转录组组装(Transcriptome assembly): 构建基因组转录区域的轮廓,是一种定性评估 能被用于帮助建立更好的基因模型,并使用组装来验证 元转录组学或群体转录组学分析 Illumina建库(library preparation)法 当开始一个RNA-seq实验时,每一个样本的RNA都需要被提取并转化为可用于测序的cDNA文库。建库的每一步常规流程都在...
这一过程涉及一个或多个不同的比对(alignment),组装(assembly)与定量(quantification)亚过程,或者是可以在单个步骤中从读长计数中,整体地生成表达矩阵。 第3阶段是通过过滤低表达特征来改变表达矩阵,这一步的关键步骤是对原始读长计数进行归一化,用于解释样本之间的技术差异。 第4阶段是样本组之间的统计建模与协变量...
Assembly of sequenced reads into transcripts can be broadly categorized into two types: referenced-based or de novo. Based on alignment methodology, the reference-based assemblers are grouped into two major categories, namely hash-table-based or prefix/suffix matching algorithms. The objective of ...
RNA-seq：基于二代测序技术，研究特定细胞在某一功能状态下所有RNA的功能，主要包括mRNA和非编码RNA。能够全面快速地获得某一物种特定组织或器官在某一状态下的几乎所有转录本序列信息，已广泛应用于基础研究、临床诊断和药物研发等领域。Q20,Q30：Phred 数值大于20、30的碱基占总体碱基的百分比，其中Phred=-10log10(...
Comprehensive assembly of novel transcripts from unmapped human RNA-Seq data and their association with cancer CAFU: a Galaxy framework for exploring unmapped RNA-Seq data RNA-seq有哪些常规分析? 常规分析 i) expression of protein coding and non-coding RNAs, ...
英文标题:Thylakoid protein FPB1 synergistically cooperates with PAM68 to promote CP47 biogenesis and Photosystem II assembly 发表期刊:Nature communications 发表时间:2024.04.10 技术策略:翻译组, RNA-seq 客户单位:上海师范大学 影响因子:16.6 物种样本:拟南芥叶片 ...
[9]Trapnell, C., et al., Transcript assembly and quantification by RNA-Seq reveals unannotated transcripts and isoform switching during cell differentiation. 2010. 28(5): p. 511. [10]Sun, L., et al., Utilizing sequence intrinsic composition to classify protein-coding and long non-coding tr...
Trinity RNA-Seq de novo transcriptome assembly Resources Readme License BSD-3-Clause, Unknown licenses found Licenses found BSD-3-Clause LICENSE Unknown LICENSE.txt Activity Custom properties Stars 852 stars Watchers 56 watching Forks 320 forks Report repository Releases 36 Trinity Release...
6. De novo RNA-Seq Assembly and Analysis Using Trinity The following details the steps involved in: Generating a Trinity de novo RNA-Seq assembly Evaluating the quality of the assembly Quantifying transcript expression levels Identifying differentially expressed (DE) transcripts ...
(ftp://ftp.ebi.ac.uk/pub/databases/gencode/Gencode_human/release_31/GRCh37_mapping/GRCh37.primary_assembly.genome.fa.gz)• 人类hg19转录注释GTF文件(ftp://ftp.ebi.ac.uk/pub/databases/gencode/Gencode_human/release_31/GRCh37_mapping/gencode.v31lift37.annotation.gtf.gz)• 人类hg19转录...