Stefanie Malan

11 Questions 16 Answers 0 Followers

Questions related from Stefanie Malan

Size for 16S rRNA V4 paired-end sequencing (Illumina)?

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 4,100 4 View

Are there any Spanish researchers with experience in culturing organoids (preferably intestinal)?

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 5,084 0 View

Why is Simpson's diversity better suited for microbiome compositional data?

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 6,083 0 View

Suggestions for reliable online questionnaires to evaluate neuropsychiatric disorder symptoms?

Can anyone recommend validated online (web-based) questionnaires to evaluate neuropsychiatric disorders/symptoms?

10 October 2017 4,781 3 View

How many reads/sample is necessary for species level identification (16S rRNA sequencing of the gut microbiome)?

How many reads/sample is required for species level identification when performing 16S rRNA sequencing of the gut microbiome?

30 September 2015 359 9 View

Which kits are best to use for isolating microbial DNA from stool samples?

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 2,402 18 View

What is the best protocol for extraction of high quality RNA from Oragene samples?

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 1,225 1 View

Products for functional miRNA experiments

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 472 1 View

Freeze-drying miRNA samples to increase concentration

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 377 13 View

Apollo324 kit for microRNA seq?

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 1,814 1 View

Using qPCR to verify 16S rRNA sequencing - what do I use as a reference in order to quantify the bacterial levels?

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 9,291 5 View