最后,对细胞中RNA表达的空间信息的探究,是RNA- seq研究的一个新领域,在最近的研究中显示出很大的前景。参考文献Hrdlickova R, Toloue M, Tian B. RNA-Seq methods for transcriptome analysis. Wiley Interdiscip Rev RNA. 2017 Jan;8(1):10.1002/wrna.1364. doi: 10.1002/wrna.1364. Epub 2016 May 19. ...
Transcriptome analysis methods for RNA-Seq dataDewey, Colin NLi, Bo
What is the transcriptome and RNA-Seq? The term transcriptome is another way to refer to the total RNA, whether from a single cell or a population of cells. It can also refer to the total mRNA, with a focus on gene expression and what is be...
Transcriptome analysis by next-generation sequencing (RNA-seq) allows investigation of a transcriptome at unsurpassed resolution. One major benefit is that RNA-seq is independent of a priori knowledge on the sequence under investigation, thereby also allowing analysis of poorly characterized species. Here...
transcriptomes. RNA-Seq also provides a far more precise measurement of levels of transcripts and their isoforms than other methods. This article describes the RNA-Seq approach, the challenges associated with its application, and the advances made so far in characterizing several eukaryote ...
Hrdlickova, R., Toloue, M. & Tian, B. RNA-Seq methods for transcriptome analysis.Wiley Interdiscip. Rev.: RNA8, e1364,(2017). Adiconis, X.et al. Comparative analysis of RNA sequencing methods for degraded or low-input samples.Nat. Methods.10, 623–629 (2013). ...
RNAseq-materials and methods RNA Extraction Preparation for Next-Generation Sequencing Total RNA was extracted using TRK-1001 total RNA purification kit (LC Science, Houston, TX) following the manufacturer's procedure. The total RNA quantity and purity were analysis of Bioanalyzer 2100 and RNA 6000 ...
空间RNA-seq(Spatially resolved RNA-seq methods) Bulk RNA-seq和scRNA-seq可以提供很多信息,但是却不能描绘空间水平上的转录状态,也无法揭示细胞状态和转录的联系。目前空间组学(spatialomics)的方法有两种:空间编码(spatial encoding)和原位转录组(in situ transcriptomics)。...
HISAT全称为Hierarchical Indexing for Spliced Alignment of Transcripts,由约翰霍普金斯大学开发。它取代Bowtie/TopHat程序,能够将RNA-Seq的读取与基因组进行快速比对。这项成果发表在3月9日的《Nature Methods》上。 HISAT利用大量FM索引,以覆盖整个基因组。以人类基因组为例,它需要48,000个索引,每个索引代表~64,000...
High-throughput RNA sequencing (RNA-seq) promises a comprehensive picture of the transcriptome, allowing for the complete annotation and quantification of all genes and their isoforms across samples. Realizing this promise requires increasingly complex computational methods. These computational challenges fall...