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Questions related to Small RNA
Hi, I am preparing a new project on lncRNAs in human cancer cell lines. I scanned through many high-impacted journals to find the best RNA isolation kit that would also isolate small RNAs and that...
10 February 2021 4,329 5 View
I am now working on small RNA sequencing from exosome. For library preparation I used Takara SMARTer® smRNA-Seq Kit for Illumina®. The sequencing results are not good. The company used HiSeq X ten...
23 June 2020 4,700 3 View
Alternatively I would like to know if there's any bacterial promoters that are recommended for expressing small RNA molecules?
20 February 2020 1,184 4 View
I am looking for suggestions to improve the yield of my libraries prepared using Illumina True seq small RNA library prep kit. Input RNA is purified small RNA (50 ng) and I run for 15 PCR cycles....
04 February 2020 2,734 2 View
02 February 2020 8,677 2 View
Hi everyone! I work with Mesenchymal Stem Cells-derived exosomes and I am interested in doing next generation sequencing of exosome-derived small RNAs. After isolation, I obtain a very small...
14 January 2020 7,200 3 View
Hello Can i do a DEG with Mir-seq data with this method ? 1/ mapping my data with human reference genome 2/ annotated miRNA locations with the result, (this way i get rid of the rRNA, tRNA and...
05 January 2020 1,556 4 View
01 January 2020 9,321 2 View
I am currently using miRDeep2 to identify miRNAs in a non-model organism (a butterfly). After running mapper.pl to map the small RNA reads to the genome, I used miRDeep2.pl to predict novel miRNAs...
01 January 2020 9,058 3 View
How to dilute lyophilised biotin labelled ssRNA probe which was synthesized to do the northern blot of small RNAs.
07 July 2019 6,265 1 View
I am currently try to in vitro synthetize a small RNA. My DNA template is composed by two oligos that annealed for 20 bases, one of the two contain a T7 promoter. After annealing step (done in a...
05 May 2019 1,074 4 View
Does anyone know of a good cDNA synthesis method for small RNAs of low input (0.1pg-0.5pg-1ng) for routine usage? Thank you
04 April 2019 9,739 1 View
I have some RNA transcripts about 130nt long on a Bioanalyzer run, and they should be closer to 100nt. I think it's due to secondary structure. What's the maximum temperature at which I can...
22 March 2019 8,933 1 View
I am interested to do Insilco analysis: to download the small RNA sequence and RNA-Seq data sets of coffea arabica from NCBI and identify different small RNAs from these datasets, identify long...
03 March 2019 3,549 1 View
I have high peaks in the fast region of my total RNA as seen in the attached pictures. The samples 9 and 12 have different problems, with 12 probably being somehow contaminated and 9 being...
19 February 2019 3,460 3 View
i want to identify all the interacting proteins with a small rna of about 100 nt in size in an in vivo system , i was thinking of using ms2 tagged affinity pulldown assay , but since it a very...
10 February 2019 1,533 2 View
02 February 2019 9,117 4 View
I have generated 3D structure of a small RNA hairpin using simRNA web server. I need to add Hydrogen before its MD simulation in Gromacs. Please suggest a software for the same.
28 January 2019 9,953 3 View
Hi everyone, I did RNA-seq for small RNA, and now I want to confirm the results with qPCR. What is the best way to find reference miRNA genes from the NGS data, for the normalization of the...
13 January 2019 1,645 3 View
Hi everyone, I am trying to perform a in vitro DICER assay to see if the RNAs that I am studying could be cleavage in to small RNA fragment. There might be many different fragments in my total RNA...
11 November 2018 3,620 2 View
Hello I did several times to detect the miRNA by northern blot. Briefly explain my protocol. Small RNA was prepared by extraction kit and load the 2.5ug of RNA on 15% TBE-urea gel 1hour. After...
21 October 2018 620 8 View
I am currently working on a small RNA sequencing experiment, and am having difficulties with the final step of library preparation. Several of the protocols I follow say that the final gel...
10 October 2018 346 2 View
Hi I am analyzing a small RNA dataset. I read in a paper that reads occurring less than 5 times were filtered. I was wondering how to it exactly. If anyone can help Thanks in advance
08 August 2018 1,403 2 View
08 August 2018 928 2 View