How does one interpret polynomial quadratic regression of two variables ?

01 February 2019 4,995 8 View

How to carry out quality control using Trimmomatic on SRA reads of SAGE-RNASeq?

I have carried out a FASTQC analysis on raw reads of SAGE-RNASeq experiment from SRA database. Numerous overrepresented sequences have turned up pertaining to Illumina single end adapters and...

11 December 2016 8,201 0 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

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

Gel electrophoresis result for total RNA samples, 1.5 Agarose gel was used, How to improve the integrity of RNA?

Gel electrophoresis, RNA degradation, RNA extraction from fresh tissue

02 March 2021 5,433 5 View

How to code open-ended questions in SPSS?

Hello all, In SPSS I am going to code 2 open-ended questions. I have already read all the answers and I made a list of the most important categories to which I can code the answers. This question...

02 March 2021 1,757 4 View

Problem with shRNA transfection. Why are only two plates getting contaminated instead of all?

I transfected my LNCaP-WT cells with 3 shRNA plus their NTC two weeks ago and split two puromycin selected cell plates on Friday last week(Feb 26). I checked for GFP in the cells, and they all...

28 February 2021 4,949 3 View

How to eliminate Steady state error from Reinforcement learning genetic algorithm code?

The following code (see 1st 2 images attached) is used to produce PID controller values that are designed to control the system (G). The code finds the PID controller values (noted as k) by using...

28 February 2021 6,560 14 View

How can we simulate an hyperelastic-viscoelastic behavor with Ansys APDL?

I am working on modeling and simulation of biomecanical material behaviour, I have succeded on simulating skin using anisotropic hyperelastic material, on APDL and in our lab's finite element...

28 February 2021 552 3 View

Any specific pipeline or parameter to analyse total transcriptomics study of brain tissue samples?

I have two groups of brain samples, control and treated for example. It was total RNA nova seq sequencing. I tried all the available pipeline like: star+rsem+deseq2, Hista+stringtie+cuffdiff,...

27 February 2021 356 6 View

Why is the efficiency of viral mRNA electroporation in PBMC low?

Hello, I have been struggling with the electroporation of PBMC with HIV-I mRNA. Although the quality of the RNA generated is good, and the handling of the cells in meticulous, the frequency of...

27 February 2021 9,233 3 View

Statistics: include groups of respondents made by one person for analysis?

Good morning, I could not find literature about this so I am asking. I am organizing data for a questionnaire (N=100) that foresees some personal questions like level of education. For the aim...

25 February 2021 2,090 4 View

Modeling viscosity using model of Chung?

Hello, As part of simulation of gases mixture and water, I need to calculate viscosity of the fluid components and I am using relationships proposed by Chung et al. (1988). The irony is while I...

25 February 2021 8,053 5 View

What is the best concentration of cDNA to be used for qPCR?

I have synthesised cDNA from 500ng/ul of RNA. The concentration of the cDNA Is about 5000ng/ul. Should I dilute my cDNA or just use it as it is for my qPCR? I usually use 2ul of cDNA for a 20ul...

24 February 2021 8,618 3 View