Current methods to identify sites of RNA interaction with the genome are limited to the study of a single RNA at a time. Here we describe a protocol for ChAR-seq, a strategy to identify all chromatin-associated RNAs and map their DNA contacts genome-wide. In ChAR-seq, proximity ligation ...
全基因组测序和重测序 - 组装以及寻找变异 (外显子和目标区域测序) RNA-seq测序 - 基因表达 (smRNA,lncRNA,circRNA,PB全长,可变剪切) 甲基化测序 ChIP-seq和ATAC-seq 蛋白组 - 所有蛋白的变化 代谢组 - 植物尤其是茶叶经常用 免疫组库测序 - TB细胞 单细胞 三维基因组测序 测序只是一种工具,关键是研究问...
1.使用DNA甲基化组来显示染色质开放性,避免了核酸酶的偏好性问题,且结果同时提供了DNA甲基化组和染色质开放性的信息,配合转录组测序(RNA-seq),可一次性组合出特定状态下全基因组的甲基化修饰、蛋白结合以及基因表达调控的复杂网络,是功能强大的复合型分析。 2.基于二代测序(NGS)的甲基化测序结果中,经过PCR扩增,...
Epigenetic security experts headed by Dónal O’Carroll (University of Edinburgh) recognized that the piRNA (PIWI-interacting RNA) pathway ensured transposon methylation and silencing to support germline development in male mice; however, the mechanisms controlling the precision and timing of this epigenet...
Chromatin and single-cell RNA-seq profiling reveal dynamic signaling and metabolic transitions during human spermatogonial stem cell development. Cell Stem Cell 21, 533–546 (2017). Article CAS PubMed PubMed Central Google Scholar Wu, J. et al. The landscape of accessible chromatin in mammalian...
RNA sequencing All RNA-Seq analyses were performed in R (www.R-project.org). All heat maps and their hierarchical clustering were computed using the pheatmap package. If the number of values to be clustered exceeded 1000, rows were pre-aggregated usingk-means clustering. ...
ChIP-seq (chromatin immunoprecipitation [ChIP] combined with deep sequencing) of RNA polymerase II (RNAP II) demonstrated that FUS stalls RNAP II and ... Akio,Masuda,Jun-ichi,... - 《Genes & Development》 被引量: 58发表: 2015年
先与RNA-seq的数据相结合,首先计算每个细胞亚类中单个核的可及性,将255828个远端cCRE连接到14861个假定的靶基因上,结果是在500kb内总共有1661975个gene-cCRE对。接下来,确定cCRE的亚群,其可及性与假定靶基因的表达呈正相关,因此可以在神经元或非神经元类型中作为推测的增强子(图2F,底部)。总共揭示了265049对...
c Enrichment of accessibility of proximal regulatory elements for marker genes as identified by single-cell RNA-seq. Dot diameter, proportion of cluster cells with proximal regulatory elements for a given gene; colour, mean accessibility across cells in that cluster. d UMAP visualization of cell ...
RNAi pathways have evolved as important modulators of gene expression that act in the cytoplasm by degrading RNA target molecules via the activity of short (21-30nt) RNAs1-6 RNAi components have been reported to play a role in the nucleus as they are involved in epigenetic regulation and hete...