Effect of metal clusters on the swelling of gold-fluorocarbon-polymer composite films

We have investigated the phenomenon of swelling due to acetone diffusion in fluorocarbon polymer films doped with different gold concentrations below the percolation threshold. The presence of the gold clusters in the polymer is shown to improve the mixing between the fluorocarbon polymer and the acetone, which is not a good solvent for this kind of polymers. In order to explain the experimental results the stoichiometry and the morphology of the polymer--metal system have been studied and a modified version of the Flory--Huggins model has been developed

Design of an innovative polymerase chain reaction device based on buoyancy driven flow

This paper was presented at the 2nd Micro and Nano Flows Conference (MNF2009), which was held at Brunel University, West London, UK. The conference was organised by Brunel University and supported by the Institution of Mechanical Engineers, IPEM, the Italian Union of Thermofluid dynamics, the Process Intensification Network, HEXAG - the Heat Exchange Action Group and the Institute of Mathematics and its Applications.Polymerase Chain Reaction (PCR) plays a central role in the field of molecular biology. The miniaturization of PCR systems is promising as it potentially minimizes costly reagent consumption and time required for analysis. In PCR microdevices a sample solution is usually handled by external pumps. An alternative solution relies on temperature-induced density difference in the presence of a body force to induce buoyancy driven flow. This alternative method is easy to be used and does not require expensive setup, but, to date, the thermo-fluid-dynamic field in the micro-channels still needs to be optimized. The present study focuses on the design of micro-channels, having innovative and optimized shapes to obtain proper fluid actuation and DNA sample amplification within buoyancy driven flow PCR devices. A parametric study is carried out by means of computational thermal fluid dynamic modeling: several channel geometry configurations were compared in terms of time required for analysis, temperature distribution and priming volume. The advantages and disadvantages of such configurations are discussed

Sequence Information Encoded in DNA that May Influence Long-Range Chromatin Structure Correlates with Human Chromosome Functions.

Little is known about the possible function of the bulk of the human genome. We have recently shown that long-range regular oscillation in the motif non-T, A/T, G (VWG) existing at ten-nucleotide multiples influences large-scale nucleosome array formation. In this work, we have determined the locations of all 100 kb regions that are predicted to form distinctive chromatin structures throughout each human chromosome (except Y). Using these data, we found that a significantly greater fraction of 300 kb sequences lacked annotated transcripts in genomic DNA regions ≥300 kb that contained nearly continuous chromatin organizing signals than in control regions. We also found a relationship between the meiotic recombination frequency and the presence of strong VWG chromatin organizing signals. Large (≥300 kb) genomic DNA regions having low average recombination frequency are enriched in chromatin organizing signals. As additional controls, we show using chromosome 1 that the VWG motif signals are not enriched in randomly selected DNA regions having the mean size of the recombination coldspots, and that non-VWG motif sets do not generate signals that are enriched in recombination coldspots. We also show that tandemly repeated alpha satellite DNA contains strong VWG signals for the formation of distinctive nucleosome arrays, consistent with the low recombination activity of centromeres. Our correlations cannot be explained simply by variations in the GC content. Our findings suggest that a specific set of periodic DNA motifs encoded in genomic DNA, which provide signals for chromatin organization, influence human chromosome function

An independently validated nomogram for isocitrate dehydrogenase-wild-type glioblastoma patient survival.

