全长转录组应用系列一:可变polyA检测 全长转录组(Iso-Seq)是指利用三代单分子实时测序技术(SMRT),无需对RNA进行打断和拼接,即可直接获得完整的全长转录本。由于该方法可以获得全长转录本,因此与二代短序列测序技术的RNA-seq对比,侧重于转录本结构的分析,能够准确识别转录本同源异构体(isoform)、可变剪切、可变polyA...
RNA sequencing (RNA-seq) that utilises next-generation sequencing (NGS) is a powerful tool to understand transcriptional diversity and regulation at bulk and single-cell level. Using RNA-seq, we not only can perform differential gene expression analysis with better resolution, but also comprehensivel...
因为真核生物的mRNA都是有polyA尾巴结构,示意图如下: 但是慢慢的科研热点转到了lncRNA,虽然lncRNA只有部分具有polyA尾结构,但也意味着公共数据库里面海量的mRNA-seq表达矩阵里面,都是可以提取到lncRNA部分,新的分析图表就出来了。在很多综述或者教程都可以看到对lncRNA的这样的总结: 1.长度在200-100,000nt 2.没有...
Global overview of polyA-minus RNA sequencing in breast cancer tissues and matched adjacent cancer tissues.Xianfeng, DingLimin, ZhuTing, JiXiping, ZhangFengmei, WangShaoju, GanMing, ZhaoHongjian, Yang
To allow efficient transcript/gene detection, highly abundant ribosomal RNAs (rRNA) are generally removed from total RNA either by positive polyA+ selection or by rRNA depletion (negative selection) before sequencing. Comparisons between the two methods
The goal of NanoTail is to provide a set of functions to manipulate and analyze data coming from polyA lengths estimations done using Oxford Nanopore Direct RNA sequencing and Nanopolish software. Existing solutions, like Pipeline for testing shifts in poly(A) tail lengths estimated by nanopolish ...
Using transgenic mice with fluorescently labeled germ cells and fluorescence-activated cell sorting (FACS), we isolated germ cells from Dazl KO testes and WT controls and used RNA-sequencing (RNA-seq) to identify mRNAs that are sensitive to DAZL deletion. Integrating the RNA-seq and DAZL-RNA ...
Objectives The sequencing by the PolyA selection is the most common approach for library preparation. With limited amount or degraded RNA, alternative protocols such as the NuGEN have been developed. However, it is not yet clear how the different library preparations affect the downstream analyses ...
Also, the poly-A analysis modules were built based on EST sequencing and are not yet updated for use with next-gen RNA-Seq analysis. Add a custom footer Pages 14 PASA Pipeline Wiki Home Software Installation Instructions Running PASA via Docker Running PASA via Singularity Running the ...
RNA was extracted fromSaccharomyces cerevisiaecells (S288c) and GM12878 cells usingTRIzol-based methods: sequencing libraries were prepared from 1000 ng total RNA or 500 ng poly(A)-enriched RNA using the Direct RNA Sequencing Kit (SQK-RNA002) and run on MinION Mk 1B. Three different enrichme...