What about free web based microRNA tools for pathway analysis?

24 January 2023 1 3K Report

Hi,

can someone tell me if the web based tools for multiple miRNAs pathway builbing are also available?

I tried to run my list of miRNAs in Diana Mirpath, MirTargetLink 2.0, Tarbase and others, but it seems that for all of them the service does no longer exists...

Thanks in advance,

Debora

Saurabh Mandal

hi Debora Olioso

I have checked the Diana Mirpath, MirTargetLink 2.0, Tarbase. They are functional. Links are attached below. I added a few more, may find helpful.

https://dianalab.e-ce.uth.gr/html/mirpathv3/index.php?r=mirpath

https://diana.e-ce.uth.gr/lncbasev3

https://dianalab.e-ce.uth.gr/diana-map/

https://www.mirnet.ca/miRNet/home.xhtml

https://ccb-compute.cs.uni-saarland.de/mirtargetlink2

https://tools4mirs.org/software/target_functional_analysis/#

https://mirtarbase.cuhk.edu.cn/~miRTarBase/miRTarBase_2022/php/index.php

Regards

Saurabh

Badges
Science topic

More Debora Olioso's questions See All

Help to isolate Ralstonia from plant tissue?

I need tips for isolating Ralstonia solanacearum from eucalyptus. I have used some methods, such as isolating from root exudates, but it didn't work. I also tried indirect isolation from macerated...

02 July 2024 9,807 3 View

Multilocus phylogenetic analysis or core genome phylogeny. I need help. ?

Guys, I need help with phylogeny. I am very new to this field and currently trying to position a bacterial strain. I have selected four crucial loci for the genus, but I am encountering...

02 March 2024 6,182 3 View

Comparative Genomics Visualization Tool. Help??

Guys, good night. I need to use a comparative genomics tool that demonstrates synteny between three species of a genus. But I would like something more visual. I've already used mauve, I don't...

03 January 2024 600 3 View

Could someone who performs bioinformatic analyses recommend a software for removing alignment gaps in the core genome?

I've tried trimAl and Gblocks, but I'm unable to access the programs through the provided links. Thank you. :)

10 December 2023 4,232 4 View

Why is my eNpHr (halorhodopsin) not showing up in my projections study, but my control virus is?

I am injecting 1.0uL of viral vector into the locus coeruleus and looking for axon projections in the BLA and IL. When I do immuno for the control virus (2.1x10^12 concentration) it all looks...

01 August 2023 2,056 0 View

Hi everyone. Any idea about online/offline consent form (App)? Which can be used in research?

I need to collect data but minimize contact between interviewer and interviewee

21 March 2023 5,440 1 View

Can anyone help with glass PEI coating for yeast immobilization?

I would like to immobilize fungal cells (Candida and Saccharomyces cerevisiae) onto the surface of glass beads in order to use them, after the immobilization, as the inoculum to obtain a liquid...

14 February 2023 1,530 1 View

Oaxaca decomposition how to interpretate values ?

Hello, I am writing my thesis and facing troubles in interpreting the Oaxaca decomposition. The goal is to see what is the gap between the two years in the test results where the predictors are...

17 August 2022 9,904 0 View

Is there a database for Roman shipwrecks?

Good day to all I am in the process of updating my documentation on Roman wrecks containing amphorae. However, I am confused by the fact that some vessels have appeared in the literature with...

19 September 2021 7,720 3 View

Which software can be used to run multi-directional efficiency analysis (MEA) scores with non-discretionary inputs under the non-oriented analysis?

I know that R Software specifically Benchmarking package can be used to assess the MEA scores but I don't know how to capture the non-discretionary inputs when running a non-oriented analysis.

30 August 2021 2,694 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

How to select relevant metabolites from multiple annotations ?

I am using the Polyomics Integrated Metabolomics Pipeline (PiMP) for metabolite feature analysis. After annotating my data, I have encountered cases where multiple potential metabolites are...

24 July 2024 5,789 0 View

Which modeling software and force field suitable for miRNA-mRNA molecular simulation?

Hello everyone, I am currently working on miRNA- mRNA interaction study. Further, I would like to do MD simulations for the miRNA-mRNA models. For the Simulation, I have modelled this complex...

24 June 2024 3,507 2 View

Is it possible to quantify activity of the non-canonical Wnt signaling pathway via transcriptional readout genes??

Hello, From my (naive) understanding, there are several target genes of the canonical Wnt signaling pathway that serve as reliable/validated transcriptional readouts of pathway activity. These...

18 June 2024 4,699 0 View

Which is the best small Extracellulare Vesicles (sEVs) concentration to obtain enough RNA for miRNA analysis?

Hello to everyone, I'm trying to extrtact total RNA from sEVs. I made a first experiment starting from 2x10^10 sEVs quantified by NTA but the RNA obtained was very low (under 20ng/ml) Do you have...

18 June 2024 2,799 4 View

What is the best way to synthesize cDNA of miRNA; using poly A kit or stem loop PCR?

Recently, I have been trying to quantify the expression of miRNA. I have extracted the miRNA. However, I am not clear about using the cDNA synthesis kit usually there are two kits providing by...

16 June 2024 9,723 2 View

Extraction RNA with miRVANA kit?

Hello everyone, I would like to know if any of you ever tried to assess the yeld of RNA extraction with the mirVana™ miRNA Isolation Kit, without phenol from ThermoFisher. I am experincing some...

06 June 2024 5,715 4 View

I need guidance how to design primers for miRNA?

The size miRNA is 89 bps and the primers I have designed (using traditional method for designing gene primers) should give an amplified product of 71 bps. But I am getting product of higher...

23 May 2024 7,570 3 View

Should the target miRNA level decrease after the miRNA inhibitor transfection when checked with qPCR??

I have a question regarding target miRNA expression after transfection with antisense miRNA (miRNA inhibitor). I understand that the expression of the target miRNA will increase after mimic...

20 May 2024 5,920 4 View

Webserver for identifying activation and repression of TFs, genes, and miRNAs?

Hello. Is there any webserver where I can input a set of transcription factors, genes, and miRNAs, and it can provide me with statistical data on how TFs either activate or repress genes and...

18 May 2024 5,848 1 View