How to predict mature miRNA's from dsRNA?

Suneel Narayanavari @Suneel-Narayanavari

14 May 2014 1 8K Report

I have a double stranded RNA (dsRNA) sequence (~300 nt long). Are there any bioinformatic tools to predict its products after cleavage by Dicer (presuming that it is already processed by Drosha).

Debasish Mukherjee

This is really an interesting question.

I don't know whether any software do exactly what you are looking for, but I think you can predict miRNA from the dsRNAs if you able to tweak the available open source software, say for example miRDeep2 etc.

Badges
Science topic

More Suneel Narayanavari's questions See All

How can we connect the FRP tube (modeled as shell element) to concrete (modeled as solid element) in LsDyna?

I am simulating my thesis work which includes concrete column and FRP tube. I used some of the contact card available in LsDyna but the simulation result is not good enough. Please share your...

27 May 2024 3,758 0 View

Carbon Sequestration to Mitigate Climate Change?

31 January 2024 7,810 7 View

Collections of Green House Gases From Gas Sampling?

Collections of Green House Gases From Gas Sampling? How to collect green house gases? Methods of Collections?

31 January 2024 3,544 2 View

Natural resources management for crop production?

31 January 2024 3,538 3 View

Causes of Natural Degradation?

31 January 2024 186 1 View

Carbon pool vs carbon sink?

carbon pool vs carbon sink?

31 January 2024 4,029 2 View

What is the difference between carbon storage and sequestration?

31 January 2024 1,508 3 View

Climate adaptation vs mitigation?

climate adaptation vs mitigation?

31 January 2024 2,666 3 View

Carbon Sequestration and Mitigation ?

31 January 2024 6,514 2 View

How can be reduce the fertilizers consumption?

31 January 2024 9,759 10 View

Is there a problem with my RNA pellet?

Hello, I am currently having problems with RNA extraction. I am using mouse liver (C57BL6J), and I have extracted RNA from mouse liver before. Before this experiment, my final RNA pellets were...

11 August 2024 7,082 3 View

Strugglling with m6A dot blot any suugesstion ?

I have been doing the m6A dot blot for a while with no improvement, I am extracting the RNA, and I can see the dots although the three biological replicas give a different reading on the memberan...

10 August 2024 8,539 5 View

RNA Extraction Using Hot Borate Method No Longer Working?

I've been performing RNA extraction on cotton petiole tissue for a few months now using the method described in the following paper, a derivative of the typical hot borate method...

08 August 2024 9,882 2 View

Does Anyone have expertise in in vitro transcription and RNA pull down assay?

I am currently working on LncRNA; to know the lncRNA-protein interactions I want to do RNA pull down assay, so I need to design primers with T7 promoter. I need assistance in this regard.

07 August 2024 6,622 1 View

E.coli contamination in human RNA seq data ?

Recently, we observed that 99% of the sequences in our RNA-seq data corresponded to the E. coli genome. Despite multiple DNAse treatments after RNA extraction and ribosomal depletion, we were...

06 August 2024 807 3 View

RNA later for the preservation of RNA in fecal samples at room temperature for one day (37°C)?

I am planning to collect human fecal samples for metatranscriptomic analysis using MGI. These samples are from indigenous people living in a region with high temperatures. I will have access to a...

06 August 2024 1,367 3 View

Anyone having idea about VN primer for miRNA primer design ?

How to design VN primer to attach with universal reverse primer

05 August 2024 2,116 3 View

Why did the authors extrapolate a phenotype that they experimentally proved in one bacterial strain across the whole genus of the organism?

I aim to be as skeptical as possible regarding whether a pair of orthologous genes results in the same phenotype in their different but related bacterial organisms under similar environmental...

05 August 2024 6,787 4 View

Why my colony PCR results of my recombinant bacterial not showing any results?

I am performing ligation of the plasmid and a target gene. The steps I have taken are: 1. Double digestion of the plasmid and target gene 2. Ligation of the plasmid with the target gene 3....

05 August 2024 2,570 3 View

Do you have good tips for seaweed tissue preservation in the field for post RNA extraction?

I will be with my students collecting seaweed samples in a marine farm and later we will process this tissue for RNA isolation and further sequencing. Does anyone have tips on how to collect the...

04 August 2024 501 2 View