Hi everyone,
I'm trying to find tools/pipelines in order to do the analysis of miRNAs from RNA-seq data, but I'm overwhelmed by the amount...
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best bioinformatic methods for identification of miRNAs for differential expression
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Small RNA-seq with UDIs for Illumina® NovaSeq®, MiSeq®, & HiSeq® 2000/2500 sequencers
PerkinElmer’s NEXTFLEX® Small RNA-seq v3 kit is now available with UDIs for dual indexed miRNA sequencing on the Illumina® NovaSeq®, MiSeq®, and HiSeq®... -
Interpretation of mircat results in UEA sRNA workbench.
I am dealing with computational analysis of micro RNAs in tea. For the identification of novel and mature miRNAs i am using uea sRNA workbench (more specifically... -
miRNA seed sequence to target zebrafish genome
Hello,
Does anyone have any advice on how I can take a 7mer seed sequence of about 500 miRNAs and run a blast on all zebrafish genes in order... -
How to name lncRNA and miRNA
Hello everyone
I would like to ask you about how to name lncRNA and miRNA.
Following paper suggests that the part of lncRNA were named... -
Do UMIs reduce small RNA-Seq bias?
Our recent blog post explores strategies for reducing bias in small RNA sequencing, including the use of UMIs and randomized adapters.Last edited by Bioo Scientific; 06-29-2017, 10:19 AM. -
Read mapping to mir-21a in a mir-21 Knock-out mouse
Hoping the community can provide some insight. I manage a NGS core facility and recently did some miRNA-Seq for a user. The library kit was NEB Next Small... -
Bowtie to analyze miRNA
Hi everyone,
I have 50 bp single end miRNA reads from mouse generated on the MiSeq. So far I have trimmed adapters using Cutadapt and now... -
oncoNcRNA: ncRNAs (lncRNAs, miRNAs) with Oncogenic Potentials in Human Cancers
We had released oncoNcRNA, a web portal for explore various ncRNAs (lncRNAs, miRNAs, piRNAs, snoRNAs, tRNAs) with oncogenic potentials in 64 human cancer... -
MSA on large scale of sequences?
Hello guys,
I have 15 miRNA seq, around 8MB each. What i am trying to do is, apply Multiple Sequence Alignment and get a consensus sequence... -
microRNA and NGS platform
Our lab is deciding whether to use Illumina or Ion Torrent for our ongoing microRNA experiments. We are interested in both discovery and profiling. ... -
Transcription Factor Binding Sites, Motifs and Profiles from ChIP-seq data
ChIPBase v2.0 is designed for studying transcription factor binding sites and motifs, and decoding transcriptional regulatory networks of non-coding RNAs... -
Bowtie2 for miRNA-Seq
Hopefully someone can help. I have read conflicting info about aligners for miRNA data but I have finally decided on Bowtie2. I have 3 questions:
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Rsubread for miRNA
For micro RNA (miRNA) data, the following aligners are recommended specifically for these short sequences:
MicroRazerS (www.seqan.de/proje... -
Rsubread for miRNA
For micro RNA (miRNA) data, the following aligners are recommended specifically for these short sequences:
MicroRazerS (www.seqan.de/proje...
