How to find lncRNA when I already knew target microRNAs? · Biostar

This is a test version of Biostars. For the public version, visit https://www.biostars.org.

How to find lncRNA when I already knew target microRNAs?

Hi! I'm a new guy from China.
I have known 5 microRNAs (sequence and function) already, and I want to find some lncRNAs which can regulate these microRNAs. I have already find some lncRNA-microRNA interaction data from starbase and lncRNASNP, my question is if I want to analyse and search my lncRNAs, what's my next step?
hope someone can tell me detailed steps！
Thanks a lot!

rna-seq assembly chip-seq

• 1,713 views • link

updated 7.5 years ago by Kevin Blighe

• written 9.3 years ago by charlesleewd •

1 answer

Hello,

You should take a look at DIANA, which is still receiving funding and is in active development. It has experimentally-validated and also in silico predicted lncRNA - Micro RNA interactions.

Kevin

• 1 views • link

written 7.5 years ago by Kevin Blighe

Log in to answer this question.

More posts like this

Basic question about lncRNA identification
written 2.2 years ago by ZZOYEA •

Hello, I am currently conducting an analysis to identify lncRNA in a human cell line. I have used STAR-cufflinks-cuffmerge pipeline and successfully identified novel lncRNAs. …
Analysis of unknown lncRNAs
written 3.3 years ago by imaparna27 •

After performing differential expression analysis, I have a list of lncRNAs with their Ensembl IDs, since all of them are novel transcripts, in what ways …
Finding counts of lncRNAs with htseq-count /featurecounts
written 4.8 years ago by bart •

Hi, I'm trying to find the counts of novel and known lncRNA transcripts in humans and I have a GTF file already of these transcripts. …
Estimating gene set enrichment using Fishers exact test
written 7.5 years ago by Biologist

Hi, I'm working with lung cancer data and I'm interested in lncRNAs, I would like to identify lncRNAs that target key pathways. Recently, I read …
FEELnc and how to work with the results
written 7.6 years ago by iraia.munoa

Hi everybody, I am using FEELnc to annotate all lncRNAs present in my RNA-Seq samples. But when understanding the results I don't know how to …
how to use WGCNA to predict lncRNA targets?
written 8.2 years ago by fanglujing •

Hi, I found some lncRNA sequences from my RNA-seq results, and I want to find the lncRNA targets form the rest of RNA-seq results. I …
lncRNA target interaction prediction
written 9.7 years ago by nazaninhoseinkhan

Dear all, As a part of a project I tried to find out if there is any interaction between a list of mRNAs and a …
lncRNA target identification
written 9.9 years ago by nazaninhoseinkhan

Dear all, I am trying to find out if any of my lncRNA sets (278) can interact with my candidate gene sets (28). I have …
Relative microRNA comparison from from TCGA data?
written 11.5 years ago by TJ •

I have a conceptual question that I was hoping someone could answer. Can I say that microRNA A is expressed x-fold greater than microRNA B …
Tool: Miranalyser: A Microrna Detection And Analysis Tool For Next-Generation Sequencing Experiments
written 14.0 years ago by Istvan Albert

[**miRanalyser**][1] is a free web-server tool for the processing of small-RNAs data obtained from next generation sequencing techniques such as the Genome Analyzer of Illumina …