Is it possible to modify a .tpr file in Gromacs (delete the solvent and ion molecules)?

Hi all, I am trying to make a movie from a MD simulation using Chimera 1.12. This time I am facing problems because the .xtc file is too large (above Gb) and my computer freezes. If I use a...

02 March 2019 7,612 3 View

How should I perform a MD simulation of a glycosylated protein in complex with GSH (reduced Glutathione) using Gromacs?

I am planing to perform a MD simulation of a glycosylated protein (550 amino acid long protein with 6 NAG residues ) in complex with GSH using GROMACS. I wonder if I can ignore these sugars in...

04 May 2018 1,303 3 View

Is passage number important in well-established secondary cell lines?

For the first time I'm gonna start culturing some eukaryotic cell lines and the passage thing is confusing me a little bit... in the case of well-established secondary cell lines (Hela, MCF7 or...

11 December 2017 1,340 4 View

sample precipitation after long PCR

02 March 2011 5,514 5 View

Gromacs: Calculation of an average NMR ensemble structure

Hi guys, I want to perform some MD simulations of a protein that has been resolved by NMR spectroscopy (thus it has multiple structure models). Should I start with an average structure or should...

01 January 1970 1,367 5 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

Anyone plz suggest relevant topic for research in image processing+Deep learning.?

I have selected brain tumor images ...but now found that already lots of research done n this topic.

03 March 2021 5,774 3 View

How to increase a model accuracy ?

dear community, my model is based feature extraction from non stationary signals using discrete Wavelet Transform and then using statistical features then machine learning classifiers in order to...

03 March 2021 6,994 5 View

Chlorinated organic formation in odor control scrubbers using hypochlorite?

I'm involved in a study of odor control technologies for municipal wastewater treatment plant. One of the control options involves a chemical 2-stage (acid/alkaline) packed bed scrubber. The...

03 March 2021 3,661 2 View

Image Processing and classification using keras/Tensorflow?

Do you have some recommendations approaches on Image processing and classification of plant diseases using TensorFlow/Keras?

02 March 2021 1,493 4 View

Which SAR dataset to use for generating coherency matrix and performing target decomposition (Description) ?

Working on chandrayaan-2 DFSAR data, there are three datasets available: 1) Slant range image data product: The slant range complex image file. Each pixel is represented by two 4-byte floating...

02 March 2021 8,481 3 View

Do you know any MR image dataset?

I would like to research on MR images (0.5T and 3T). Can you please suggest some websites that I can download dataset including both 0.5T and 3T MR images? Thank you.

02 March 2021 7,735 3 View

Why might my GFP tag be dissociating from my plasmid after transfection?

I have a set of stably transfected cell lines all transfected with plasmids containing GFP tags on the C terminus. During a western blot using anti-GFP antibody, one of my plasmids has dissociated...

01 March 2021 9,310 4 View

Precipitate after adding laemmli buffer to protein solution containing Potassium Acetate?

Hi, I am running a size exclusion chromatography experiment with a buffer containing Potassium Acetate as a salt. I analyse these fractions through SDS-PAGE. After boiling my SEC fractions in...

01 March 2021 2,622 3 View

What is the most suitable server for predicting protein structures in bacteria?

I have used the i-Tasser several times, however it has been unavailable for several days. I tried the swiss-model, but the output was not very pleasant due to the model used. Is there any other...

28 February 2021 4,521 3 View