How to compute the numebr of water molecules within a specified distance between two residues of diffrent chains?

Dear All, I want to compute the number of water molecules and their retention period within five angstrom of two catalytci residues belonging to two different chains of a lipid bilayer...

07 August 2019 3,049 14 View

How to solve GMX HELIX Segmentation fault in GROMACS 2018.2?

Dear All, Hi..I am doing analysis of Helix properties using gmx helix program of GROMACS 2018.2 installed in a workstation with CentOS. I have created an index fro my TM and then while I use gmx...

08 September 2018 9,661 0 View

How to solve error in GROMACS?

Dear All, Hi, I have trajectory file of 500 ns of membrane proteins. Though the file is large enough, I have a problem while I use trjconv option it shows the following error... Program: gmx...

07 August 2018 3,408 6 View

How to restrain a ligand using GROMACS 2018.2?

Hi, I am doing an MD simulation of a protein-ligand complex using GROMACS 2018.2. I want restrain my ligand for that I need to generate a position restraint topology for it. I need a shell script...

06 July 2018 9,844 0 View

How to automate the task of restarting the MD simulation in GROMACS if it stopped due to wall time constraint in HPC?

Hello Everyone, I am trying to run very large systems (membrane protein systems) for longer period of times (say=500 ns). Due to very strict wall time constraint the running MD systems may be...

05 June 2018 8,125 4 View

Which web server performs best in predicting the allergenecity of predicted epitopes?

I have predicted certain group of epitopes. Now I want assess the allegenecity of these predicted epitopes. Dose anybody has any idea which is best tool for allergen prediction... Thanking...

06 July 2015 4,710 2 View

Can someone help me in designing a peptide which can be used as a candidate vaccine from a set of aligned sequences of human viral gene?

11 December 2014 8,890 10 View

Does anybody have any idea how to find deferentially expressed transcripts in a control and another sample transcript contigs generated from Solid4.0?

I have the transcript contigs of both the samples generated from SOLid4.0. If anybody ahs an idea how to find the up-regulated and down-regulated transcripts (which are .fasta format) using any...

08 September 2013 9,470 3 View

Does anybody knows how to install APBS (APBS-1.4-linux-static-x86_64.tar.gz) in CentOS6.3 version?

I want to calculate binding energy. So I want to install APBS in centos. I have cmake. Please help me out if anybody know how to install APBS step by step in CentOS?

08 September 2013 9,403 0 View

How to install to DSSP for GROMACS?

Step by step Installation of DSSP for GROMACS in CENTOS.

03 April 2013 6,133 4 View

How to compare two groups with only two measurements?

Hiiiii everyone! I have an enquiry on statistical analysis. I was looking for many forum and it's still cannot solve my problem. I want to compare means of two groups of data but only with two...

03 March 2021 8,796 3 View

Enhanced Yellow Fluorescent Protein (Aequorea victoria) DNA sequence?

I am on the lookout for the Enhanced Yellow Fluorescent Protein (Aequorea victoria) DNA sequence. Does anyone know where I can find it? Thank you in advance

03 March 2021 3,568 1 View

What kind of fluid could I use for a pitfall trap that also does not invalidate molecular testing?

Hi, I want to start testing pitfall trap to obtain ants samples, but I need to conduct molecular analysis on those insects. So, what kind of fluid can I use? Ethanol expires too early and I need...

03 March 2021 5,978 5 View

What's the best way to measure growth rates in House sparrow chicks from day 2 to day 10?

What's the best way to measure growth rates in House sparrow chicks from day 2 to day 10? Since, the growth curve from day 2 to 10 won't be like the "Logistic curve" it might not follow logistic...

03 March 2021 1,401 3 View

Do we need to write protocol for a second study of a systematic review that has been registered and published?

I have conducted and published a systematic review and meta-analysis research with the topic related to public health and health pomotion (protocol was registed in PROSPERO). Now we want to...

03 March 2021 8,920 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

Do I need to do linear regression before running mediation analysis using PROCESS MACRO by Hayes ?

I just wanted to check if I need to run a linear regression separately if I am using PROCESS MACRO to run mediation analysis. Thank you.

02 March 2021 4,359 3 View

Sample dilution for quantitative analysis using ELISA?

If the detection range is in ng/ml but the reference range is in ug/ml for a molecule or protein in serum or plasma .how to dilute and what is the initial volume to be taken for quantitative analysis

02 March 2021 7,670 3 View

Is There Any Feasible Method To Test Fluorescent Compounds Other Than Fluorescence Spectrometers ??

Is There Any Feasible Method To Test The Efficiency Of Fluorescent Compounds Other Than UV Spectrometers ? Suggestions Would Be Appreciated !

02 March 2021 5,785 3 View

How to calculate average trend in maximum annual NDVI from MODIS?

I am wanting to calculate the average trend in maximum annual NDVI in Iceland from 2010-2020 using MODIS MYD13Q1 V6. How would I do this? I have currently inserted the NDVI bands from the MODIS...

02 March 2021 752 2 View