UMI RNASeq data analysis
1
0
Entering edit mode
2.4 years ago
struggler • 0

I am analysing UMI small RNASeq data for miRNA prediction. I used miRDP2 for novel miRNA prediction with default parameters. Can any one suggest me how to proceed for novel miRNA expression analysis?

expression miRDP2 UMIsmall RNAseq miRNA analysis • 635 views
ADD COMMENT
0
Entering edit mode
2.4 years ago
kanika.151 ▴ 150

I hope this helps.

miRNA analysis pipeline

ADD COMMENT
0
Entering edit mode

Thanks Kanika, I have looked into it but this pipeline use mirDeep2. And I am using miRDP2 (for plant), for expression analysis I am not sure how to get count values from mirDP2 output. Although I have tried following approach: 1>made database for predicted novel miRNA 2> map all filtered read over it 3> sam file to count file by samtools. 4> plot PCA But PCA plot does not any biological relevant pattern/distribution among the sample. Could anyone suggest how get count value from miRDP2 output or another way for novel expression analysis?

ADD REPLY

Login before adding your answer.

Traffic: 1463 users visited in the last hour
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6