Bioinformaticians play an important part in data analysis and result interpretation in the field of bioinformatics. However, it is unclear to many what specific role bioinformaticians...
Molecular dynamics (MD) simulation has become an important methodology in research covering systems consisting of millions of atoms. We have provided several articles on MD simulation...
Covid19 has created a great threat to human health. As you are aware, in this coronavirus outbreak, Bioinformatics Review has created a group, BiR-nCov19 Drug Development...
In our last article, we mentioned the selection pressure analysis of SARS-CoV-2 spike glycoproteins. Now, we have analyzed spike glycoprotein sequences of SARS-CoV. No single purifying...
We have recently conducted a selection pressure analysis on SARS-CoV-2 spike glycoprotein sequences. The analysis revealed not even a single site showing evidence of purifying selection...
A novel coronavirus (CoV), named Severe Acute Respiratory Syndrome-CoV-2 (SARS-CoV-2) or nCoV-2019, has emerged since December 2019 from Wuhan city of Hubei province in China [1]....
This is a video tutorial of our existing article on GROMACS (Abraham, et al. (2015)) installation.
Background A journal’s relevance is generally estimated by its impact factor (Web of Science) and the total number of citations of articles published in it. However,...
Virtual screening is used to identify small molecules that are most likely to bind to a target protein. There is various software available for virtual screening...
LigPlot+ is a bioinformatics software to visually analyze the protein-ligand interactions in 2D [1]. It requires a Java interface to run and can be executed on...
Here is a simple Perl script to concatenate multiline FASTA sequences into a single line. A similar Perl script has been provided in one of the...
Gromacs [1] is one of the most widely used software for molecular dynamics (MD) simulation of macromolecules. One of the previous articles, explains the installation of...
The discovery studio (DS) visualizer [1] offers several features for analyzing docking results. In previous articles (“Tutorial: Vina Output Analysis Using PyMol” and “Video Tutorial: Autodock...
Prottest3 is a software which is used to select a best-fit amino acid replacement model for a set of protein sequences [1]. ProtTest3 finds a best-fit...
BLAST [1,2] is a local alignment tool widely used as a preliminary step for the identification of gene or protein functions. The command-line package of NCBI-Blast...
Here is a simple Perl script to search for motif patterns in a large FASTA file with multiple sequences.
There are different software or tools which require different kinds of input, especially, when you are trying to developing a pipeline or want to process multiple...
This is a video tutorial of Autodock Vina installation on Ubuntu, based on our existing tutorial.
Blind docking is done when the catalytic/binding residues are unknown in a protein, hence, the binding pocket is unknown. In a previous article, we showed how to...
If you want to get a quick idea about the non-synonymous vs synonymous (dN/dS) substitutions, you can easily use MEGA software [1]. Although HYPHY/Datamonkey provides the...
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