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Questions related from Stefanie Malan
I am interested in doing paired-end 16S rRNA sequencing of the V4 region. The size of this region is about 251bp, I was advised by the sequencing company to use 150bp pared-end, however, does that...
20 January 2021 4,181 4 View
I am interested in culturing and using intestinal organoids in functional analyses. I am based at UCM, Madrid, and would like to know if anyone locally or in the greater Spain has experience with...
18 June 2020 5,154 0 View
I was advised to use Simpson's diversity index for my 16S rRNA gut microbiome data, as it is better suited for compositional data (compared to the other alpha diversity metrics out there). Could...
27 May 2020 6,185 0 View
Can anyone recommend validated online (web-based) questionnaires to evaluate neuropsychiatric disorders/symptoms?
10 October 2017 4,882 3 View
When investigating the interaction between lincRNAs and coding RNAs, do I use the primary RNA sequence (before splicing occurs) containing the introns and exons, or the spliced sequence (without...
17 May 2017 5,027 2 View
How many reads/sample is required for species level identification when performing 16S rRNA sequencing of the gut microbiome?
30 September 2015 419 9 View
When sequencing human gut microbiomes, what is the optimum sequencing coverage for metagenomic shotgun sequencing of the gut microbiome?
11 March 2015 7,207 3 View
I can only find ranges of 100mg/kg for systemic administration, but I am specifically looking at DCS infused into the hippocampus of rats, at which concentrations is DCS neurotoxic?
08 January 2015 2,578 5 View
We are planning on doing microbiome analyses with next generation sequencing and would like to know what kits we should use for collection and extraction of microbial DNA?
07 July 2014 2,482 18 View
We are having trouble extracting RNA from Oragene samples; we have very low 260:230 ratios and certain samples have very low concentrations. We have tried the RNAeasy kit, the trizol and a...
10 February 2014 1,308 1 View
Which products or brands would you recommend for performing miRNA luciferase assays to determine if an mRNA sequence is a direct target of the particular miRNA? Specifically relating to the miRNA...
04 June 2013 538 1 View
Has anyone freeze-dried their miRNA samples (in a separate small RNA fraction, not in total RNA) in order to increase the concentration? Does it affect the RNA integrity?
21 November 2012 444 13 View
Has anyone used the Apollo324 kit for miRNA seq experiments? Apparently it works well with small amounts of starting material. I would also like to know if anyone has used a small RNA fraction (
17 August 2012 1,871 1 View
We have used 16 S rRNA seq to look at differences in gut microbial composition between patients and controls. Now we want to use qPCR to verify the findings, however, I have only used qPCR before...
01 January 1970 9,377 5 View
