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07:49 EDT 24th September 2018 | BioPortfolio

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Showing "Insception Biosciences" PubMed Articles 1–25 of 109


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Optimizing the utility of the individual development plan for trainees in the biosciences.

Two new usnic acid derivatives from the endophytic fungus Mycosphaerella sp.

Antimicrobial activity and active compounds of a Rhus verniciflua Stokes extract.

NanoPack: visualizing and processing long read sequencing data.

Here we describe NanoPack, a set of tools developed for visualization and processing of long read sequencing data from Oxford Nanopore Technologies and Pacific Biosciences.

Prenatal Steroids and Metabolic Dysfunction: Lessons from Sheep.

Prenatal exposure to excess steroids or steroid mimics can disrupt the normal developmental trajectory of organ systems, culminating in adult disease. The metabolic system is particularly susceptible to the deleterious effects of prenatal steroid excess. Studies in sheep demonstrate that prenatal exposure to excess native steroids or endocrine-disrupting chemicals with steroidogenic activity, such as bisphenol A, results in postnatal development of numerous cardiometabolic perturbations, including insulin r...

Chemical composition and antifungal activity of essential oils from four Asteraceae plants grown in Egypt.

The objective of the present paper was the assessment of the chemical composition of the essential oils from four Asteraceae species with a considerable food, medicinal, and agricultural value, collected in Egypt, together with their in vitro inhibitory activity against molds and yeasts. The essential oil of Launaea cornuta flowers was also evaluated for the first time, but because of its very low yield (

Gaussian process approximations for fast inference from infectious disease data.

We present a flexible framework for deriving and quantifying the accuracy of Gaussian process approximations to non-linear stochastic individual-based models of epidemics. We develop this for the SIR and SEIR models, and show how it can be used to perform quick maximum likelihood inference for the underlying parameters given population estimates of the number of infecteds or cases at given time points. We also show how the unobserved processes can be inferred at the same time as the underlying parameters.

On the dynamics of brucellosis infection in bison population with vertical transmission and culling.

We introduce a new mathematical modeling framework that seek to improve our quantitative understanding of the influence of chronic brucellosis and culling control on brucellosis dynamics in periodic and non-periodic environments. We conduct both epidemic and endemic analysis, with a focus on the threshold dynamics characterized by the basic reproduction numbers. In addition, we also perform an optimal control study to explore optimal culling strategy in periodic and non-periodic environment.

Final size of a multi-group SIR epidemic model: Irreducible and non-irreducible modes of transmission.

A model of an epidemic outbreak incorporating multiple subgroups of susceptible and infected individuals is investigated. The asymptotic behavior of the model is analyzed and it is proved that the infected classes all converge to 0. A computational algorithm is developed for the cumulative final size of infected individuals over the course of the epidemic. The results are applied to the SARS epidemic in Singapore in 2003, where it is shown that the two-peak evolution of the infected population can be attrib...

Carrying capacity influence on the incomes of seiners exploiting marine species in the Atlantic coast of Morocco.

In this article, we seek to highlight that the increase of the carrying capacity of marine species does not always lead to an increase on the catch levels and on the incomes. To effectively support the theoretical outcomes, we take a bioeconomic model of several seiners exploiting Sardina pilchardus, Engraulis encrasicolus and Xiphias gladius marine species in the Atlantic coast of Morocco based on the parameters given by 'Institut National de Recherche Halieutique' INRH.

How to choose biomarkers in view of parameter estimation.

In numerous applications in biophysics, physiology and medicine, the system of interest is studied by monitoring quantities, called biomarkers, extracted from measurements. These biomarkers convey some information about relevant hidden quantities, which can be seen as parameters of an underlying model. In this paper we propose a strategy to automatically design biomarkers to estimate a given parameter. Such biomarkers are chosen as the solution of a sparse optimization problem given a user-supplied dictiona...

Critical patch-size for two-sex populations.

As environments become increasingly degraded, mainly due to human activities, species are often subject to isolated habitats surrounded by unfavorable regions. Since the pioneering work by [25] mathematical models have provided useful insights into the population persistence in such cases. Most of these models, however, neglect the sex structure of populations and the differences between males and females. In this work we investigate, through a reaction-diffusion system, the dynamics of a sex-structured pop...

Mathematical modeling of cancer-immune system, considering the role of antibodies.

