How to culture MIN6 cells?

Hello everyone!! I am trying to grow MIN6 cells, but I am unable to. The growth rate is too slow. I can hardly see 5-6 cells in the plate. Also the morphology of the cells is highly irregular. I...

07 August 2018 7,230 3 View

How to write a thesis title?

Can a thesis title be a question?

08 September 2017 7,041 2 View

Do Min6 cell lines adhere to glass slides?

I wish to grow Min6 cell lines on glass slides for imaging experiments. Are these cells adherent or do I need to coat the slides before seeding cells on to them?please advise

01 February 2017 5,716 3 View

Can anyone suggest me a protocol for analysis of ROS in aqeous solutions?

Hi I want to measure ROS in a aqueous solution containing a protein and ROS generating agents in buffered solutions. Is there a protocol for the same/ and is it ok to use DCFH-DA for this? Please...

31 December 2016 1,401 0 View

What is the optimal staining procedure for SDS-PAGE?

I have a protein to be expressed with an apparent MW of 18.4 Kda.For that I used 13% resolving gel.I use an unstained protein ladder.After the run was over, I stained the gel with commasie.The...

06 July 2016 7,997 5 View

What are the criteria while using a protease inhibitor?

06 July 2016 5,072 5 View

How long a stock solution of amyloid proteins is stable in DMSO?

I have stored a stock solution of an amyloid protein in DMSO for a long time. How long it will be stable without aggregating or forming amyloids, so that I can use it for further studies/experiments.

05 June 2016 7,469 5 View

What should be the optimum protein load (volume and concentration) when purifying a protein by sephadex G 100 , Column chromatography?

31 December 2015 7,307 3 View

What is microfluidic protein sizing?

Can anyone explain me what is the meaning and principle of microfluidic protein sizing

11 December 2015 4,521 4 View

How might I calculate Guanidinium concentration in molecular dynamics simulation of proteins?

Hi everyone!! While performing the MD simulations on proteins and studying their unfolding by Guanidium, How should one determine the guanidium concentration with regard to the number of molecules...

06 July 2015 4,373 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

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

How to obtain parameters to run a simulation for benzene using CHARMM forcefield in GROMACS?

I have been reading this paper Soft Matter, 2017, 13, 1904 and in this paper, they simulate benzene in GROMACS using CHARMM. They mention that they performed simulations of benzene using the...

15 February 2021 5,561 3 View