What is the status of bread making and more bakery foods with the use of insect flour/powder?

Insects have been consumed by human diet since prehistoric times. At present, the idea of looking at insects as food has been getting traction worldwide, also in response to increasing food...

03 March 2021 6,223 5 View

How optimize the Size Exclusion Chromatography?

Hello! I'll do a size exclusion chromatography, but I only have an open column, and I'll perform the peptide extraction from yeast, using buffer lysis (sodium phosphate 50 mM/NaCl 30 mM/DNAse and...

01 March 2021 2,215 2 View

How to make Fast Green FCF from powder?

Hi everyone We need Fast Green to electroporate plasmid into mice embryos, therefore we simply need it to see some color in the liquid we are electroporating so that electroporation is more...

07 February 2021 1,671 2 View

What is the best method for removing power-line interference (PLI)?

In the paper A wavelet-based method for power-line interference removal i... we propose a new method for removing PLI. This method consists in identifying the ECG and noise frequency range for...

29 December 2020 9,233 3 View

LINCS warning only with -pme gpu?

Dear all, I recently bought a RTX3080 and was unable to start the NPT and production steps due to lincs warning (my old gtx 1080ti card ran normally, using the same .mpd), I tried several...

18 December 2020 3,333 2 View

What is the relationship between induction machine stator reactance variation and slip?

It is possible to notice, at some three phase induction machine datasheets, that exists a relationship between stator leakeage reactance and slip, that is, the stator leakage reactance increases...

23 November 2020 2,949 3 View

How to reconcile two sets of qPCR data from the same sample but acquired with different parameters (Ta, primer cc., etc.)?

17 November 2020 4,272 3 View

How to characterize the pore size of membrane filtration with bubble point method?

Hello everyone, I am having troubles with the bubble point measurement to find the pore size of my self-fabricated microfiltration membrane, and I couldn't find a proper answer anywhere else. It...

16 November 2020 7,574 1 View

Is there same kind of limit when annealing two DNA products?

Hi there I'm planning on annealing two PCR products to perform some mutagenesis in a plasmid. I was recommended to try and keep it to 600pb each, for example, but for one of the plasmids there...

15 November 2020 8,656 3 View

No title

Hello! I'm currently studying the influence of adding a mass in a cantilever tip, near to a bifurcation. In order to do it, I simplified a model of the cantilever to a 1DOF...

06 November 2020 3,843 3 View

How to analyze a particular region of my simulation box in GROMACS?

Hi, I am using GROMACS 5.1.4 to simulate water in contact with a surface. I am only interested to calculate some properties of water near the surface. Let's say at a distance of x nm from the...

03 March 2021 9,989 2 View

How can I calculate the rdf of water molecules around 'Na' ions that are closest(adsorbed) to the nanoparticle(solute)?

Hi, I want to calculate the radial distribution function for water molecules around the Na+ ions adsorbed on the surface of a spherical nanoparticle using the gromacs trajectory dynamically? For...

28 February 2021 5,650 1 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

How can I assign a velocity along one direction to CO2 molecules in a molecular dynamics simulation using GROMACS?

Dear all, I am trying to perform a MD simulation about the interaction between CO2 and a polymer. I create my model, solvate it and perform the NVT and NPT equilibration. Now I am not able to...

26 February 2021 10,014 3 View

How does GROMACS calculate the average structure of proteins?

I want to get a average structure from a pdb file containing multiple models. I used the command below: gmx cluster -f input.pdb -s topol.tpr -cutoff 20 -method gromos -av GROMACS...

25 February 2021 6,314 1 View

How to identify or create correct list from GROMACS options during analysis of trajectory ?

During topology preparation using pdb2gmx Protein_chain_A and Protein_chain_B were identified. However, when production MD was completed and I proceeded to do analysis, I find this list : Group...

23 February 2021 5,065 8 View

How to construct different filler shape in MD simulations?

Is there any way to construct different initial filler shapes like triangle, square, rectangle, pillar, and tube in any simulation software.

20 February 2021 1,750 1 View

How to include additional force field in GROMACS?

I have a cellulose model system that is best described by the GLYCAM06 force field according to the literature. However, the set of force fields included in the GROMACS package doesn't include the...

20 February 2021 3,309 3 View

Problem in energy minimization using Gromacs?

I have done energy minimization of DNA using Gromacs with tutorial lysozyme in water. The potential energy curve show a steep drop.

18 February 2021 4,822 2 View

RDF calculation of water inside the Carbon nanotubes?

I am trying to calculate the rdf of water molecules present inside the Carbon nanotube. I tried to do the indexing first using gromacs tool gmx selection. But when it comes to calculating rdf, I...

17 February 2021 1,066 3 View