Why has my protein transfer using fresh transfer buffer is worse when compared to protein transfer using old buffer?

Hello, I have performed two westerns in parallel, one using fresh buffer (made with old 10X tris-glycine) and the SDS gel was made 4 days prior to western; and the other western was performed...

03 February 2021 9,311 5 View

When sequencing a plasmid to confirm transformation has been successful, would I have to sequence the full plasmid?

I have transformed some DH5alpha cells with point mutated proteins placed in pcDNA plasmid and extracted the plasmid; now I have to send the plasmid for sequencing for confirming the presence of...

19 January 2021 5,842 3 View

How can decrease the fluorescence background for Raman Spectroscopy?

Could you help me with, how can I decrease the fluorescence background for Raman Spectroscopy?

18 May 2020 7,685 11 View

What are the differences between Raman spectroscopy of amorphous and crystalline carbon materials?

What are the differences between Raman spectroscopy of amorphous and crystalline carbon materials?

30 April 2020 3,435 8 View

How to separate the Raman spectroscopy peak?

In the result of the test for Raman spectroscopy, there are many broad peaks that including a lot of information. In fact, How can I correctly separate those peaks?

26 December 2019 3,460 3 View

What is the best way for poor Nations to conserve thier water resources especially with the current trends of climate change?

I am developing a research on the link between poverty, natural resources management and climate change in Nigeria and need some guidance.

11 December 2016 7,577 0 View

Can i use b-actin in real time PCR?

can i use b-actin as control gene in real time PCR? because in articles that i have, they use GAPDH as a control for real time pcr and b- actin for western blot. i do not know why and what is...

01 May 2016 5,781 10 View

What are the basic fertility destructive factors of tropical soils?

What are the basic fertility destructive factors of tropical soils? Temprature; Effluents; Compaction?

02 March 2016 8,868 17 View

What is the most sustainable way of managing the problems of sawdust and wood shavings accumulation in our cities?

Biological? Physical, or chemical?

07 August 2015 9,700 3 View

Can exploratory factor analysis be performed on a multiple choice question?

10 March 2015 5,728 11 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

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 replicate the well conditions of a crystal hit with 20%(w/v) isopropanol?

I had a crystal hit in a well with 0.1M HEPEs pH 7.5, 10%(w/v) PEG 4000, and 20%(w/v) isopropanol. Why is isopropanol in w/v here if it's just solvent? How do I recreate this well condition?

25 February 2021 9,761 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