Bioinformatics and Molecular Biology - Research problems, Troubleshooting, and Solutions

More Yasha N. B.'s questions See All

Ethylene glycol is newtonian or non newtonian fluid?

Some sources say it is treated as Newtonian as ethylene glycol has a higher viscosity than water, which affects the flow characteristics in simulations. But some also say it is non-Newtonian.

09 August 2024 2,111 2 View

Can any of you suggest how to find the detection limit.?

I am working on flourescence sensing of heavy metals using quantum dots.Can any of you suggest how to find the detection limit. Whether it is calculated from formula or we can get from instrument?

19 July 2024 7,411 3 View

Cloning of flaviviruses is difficult i have noticed that cells loose their transformation ability after cloning fragments inside vector any advice?

As flaviviruses genome is very frequently prone to mutation hence it is very difficult to clone whole genome inside vector what kind of vector and cells can sustain such amount of cloning...

11 July 2024 4,284 0 View

I am not getting proper colonies while ligating one of fragments in my vector the colonies seems to be normal but in light it seems lysed any reason?

I am working on cloning of a gene fragment inside my vector everything we tried to do correctly like making insert and vector with utmost care but after ligation the morphology of colonies seems...

11 July 2024 9,010 3 View

Can anyone suggest what amount of powder I have to disperse in the solvent for taking the FTIR spectra?

I have to compare the FTIR of the two samples, one is in powder form and other one is the powder dispersed in IPA or water. Both are same material, so how the bond will change

09 July 2024 8,011 2 View

I have a doubt in finding the amount of ferromagnetic and antiferromagnetic contribution in a canted system?

Is it possible to differentiate or calculate, the amount of ferromagnetic and antiferromagnetic contribution in a canted system? (Weakly frustrated canted antiferromagnetic system)

25 June 2024 6,210 0 View

How transmittance is dependent on the band gap and atomic structure?

UV-Visible NIR analysis

20 June 2024 9,056 3 View

Whether size obtained from TEM and XRD should be equal?

I have got crystalline size around 15nm from xrd but TEM is giving particle size 4nm

20 June 2024 6,064 8 View

If I dop a metal ion into the ternary nanoparticles can I call it as heterostructure?

Ag+ ion replaced some of the Cu+ ion. ie, Ag+ is the dopant

14 June 2024 2,814 1 View

Whether the same synthesised inorganic nanoparticle show different heavy metal sensing by flourescence?

14 June 2024 7,373 1 View

Gromacs first step of minimization ?

I have face this problem anyone help me how to solve this issue ?which is below Fatal error: There are inconsistent shifts over periodic boundaries in a molecule type consisting of 78 atoms. The...

07 August 2024 2,598 1 View

Are there instances where molecules with larger molecular weights exhibit greater mobility than those with smaller molecular weights?

Hi, I know that low molecular weight (MW) molecules generally tend to have higher mobility, while high molecular weight molecules tend to have lower mobility. However, in my experimental...

06 August 2024 1,495 2 View

Weak DAPI staining after immunohistochemistry - how to improve?

After immunohistochemistry of previously fixed in PFA and EtOH and then frozen 20 μm sections of zebrafish brain, DAPI staining is very weak (right) compared to the same sections stained without...

05 August 2024 9,637 2 View

The Curse of Evolution and Complexity?

Brain and body mass together are positively correlated with lifespan (Hofman 1993). The duration of neural development is one of the best predictors of brain size, and conception is the best...

05 August 2024 6,247 3 View

For an in-vitro drug release study, what molecular weight cut-off (MWCO) dialysis bag is required for a 117 kDa protein?

kindly reply me. Thanking you in advance.

05 August 2024 7,727 4 View

How to start a Molecular Dynamics Simulation?

Is it possible to conduct a molecular dynamics simulation to see the effects of a specific carbohydrate on the structure of lipids (e.g., micelle structure)? I am a beginner in this field and plan...

03 August 2024 3,371 3 View

Which will be the best software for the Hydration shell analysis with molecular dynamics?

I am using a windows system, what software I should use for hydration shell analysis with molecular dynamics?

02 August 2024 3,143 4 View

Can anyone provide me with molecular docking softwares/ websites?

Molecular docking software/ websites?

02 August 2024 8,704 7 View

Following click reaction in cell lysates, protein is immobile and remains at the top of the gel in SDS-PAGE?

I am using CuBr/THPTA for a click reaction in total cell lysates. I am facing issues with my protein sample in non-reducing SDS-PAGE where it's not migrating properly and most of it remains at the...

29 July 2024 950 4 View

How to restart MD without using checkpint file in GROMACS?

Dear All Gromacs User I would like to restart MD without using checkpint .cpt files? I heard there is a way for acheiveing this. Any input and sugegstions are most welcome. Thanking You Budheswar

29 July 2024 3,084 8 View

Manuele Martinelli

Dear Yasha

Dear all

i'm building a simple "old style" blog

ProteoCool (https://proteocool.blogspot.com/)

to share my knowledge about molecular biology and protein chemistry that i wish could be useful to young scientist.

Manuele

Yasha N. B.

@manuele martinelli

Thank you so much! It will be quite helpful.

Renato Juciano Ferreira

What is the link of this blog?

Thank you

Renato Juciano Ferreira https://proteocool.blogspot.com/

thank you