INTRODUCTION Ten viral genotypes (A-J) distributed in all continents have been described for hepatitis B virus (HBV). One of the methodologies for determining the viral genotype is the restriction fragment length polymorphism (RFLP) technique, a simple and relatively inexpensive method, albeit with some limitations. OBJECTIVE The initial objective of the project was to identify the HBV genoty...

An important emerging application of high-throughput 454 sequencing is the isolation of molecular markers such as microsatellites from genomic DNA. However, few studies have developed microsatellites from cDNA despite the added potential for targeting candidate genes. Moreover, to develop microsatellites usually requires the evaluation of numerous primer pairs for polymorphism in the focal spec...

Screening of Plectranthus amboinicus against COVID-19 — in silico approachMeenaxi M. Maste, Akash Saxena

The cell therapy market is a highly volatile one, due to the use of disruptive technologies, the current economic situation and the small size of the market. In such a market, companies as well as academic research institutes are in need of tools to advance their understanding and, at the same time, reduce their R&D costs, increase product quality and productivity, and reduce the time to market...

UNLABELLED We present an in silico model that simulates the immune system responses to tumor cells in naive and vaccinated mice. We have demonstrated the ability of this model to accurately reproduce the experimental results. MOTIVATION In vivo experiments on HER-2/neu mice have shown the effectiveness of Triplex vaccine in the protection of mice from mammary carcinoma. Full protection was co...

In mass spectrometry-based untargeted metabolomics, rarely more than 30% of the compounds are identified. Without the true identity of these molecules it is impossible to draw conclusions about the biological mechanisms, pathway relationships and provenance of compounds. The only way at present to address this discrepancy is to use in silico fragmentation software to identify unknown compounds ...

The stress responsive transcription factor p53 is a powerful tumor suppressor implicated in over 50 % of all human cancers. The complexity and nonlinear dynamics of p53 network coupled with extensive literature is challenging. Systems biology methodologies offer promising tools to investigate large networks, providing structured in silico representations for integrative analysis. The Boolean p5...

Models of biological systems are increasingly used to generate and test predictions in silico. This article explores the basic workings of a multifeedback network model of a circadian clock. In a series of in silico experiments, we investigated the influence of the number of feedbacks by adding and removing one or more. We further explore the possibilities of testing in silico models in classic...

We propose a novel, robust, and easily reproducible, in vitro/in silico model system to characterize active and passive stresses in electroactive cardiac muscle using a hybrid experimental/computational approach. We explore active and passive stresses in healthy explanted heart slices in vitro, design a virtual test bed to simulate the in vitro measured stresses in silico, and predict altered a...

Re-establishing a functional endothelium following endovascular treatment is an important factor in arresting neointimal proliferation. In this study, both histology (in vivo) and computational simulations (in silico) are used to evaluate neointimal growth patterns within coronary arteries along the axial direction of the stent. Comparison of the growth configurations in vivo and in silico was ...