16s rRNA sequences

More Azeem Mehmood Butt's questions See All

Is there any free geographic information system (GIS) software to map epidemiology of a disease and its features on a country map?

Dear all Could anyone please tell me how to integrate epidemiological data with region? I am looking for a way/tool to show epidemiology of a disease and its features on a country map? For...

08 September 2016 8,531 7 View

What is best way to correlate real time PCR values with biochemical features?

Hello everyone I would like to ask question about situations where gene expression values are used to correlate with clinical features of samples under investigation. For example, in an...

31 December 2014 4,068 5 View

Has anyone used the spike-in for circulating microRNA?

I would like to know if there is anyone who has worked specifically with QIAGEN cel-miR 39 spike-in using the QIAGEN miRneasy mini kit.

04 May 2014 9,484 3 View

Why am I getting aqueous phase contamination with Trizol?

I am using the QIAGEN miRNeasy kit for total RNA isolation from tissue and serum samples as per manual instructions. However, I am facing issues with the phenol contamination and the 260/230...

04 May 2014 311 7 View

Can anyone advise me on codon usage analysis, ENC vs GC3 values?

In codon usage studies, it is observed that a correlation between ENC and GC3 values is plotted as a curve following Wright's, 1990 method and hypothesis. However, what should be the case when a...

11 December 2013 784 1 View

Rights of students enrolled in Universities and Research Institutes?

I would like to have your opinions on rights of students when they are enrolled in different degree programs considering following case as an example: 1. A student is studying for his/her higher...

08 September 2013 9,303 9 View

Why is the polynomial trend line inverted?

I am trying to perform the correspondence analysis between the set of values of GC3 and ENC, given in the attached Microsoft Excel sheet. The problem is that I have applied trend line (polynomial)...

07 August 2013 6,138 2 View

Could anyone please tell me if is there any tool/server available for miRNA target prediction in user specified genomes?

There are several target prediction tools but they are limited in terms of options that we can select humans, mouse etc genomes. What if the genome sequence of any other organism, which is not...

06 July 2013 9,981 2 View

COX protein isolation from Blood/serum

Hello everyone Could anyone please tell me is it possible to isolate COX protein from serum or whole blood samples for western blotting?

02 March 2013 8,469 2 View

Annotation of viral genomes

Please suggest a reliable free software/server for annotation of newly sequenced viral genomes

01 February 2013 2,322 7 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

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

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

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

What is the acceptable p-value cutoff for GO enrichment analysis ?

I have an RNA-seq data that I have analysed using Limma-voom and have extracted the gene IDs, log2FC and the p-values. At p value < 0.05, I have over 10,000 DEGs, however, when I run the GO...

31 July 2024 225 2 View

Inquiry on Maximum Nucleic Acid Volume for 2.5 mL Liposome Solution?

I am currently working on a project involving liposomes and need to determine the maximum volume of siRNA that can be added to a 2.5 mL liposome solution with a total lipid concentration of 10...

30 July 2024 6,420 1 View

How to prediction 2D to 3D aptamer?

Hello, I have a little problem. Well, right now I only have the DNA aptamer sequence. I went to see the 2D model form with DNA folding. After that, I used RNA Composer to simulate in 3D and used...

30 July 2024 6,794 0 View

Shinjini Mukherjee

Http://rdp.cme.msu.edu/

Lekha Menon Margassery

http://www.arb-silva.de/browser/

http://rdp.cme.msu.edu/

These are the widely used ones.

Elisabeth Margaretha Bik

As mentioned by others, the RDP and Silva databases are good; another one would be Greengenes.

http://greengenes.lbl.gov/cgi-bin/nph-index.cgi

Hari Bhaskaran

Dr. Robin Gutell did a lot of work on comparative analysis of ribosomal RNA analysis; correctly predicted the structure of 16s ribosomal RNAs along with Harry Noller. He maintains a terrific website - http://www.rna.icmb.utexas.edu/