miRNA quantification on custom database
Hi everyone,
At the moment, I have some small-RNA enriched sequencing data from disease samples, read length is around 20-30 bp, tRNA largely dominated the datasets.
Could you please suggest any tool(s) or tutorials for:
Extract and assemble for only miRNA or pre-miRNA
Identify and quantify miRNA against a custom build database of miRNA
Differential expression tools that is tailored for miRNA (if any)
I am totally new to this analyses, so all comments are greatly appreciated! Thank you very much in advance for your help.
0 answers
No answers yet.
Log in to answer this question.
More posts like this
-
Question about constructing a consensus peak file for diffTF
written by lilithslily •
-
Best approaches to identify pathways uniquely affected by different drugs?
written by fnepo •
-
Best Practices for Integrating RNA-seq Time Series from Multiple Studies with Varying Protocols
written by enee •
-
Best practice for normalizing sequencing depth for differential miRNA expression?
written by Trivas •
-
Can NanoString ncounter miRNA data be analyzed with RNA-Seq tools?
written by myguestp •
-
News: Trinity RNAseq Workshop in Berlin
written by Physalia-courses
-
News: Trinity Workshop in Berlin (sold out)
written by Physalia-courses
-
How to perform KEGG enrichment analyses on a set of genes
written by miyakokodama •
-
Mirna Differential Expression
written by Ashutosh Pandey
-
What To Do With Enriched Tfbss
written by Davy
I recommend you to read the mirdeep2 article, it is probably one of the most widely used pipeline to analyze smallRNAseq data.
Thank you, I will check it