In India, Bioinformatics has high hopes as it is still in nascent field. The growth of this field is also dependent on growth of Biotechnology.
There are a lot of big bioinformatics companies in India that hire bioinformaticians. Some of them include Accelerys, Jubilant etc.
Complete list can be found by clicking here.
in 2010-11, Indian bioinformatics market was valued at US$58 Million While it was expeccted to grow by 25% in 2015.
In a market that require a large number of trained professionals, Bioinformatics can be a good choice.
Proteins shape analyses reveal novel forms and connections.
A new study has revealed new forms of proteins that have never been seen before along with unexpected connections. Last year, Google DeepMind predicted the structure of all known proteins from organisms using AlphaFold .
Energy minimization and equilibration of simple protein using NAMD & VMD.
Generating topology of molecule for AMBER forcefield for GROMACS.
Common mistakes made during computational docking.
Computational docking is not a trivial task once we avoid making some mistakes. In this section, let’s learn about some important points that we should keep in mind while performing computational docking.
Video Tutorial: Calculating binding pocket volume using PyVol plugin.
How to generate topology from SMILES for MD Simulation?
[Tutorial] Installing jdock on Ubuntu (Linux).
jdock is an extended version of idock . It has the same features as the idock along with some bug fixes. However, the binary name and the GitHub repository names are changed. We are installing jdock on Ubuntu (Linux).
How to upgrade cmake on Ubuntu (Linux)?
In bioinformatics, cmake is used to install multiple software including GROMACS, jdock, and so on. Here is a short tutorial on how to upgrade cmake on Ubuntu and get rid of the previous version. (more…)
How to install GMXPBSA on Ubuntu (Linux)?
[Tutorial] Installing Pyrx on Windows.
How to visualize output plots of MD simulation (GROMACS)?
Visualizing plots of molecular dynamics simulation is easy once you have generated them. Previously, we provided a few articles on MD output analysis (check the Further Reading section). This article explains how you can easily visualize the plots generated from GROMACS output. (more…)
How to solve ‘Could NOT find CUDA: Found unsuitable version “10.1”‘ error during GROMACS installation?
Compiling GROMACS  with GPU can be trivial. Previously, we have provided a few articles on the same. In this article, we will solve an error frequently occurring during GROMACS installation.
Installing Autodock4 on MacOS.
How to install Autodock4 on Ubuntu?
DS Visualizer: Uses & Applications
Protein structure & folding information exploited from remote homologs.
Remote homologs are similar protein structures that share similar functions, but there is no easily detectable sequence similarity in them. A new study has revealed that the protein folding information can be exploited from remote homologous structures. A new tool is developed to recognize such proteins and predict their structure and folding pathway. (more…)
How to calculate number of steps (nsteps) for MD simulation run?
While doing molecular dynamics (MD) simulation, it can be difficult to calculate the number of steps or nsteps for an MD run accurately. In this article, we will learn to calculate nsteps for an MD run. (more…)
Pathonoia- A new tool to detect pathogens in RNA-seq data.
Detecting viruses and bacteria in RNA-seq data with less false positive rate is a difficult task. A new tool is introduced to detect pathogens in RNA-seq data with high precision and recall known as Pathonoia .
How to create a pie chart using Python?
AlphaFill- New algorithm to fill ligands in AlphaFold models.
AlphaFold is a popular artificial intelligence based protein prediction tool . Though it predicts good protein structures, it lacks the capability to predict the small molecules present in the structure such as ligands. For this purpose, AlphaFill is introduced by Hekkelman et al.,. (more…)