Difficulty in getting 5'RACE products

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Is there any software that will help to present the read coverage in the form of graphs?Could anybody kindly help me to resolve the issue?

I am mapping the raw reads to the contigs generated by de novo assembly of the same reads and want to represent the read coverage in the form of graph..

08 September 2016 9,999 6 View

Can anybody help me to run AfterQC for NGS sequence data quality check?

I have some Illumina sequence data. I want to check its quality using afterQC program but the problem is that AfterQC is running but no graphs are generating. Anybody could fix the problem.

08 September 2016 1,181 1 View

Could anybody help me to overcome the DNA isolation problem from fish gut content?

I am interested to study the microbial diversity of fish gut content. I am using QIAmp DNA stool mini kit for isolation of microbial DNA from fish gut contentas per manufacturers instruction, but...

04 May 2016 8,568 6 View

How to validate the putative SNPs? Which method is suitable for this purpose?

SNPs are abundant in the genome of any organism. We are in the process of SNP development through RNA-seq. We want to validate them by taking a panel of 48 unrelated individuals. The polymorphic...

07 August 2013 4,870 7 View

I am working in window based systems and want to load ubunto onto my PC. Can anyone kindly help me?

Since almost all the programs used for NGS data analysis are runing in linux environment, Linux (like Ubunto) is to be loaded in the PC.

04 May 2013 4,815 7 View

How to calculate sex specific recombination frequency?

I am using Joinmap version 4.1 for linkage analysis in F1 mapping population using microsatellite markers. While analysing I was not able to calculate sex specific recombination frequency...

03 April 2013 8,650 0 View

I am using an F1 mapping panel for linkage analysis

Microsatellites are the choice of markers in many non model organisms for linkage map construction. I am working on a non model fish species and developed around 140 informative markers in order...

01 February 2013 4,247 6 View

Construction of genetic map is based on recombination frequencies.

I am working on construction of genetic map of a fish species using LINKMFEX software. Could any body guide explain why recombination frequency differes in Male amd Female parents and how to...

08 September 2012 6,116 0 View

I wish to clone and characterize a gene in a species in which its sequence is not available. Can anyone suggest how I can proceed?

Since its sequence information is not available which method should I follow?

03 April 2012 2,236 4 View

Can any one please explain in detais about QTL mapping in F2 design?

Linkage based QTL mapping is one of the hot topic now adays.

10 November 2011 8,416 1 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