How does one interpret polynomial quadratic regression of two variables ?

01 February 2019 4,995 8 View

Improving RAM usage of GNU parallel blast?

Running a GNU parallel blast uses only ~2% of my memory per core. My system has a quad-core 24 GB RAM. 1.Can I affect the speed of blast process and reduce the time of run by alloting more memory...

08 September 2016 8,304 2 View

How can I use a proxy with authentication details for R or Rstudio?

I am using R 3.2 and Rstudio in Windows 7. Since, I am using a proxy internet connection, I always get the 407 proxy authentication error. I have tried setting environment variables with my proxy...

01 February 2016 6,558 2 View

Computational requirements to assemble a small mammalian genome (~600 Mb)?

Please provide a minimal advisable requirement of RAM and CPU Cores. Also, provide the time (in hours or days) required per such assembly, if experienced.

01 February 2016 8,591 9 View

Is it possible to predict long non-coding RNAs without a reference genome?

01 February 2016 2,496 2 View

What are the most intriguing questions in the field of non-coding RNA studies?

The field of non-coding RNA research is one of the quickly emerging areas in the world of science. Few years ago, we had just tRNA and rRNA; then suddenly we had ribozymes and now we have the...

09 October 2015 7,131 1 View

How do grid cells get the message that the individual has ventured into a new location in space?

How does a grid cells get the information?

01 February 2015 5,411 4 View

How can we add chemical residues to the pdb structure of an RNA molecule in In silico mode?

I've to add a methyl group to the C-5 of a Uracil base in the 3D structure of an RNA molecule. Please suggest tools to do so.

06 July 2014 2,328 4 View

Can anyone help me set up a high performing cluster running on Ubuntu Linux in my laboratory with 128 Gb RAM, 32 Core processor and 1 TB memory?

I have two Quad core HP Z400 workstations and two quad core Acer Veriton series with i3 processor.

04 May 2014 5,863 16 View

What are the basic computing skills needed to learn Next-Generation sequencing?

Linux, Perl, C or C++; are these important to ace before learning sequence analysis in NGS?

02 March 2014 1,313 9 View

Enhanced Yellow Fluorescent Protein (Aequorea victoria) DNA sequence?

I am on the lookout for the Enhanced Yellow Fluorescent Protein (Aequorea victoria) DNA sequence. Does anyone know where I can find it? Thank you in advance

03 March 2021 3,568 1 View

In PRIMER, is it possible to downweight certain taxa in multivariate community datasets to reflect uncertainty around identification??

I have a dataset with about 80 different species. As usual, some species are very easy to identify with certainty whereas others are more difficult, which means that I am less certain of my...

03 March 2021 8,066 4 View

PACYC PCR not working after several attempts. Would anyone have any suggestions?

So, I have been trying to run a pACYC PCR which will be used later on for a Gibson Assembly. However the PCR is not working. I have already tried gradient PCR and changing extension time; however...

02 March 2021 1,146 2 View

How to calculate the annealing temperature of a primer pair?

I have to amplify a gene and my primers just reached. The Tm for Forward primer is 64.2, and that of reverse primer is 65.5. Can some one suggest how to get the best annealing temperature? Thanks...

01 March 2021 360 7 View

Is it possible for two human neuronal cell lines to have different gene sequence for the same protein?

I am looking at the ATP1A2 (Sodium/Potassium ATPase alpha subunit 2) in two human neuronal cell lines. Expression levels of this protein seems to be almost equal when detected by one antibody....

01 March 2021 3,607 3 View

Anybody with an idea on how do design specific primers for detecting tomato resistance genes tm-1, TM-2 and Tm2^2?

I am trying to identify these 3 genes among some tomato cultivar collections and after aligning some sequences from NCBI, I couldn't find unique sequences to target for specific primers. There...

28 February 2021 606 3 View

What is the ideal efficiency for a qPCR?

hello everyone, I need to do standard curves for my qPCR, what is the ideal efficiency range? I tried a primer (Mglu2 receptor) that gave an efficiency of 90.2%. Is it accepted?

28 February 2021 1,254 3 View

MiRNA qpcr problem?

Dear All, mirna primer showing some problem in the melting curve? any idea why? As attached is the melting curve. The forward sequence is obtained from miRBase and reverse primer is universal.

28 February 2021 5,008 4 View

Runs of nucleotides in Sanger sequencing?

I performed site directed mutagenesis, transformation, and then I sent out plasmids for Sanger sequencing and found out that there is extension of DNA just before the stop codon. I am not sure...

27 February 2021 547 3 View

Calculating volume of DNA required from DNA concentration?

Hi I am a bit confused. They are asking me to find out the volume of DNA required in ul (a total of 30-100 ng for genomic DNA) from the DNA concentration in the nanodrop reading which was 404.8...

26 February 2021 5,029 2 View