RNA_Seq差异表达分析流程

最新推荐文章于 2025-06-10 16:06:48 发布

msw521sg

最新推荐文章于 2025-06-10 16:06:48 发布

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分类专栏：生物信息 python 文章标签： RNA-Seq hisat2 feature count python

本文链接：https://blog.youkuaiyun.com/msw521sg/article/details/58594486

本文详细介绍了RNA-Seq差异表达分析流程，包括数据下载、去除接头载体后的比对，以及使用hisat2、featureCounts进行处理，最终计算基因的FPKM值以评估差异表达。

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RNA_Seq差异表达分析流程

1、数据下载

ftp.sra.ebi.ac.uk/vol1/fastq/SRR122/005/SRR1228245/SRR1228245_1.fastq.gz;ftp.sra.ebi.ac.uk/vol1/fastq/SRR122/005/SRR1228245/SRR1228245_2.fastq.gz
ftp.sra.ebi.ac.uk/vol1/fastq/SRR122/006/SRR1228246/SRR1228246_1.fastq.gz;ftp.sra.ebi.ac.uk/vol1/fastq/SRR122/006/SRR1228246/SRR1228246_2.fastq.gz
ftp.sra.ebi.ac.uk/vol1/fastq/SRR122/007/SRR1228247/SRR1228247_1.fastq.gz;ftp.sra.ebi.ac.uk/vol1/fastq/SRR122/007/SRR1228247/SRR1228247_2.fastq.gz
ftp.sra.ebi.ac.uk/vol1/fastq/SRR122/008/SRR1228248/SRR1228248_1.fastq.gz;ftp.sra.ebi.ac.uk/vol1/fastq/SRR122/008/SRR1228248/SRR1228248_2.fastq.gz
ftp.sra.ebi.ac.uk/vol1/fastq/SRR122/009/SRR1228249/SRR1228249_1.fastq.gz;ftp.sra.ebi.ac.uk/vol1/fastq/SRR122/009/SRR1228249/SRR1228249_2.fastq.gz
ftp.sra.ebi.ac.uk/vol1/fastq/SRR122/000/SRR1228250/SRR1228250_1.fastq.gz;ftp.sra.ebi.ac.uk/vol1/fastq/SRR122/000/SRR1228250/SRR1228250_2.fastq.gz
ftp.sra.ebi.ac.uk/vol1/fastq/SRR122/001/SRR1228251/SRR1228251_1.fastq.gz;ftp.sra.ebi.ac.uk/vol1/fastq/SRR122/001/SRR1228251/SRR1228251_2.fastq.gz
ftp.sra.ebi.ac.uk/vol1/fastq/SRR122/002/SRR1228252/SRR1228252_1.fastq.gz;ftp.sra.ebi.ac.uk/vol1/fastq/SRR122/002/SRR1228252/SRR1228252_2.fastq.gz
ftp.sra.ebi.ac.uk/vol1/fastq/SRR122/003/SRR1228253/SRR1228253_1.fastq.gz;ftp.sra.ebi.ac.uk/vol1/fastq/SRR122/003/SRR1228253/SRR1228253_2.fastq.gz
ftp.sra.ebi.ac.uk/vol1/fastq/SRR122/004/SRR1228254/SRR1228254_1.fastq.gz;ftp.sra.ebi.ac.uk/vol1/fastq/SRR122/004/SRR1228254/SRR1228254_2.fastq.gz
ftp.sra.ebi.ac.uk/vol1/fastq/SRR122/005/SRR1228255/SRR1228255_1.fastq.gz;ftp.sra.ebi.ac.uk/vol1/fastq/SRR122/005/SRR1228255/SRR1228255_2.fastq.gz
ftp.sra.ebi.ac.uk/vol1/fastq/SRR122/006/SRR1228256/SRR1228256_1.fastq.gz;ftp.sra.ebi.ac.uk/vol1/fastq/SRR122/006/SRR1228256/SRR1228256_2.fastq.gz
ftp.sra.ebi.ac.uk/vol1/fastq/SRR122/007/SRR1228257/SRR1228257_1.fastq.gz;ftp.sra.ebi.ac.uk/vol1/fastq/SRR122/007/SRR1228257/SRR1228257_2.fastq.gz
ftp.sra.ebi.ac.uk/vol1/fastq/SRR122/008/SRR1228258/SRR1228258_1.fastq.gz;ftp.sra.ebi.ac.uk/vol1/fastq/SRR122/008/SRR1228258/SRR1228258_2.fastq.gz
ftp.sra.ebi.ac.uk/vol1/fastq/SRR122/009/SRR1228259/SRR1228259_1.fastq.gz;ftp.sra.ebi.ac.uk/vol1/fastq/SRR122/009/SRR1228259/SRR1228259_2.fastq.gz
ftp.sra.ebi.ac.uk/vol1/fastq/SRR122/000/SRR1228260/SRR1228260_1.fastq.gz;ftp.sra.ebi.ac.uk/vol1/fastq/SRR122/000/SRR1228260/SRR1228260_2.fastq.gz
ftp.sra.ebi.ac.uk/vol1/fastq/SRR122/001/SRR1228261/SRR1228261.fastq.gz;ftp.sra.ebi.ac.uk/vol1/fastq/SRR122/001/SRR1228261/SRR1228261_1.fastq.gz;ftp.sra.ebi.ac.uk/vol1/fastq/SRR122/001/SRR1228261/SRR1228261_2.fastq.gz
ftp.sra.ebi.ac.uk/vol1/fastq/SRR122/002/SRR1228262/SRR1228262_1.fastq.gz;ftp.sra.ebi.ac.uk/vol1/fastq/SRR122/002/SRR1228262/SRR1228262_2.fastq.gz
ftp.sra.ebi.ac.uk/vol1/fastq/SRR122/003/SRR1228263/SRR1228263_1.fastq.gz;ftp.sra.ebi.ac.uk/vol1/fastq/SRR122/003/SRR1228263/SRR1228263_2.fastq.gz
ftp.sra.ebi.ac.uk/vol1/fastq/SRR122/004/SRR1228264/SRR1228264_1.fastq.gz;ftp.sra.ebi.ac.uk/vol1/fastq/SRR122/004/SRR1228264/SRR1228264_2.fastq.gz
ftp.sra.ebi.ac.uk/vol1/fastq/SRR122/005/SRR1228265/SRR1228265_1.fastq