证据链(forming an A-B-C “loop” of evidence)进行AB之间的比较，这个就叫做间接证据。在临床实践中，若有一系列的药物可以治疗某种疾病，但文献报道的RCT均是药物与...
f, Immunofluorescence analysis of R-loop signals in DLD-1 cells with INTS11 or non-targeting (NT) shRNA and overexpression of wild-type (WT) or catalytically dead (E203Q) INTS11 and empty vector control. Scale bar, 10 μm. g, Quantification of the nuclear R-loop signals for f. ...