Journal of bioinformatics and computational biology
Jul 6, 2022
The evolutionary histories of genes are susceptible of differing greatly from each other which could be explained by evolutionary variations in horizontal gene transfers or biological recombinations. A phylogenetic tree would therefore represent the ...
Journal of bioinformatics and computational biology
May 21, 2022
Nucleosome localization is a dynamic process and consists of nucleosome dynamic intervals (NDIs). We preprocessed nucleosome sequence data as time series data (TSD) and developed a long short-term memory network (LSTM) model for training time series ...
Journal of bioinformatics and computational biology
Apr 21, 2022
RNA-binding proteins (RBPs) have crucial roles in various cellular processes such as alternative splicing and gene regulation. Therefore, the analysis and identification of RBPs is an essential issue. However, although many computational methods have...
Journal of bioinformatics and computational biology
Mar 9, 2022
Enhancers are short regulatory DNA fragments that are bound with proteins called activators. They are free-bound and distant elements, which play a vital role in controlling gene expression. It is challenging to identify enhancers and their strength ...
Journal of bioinformatics and computational biology
Dec 13, 2021
Detection of somatic mutation in whole-exome sequencing data can help elucidate the mechanism of tumor progression. Most computational approaches require exome sequencing for both tumor and normal samples. However, it is more common to sequence exome...
Journal of bioinformatics and computational biology
Nov 19, 2021
O-glycosylation is a protein posttranslational modification important in regulating almost all cells. It is related to a large number of physiological and pathological phenomena. Recognizing O-glycosylation sites is the key to further investigating t...
Journal of bioinformatics and computational biology
Nov 13, 2021
Proteins are engines involved in almost all functions of life. They have specific spatial structures formed by twisting and folding of one or more polypeptide chains composed of amino acids. Protein sites are protein structure microenvironments that ...
Journal of bioinformatics and computational biology
Oct 22, 2021
Bacterial virulence can be attributed to a wide variety of factors including toxins that harm the host. Pore-forming toxins are one class of toxins that confer virulence to the bacteria and are one of the promising targets for therapeutic interventio...
Journal of bioinformatics and computational biology
Sep 30, 2021
In this work, we have developed an optimization framework for digging out common structural patterns inherent in DNA binding proteins. A novel variant of the artificial bee colony optimization algorithm is proposed to improve the exploitation process...
Journal of bioinformatics and computational biology
Aug 5, 2021
Quantifying the hemolytic activity of peptides is a crucial step in the discovery of novel therapeutic peptides. Computational methods are attractive in this domain due to their ability to guide wet-lab experimental discovery or screening of peptides...