The roots of the molecular simulation application can be traced back to physics where it was applied to simplified hard-sphere systems [1]. This field of molecular...
In our previous article, we discussed different multiple sequence alignment (MSA) benchmarks to compare and assess the available MSA programs. However, since the last decade, several...
I-Tasser stands for the iterative threading assembly refinement is a well-known tool for ab-initio structure modeling of proteins [1]. It uses secondary-structure enhanced profile-profile threading alignment...
Intrinsically unstructured proteins (IUPs) are the natively unfolded proteins which must be unfolded or disordered in order to perform their functions. They are commonly referred to...
Single nucleotide variation is a change in a single nucleotide in a sequence irrespective of the frequency of the variation. Single nucleotide variants (SNVs) play a very...
AutoDock Vina is one of the most popular software in Bioinformatics, known for molecular docking simulations. I have already explained the docking procedure in my previous...
RNA interference is a post-transcriptional gene regulatory mechanism to down-regulate the gene expression either by mRNA degradation or by mRNA translation inhibition. The mechanism...
Enzymes are natural biocatalysts and an attractive alternative to chemicals providing improved efficiency for biochemical reactions. They are widely utilized in industrial biotechnology and biocatalysis to...
Lipids are the essential metabolites in human body performing different functions such as energy storage, endocrine actions, cell signaling, morphogenesis, and so on. Using a lipidomics...
A lot of protein structures are determined on a large scale and submitted in Protein Data Bank (PDB) www.rcsb.org [1]. After the experimental determination of these structures,...
Multiple Sequence Alignment (MSA) is a fundamental aspect of Bioinformatics in order to identify the species, their functions, phylogeny, study the novel genes/ proteins, and so...
AutoDock Vina is a bioinformatics tool that is used to perform in-silico docking of proteins with a ligand. It provides many options depending on the needs...
Alternative splicing and the transcription are the most familiar processes amongst the biological processes. Alternative splicing is a process by which various forms of mRNA are...
The non-coding circular RNAs (circRNA) play important role in controlling cellular processes. circRNAs are covalently bonded continuous closed loops which originate from the exonic region, known...
Protein-protein interactions (PPIs) have become necessary in order to study many biological processes. In order to study the PPIs, the binding affinity among the proteins is...
miRNAs are the small endogenous non-coding RNAs having a length less than or ~22 nucleotides. miRNAs are expressed from long transcripts formed in animals, viruses, single-celled eukaryotes...
In this rising era of personalized medicine, drug discovery, data refining, chemical compound databases, drug information, identification of symptoms by various levels of biomarkers, bioinformatics have...
Network visualization has become a strong need for studying the molecular interactions whether they are the protein or gene interactions. Network information is utilized in many...
Secondary structure formation and conformational changes play a key role in understanding molecular evolution and its functional aspects. Among DNA, RNA, and Protein, secondary structure analyses...
What is predictive metagenomics profiling? Recently, predictive metagenomics profiling (PMP) has been added to the microbial ecologist’s arsenal of strategies for probing microbial communities.
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