Optimal exosome RNA library prep?

10 October 2015 1 286 Report

I am a little confused on what to focus on. miRNAs are the most important, but there are longer RNAs in exosomes too... is there a way to sequence both at the same time? Or would it be better to do that separately? Why?

Sandip Chakraborty

You can please follow the links below to obtain certain interesting informations:-

1. http://www.sciencedirect.com/science/article/pii/S1046202312001867

2. https://cofactorgenomics.com/exosome-rna-seq-primer/

3. http://www.hindawi.com/journals/bmri/2013/253957/

4. http://www.biomedcentral.com/1471-2164/14/319

Badges
Science topic

More Stefan Kurtenbach's questions See All

piRNA yRNA locations in the human genome?

Where can I find a BED file (or any other file) with all chromosomal locations of piRNAs and yRNAs in the human genome? Thanks!

02 March 2019 5,114 1 View

How does quantile normalzationwork for sequencing tracks, for instance ChIP seq?

I understand the basic concept of quantile normalization, but am wondering how exactly that works for sequencing data. Say there are two sequencing tracks, where one has more background noise. How...

04 May 2018 2,926 0 View

Mm9 enhancer reference fiile

Is there a reference file (bed) for enhancer regions in the mouse genome (mm9) ?

06 July 2017 2,706 1 View

No RNA after blood plasma ultracentrifugation of exosomes?

I'd be very grateful for some ideas... Blood plasma was generated by differential centrifugation (200g, 2000g, and 16.000g for 15 min). Frozen at -80deg for a few days. After thawing, plasma was...

03 April 2016 3,599 4 View

What alternatives to a t-test can I use when the mean values of different measurement days differ significantly?

I made measurements on three different days, comparing two different mouse strains. The data is noisy, but strain A was much better in a task than strain B, on all three days. However, the mean...

06 July 2014 6,306 25 View

Any advice on inhibiting ATPases by heat?

I want to apply fluids to ex vivo samples and measure ATP in them after some time. I was wondering if I can heat the fluid samples after taking them off the tissue to say 70 deg C, to inactivate...

01 February 2014 9,442 7 View

Does anyone know a good inhibitor to prevent extracellular ATP hydrolysis?

I want to measure ATP release ex vivo, but fear that ATP is broken down too quickly. Any experiences? Thanks!

01 February 2014 1,917 1 View

Test if cells burst?

I want to shake cells to mechanically stimulate ATP release, but am afraid that some cells will burst. Is there a good test to check the supernatant afterwards for that?

11 December 2013 7,575 6 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

Can I base on reverse DNA sequences to perform alignment, convert to amino acids and GenBank submission?

I have reverse sequences (AB1 format), can I base on reverse DNA sequences to perform nucleotide alignment, convert nucleotides to amino acids and deposit the sequence in GenBank database?

11 August 2024 5,138 1 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

How to confirm the site-directed mutagenesis result without performing NGS?

I'm cloning a fragment of 3200 nts into plasmid. The cloning was successful, however, 02 amino acids were mutated. Now I want to fix these 02 aa by site-directed mutagenesis technique using...

08 August 2024 4,645 2 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

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