转录组学习

Posted 2020-09-30 Digital-LI

参考：https://github.com/xuzhougeng/Learn-Bioinformatics/

转录组入门（1）: 工作环境准备

miniconda2

在里面安装各种工具

conda create -n biostar sra-tools fastqc hisat2 samtools htseq

 

转录组入门(2)：读文章拿到测序数据

AKAP95 regulates splicing through scaffolding RNAs and RNA processing factors. Nat Commun 2016 Nov 8;7:13347. PMID: 27824034

用到RNA-seq的部分：

AKAP95 mainly promotes inclusion of exons globally.

To assess the global impact of AKAP95 on AS, we depleted 耗尽 AKAP95 in human 293 cells and mouse ES cells, and performed RNA-seq followed by DEXseq analysis29 to identify the differential exon usage in the cellular mRNAs.

（DEXSeq包是用来分析RNA-seq实验数据中exon usage的差异，这里exon usage的差异指的是由于实验条件导致的相对不同的exon usage）