A mathematical model for the quantitative analysis of cancer-immune interaction, considering the role of antibodies has been proposed in this paper. The model is based on the clinical evidence, which states that antibodies can directly kill cancerous cells (Ivano et al. in J Clin Investig 119(8):2143-2159, 2009). The existence of transcritical bifurcation, which has been proved using Sotomayor theorem, provides strong biological implications. Through numerical simulations, it has been illustrated that under...

IDP-denovo: de novo transcriptome assembly and isoform annotation by hybrid sequencing.

In the past years, the long read (LR) sequencing technologies, such as Pacific Biosciences and Oxford Nanopore Technologies, have been demonstrated to substantially improve the quality of genome assembly and transcriptome characterization. Compared to the high cost of genome assembly by LR sequencing, it is more affordable to generate LRs for transcriptome characterization. That is, when informative transcriptome LR data are available without a high-quality genome, a method for de novo transcriptome assembl...

Visibility in the pure model of golden spiral phyllotaxis.

This paper considers the geometry of plants with golden spiral phyllotaxis, i.e. growing leaf by leaf on a spiral with golden divergence angle. As is well-known, Fibonacci numbers appear by means of the order of parastichies. A rigorous and straightforward proof is provided with respect to pure visibility. This notion is very similar to that of contact parastichies. The 3-D cylindrical model of golden spiral phyllotaxis abstracts from the form of leaves and identifies them with points. Pure visibility is sp...


A potential alternative for tissue transplants is tissue engineering, in which the interaction of cells and biomaterials can be optimized. Tissue development in vitro depends on the complex interaction of several biological processes such as extracellular matrix synthesis, vascularization and cell proliferation, adhesion, migration, death, and differentiation. The complexity of an individual phenomenon or of the combination of these processes can be studied with phenomenological modeling techniques. This wo...

Facile one-pot syntheses of new C-28 esters of oleanolic acid and studies on their antiproliferative effect on T cells.

Structure-activity relationship studies on oleanolic acid (1) have resulted in facile syntheses of its new C-28 esters 2-7 by way of one-pot reaction of 1 with a variety of alkylating agents. Oleanolic acid and its new esters were studied for their in vitro antiproliferative effect on healthy human peripheral blood mononuclear cell isolated phytohemagglutinin activated T cells. Results showed that compounds 1, 3, and 5 exhibited significant inhibitory activity on T-cell proliferation. Compound 5 was found t...

Why is the hydrolytic activity of acetylcholinesterase pH dependent? Kinetic study of acetylcholine and acetylthiocholine hydrolysis catalyzed by acetylcholinesterase from electric eel.

The dependence of the activity of acetylcholinesterase from electric eel at a pH value range of 4.8-9.8 (phosphate buffer), regarding acetylcholine and acetylthiocholine hydrolysis, was determined at 25 °C, ionic strength of 0.11 M, and initial substrate concentration of 4 mM. At a pH range of 4.8-9.8, the dependences A(pH) form a sigmoid increasing curve with the maximum catalytic activity at a pH range 8-9.5. For acetylcholine hydrolysis, the kinetic reason for such an increase in A consists mainly of an...

Human-specific approaches to brain research for the 21 st century: a South American perspective.

The 21 st century paradigm in toxicology, which emphasizes mechanistic understanding and species-relevant modeling of human biology and pathophysiology, is gaining traction in the wider biosciences through a global workshop series organized by the BioMed21 Collaboration. The second of this series, entitled Emerging Technology Toward Pathway-Based Human Brain Research, was held in Brazil in 2017, bringing together leading South American and international scientists, research funders and other stakeholders....

Bicoid Signal Extraction: Another powerful approach.

This belief has been widely accepted that Bicoid (Bcd) protein distributes in a concentration gradient that organizes the anterior/posterior axis of the Drosophila embryo. Segment polarity protein provides positional cues for the development of head and thoracic segments. Therefore As a result of its essential role, modeling the Bicoid gradient has been welcomed by many researchers in various scientific fields. In this paper, We present investigation of gene expression profiles by means of Singular Spectrum...

Diffusing Wild Type and Sterile Mosquitoes in an Optimal Control Setting.

This paper develops an optimal control framework to investigate the introduction of sterile type mosquitoes to reduce the overal moquito population. As is well known, mosquitoes are vectors of disease. For instance the WHO lists, among other diseases, Malaria, Dengue Fever, Rift Valley Fever, Yellow Fever, Chikungunya Fever and Zika. [ ] The goal is to establish the existence of a solution given an optimal sterilization protocol as well as to develop the co...

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