BackgroundIn 2016, the World Health Organization reclassified the definition of glioblastoma (GBM), dividing these tumors into isocitrate dehydrogenase (IDH)-wild-type and IDH-mutant GBM, where the vast majority of GBMs are IDH-wild-type. Nomograms are useful tools for individualized estimation of survival. This study aimed to develop and independently validate a nomogram for IDH-wild-type patients with newly diagnosed GBM.MethodsData were obtained from newly diagnosed GBM patients from the Ohio Brain Tumor Study (OBTS) and the University of California San Francisco (UCSF) for diagnosis years 2007-2017 with the following variables: age at diagnosis, sex, extent of resection, concurrent radiation/temozolomide (TMZ) status, Karnofsky Performance Status (KPS), O6-methylguanine-DNA methyltransferase (MGMT) methylation status, and IDH mutation status. Survival was assessed using Cox proportional hazards regression, random survival forests, and recursive partitioning analysis, with adjustment for known prognostic factors. The models were developed using the OBTS data and independently validated using the UCSF data. Models were internally validated using 10-fold cross-validation and externally validated by plotting calibration curves.ResultsA final nomogram was validated for IDH-wild-type newly diagnosed GBM. Factors that increased the probability of survival included younger age at diagnosis, female sex, having gross total resection, having concurrent radiation/TMZ, having a high KPS, and having MGMT methylation.ConclusionsA nomogram that calculates individualized survival probabilities for IDH-wild-type patients with newly diagnosed GBM could be useful to physicians for counseling patients regarding treatment decisions and optimizing therapeutic approaches. Free software for implementing this nomogram is provided: https://gcioffi.shinyapps.io/Nomogram_For_IDH_Wildtype_GBM_H_Gittleman/

Computational and experimental investigation of mixing in microchannels

This paper was presented at the 2nd Micro and Nano Flows Conference (MNF2009), which was held at Brunel University, West London, UK. The conference was organised by Brunel University and supported by the Institution of Mechanical Engineers, IPEM, the Italian Union of Thermofluid dynamics, the Process Intensification Network, HEXAG - the Heat Exchange Action Group and the Institute of Mathematics and its Applications.Mixing is a key process for the successful of all chemical or biochemical reactions, so effective micromixers represent essential components for micro total analysis systems (μTAS) or lab-on-a-chip. In the present study a combined computational and experimental approach was adopted to evaluate how the efficiency of a Y-mixer can be enhanced by modifying its downstream geometry. Three different geometries were studied and compared: Y-straight channel, Y-sine channel and Y-wrinkled wall channel. For each of them the influence of perfusing flow rates and channel cross section aspect ratio was investigated. Physical prototypes were built using a simple technique based on a xerographic process, and their mixing performance was experimentally evaluated. Computational models of the designed micromixers were generated: the Navier-Stokes equations for an incompressible Newtonian fluid and the advection-diffusion equation were solved with an uncoupled approach by means of the finite volume method. The computational and experimental results were critically compared, revealing Y-wrinkled wall mixer as the best performer among those considered and suggesting criteria of possible improvements and optimization

The evolution of mass loaded supernova remnants: II. Temperature dependent mass injection rates

We investigate the evolution of spherically symmetric supernova remnants in which mass loading takes place due to conductively driven evaporation of embedded clouds. Numerical simulations reveal significant differences between the evolution of conductively mass loaded and the ablatively mass loaded remnants studied in Paper I. A main difference is the way in which conductive mass loading is extinguished at fairly early times, once the interior temperature of the remnant falls below ~ 107 K. Thus, at late times remnants that ablatively mass load are dominated by loaded mass and thermal energy, while those that conductively mass load are dominated by swept-up mass and kinetic energy. Simple approximations to the remnant evolution, complementary to those in Paper I, are given

Ag-based synergistic antimicrobial composites. A critical review

The emerging problem of the antibiotic resistance development and the consequences that the health, food and other sectors face stimulate researchers to find safe and effective alternative methods to fight antimicrobial resistance (AMR) and biofilm formation. One of the most promising and efficient groups of materials known for robust antimicrobial performance is noble metal nanoparticles. Notably, silver nanoparticles (AgNPs) have been already widely investigated and applied as antimicrobial agents. However, it has been proposed to create synergistic composites, because pathogens can find their way to develop resistance against metal nanophases; therefore, it could be important to strengthen and secure their antipathogen potency. These complex materials are comprised of individual components with intrinsic antimicrobial action against a wide range of pathogens. One part consists of inorganic AgNPs, and the other, of active organic molecules with pronounced germicidal effects: both phases complement each other, and the effect might just be the sum of the individual effects, or it can be reinforced by the simultaneous application. Many organic molecules have been proposed as potential candidates and successfully united with inorganic counterparts: polysaccharides, with chitosan being the most used component; phenols and organic acids; and peptides and other agents of animal and synthetic origin. In this review, we overview the available literature and critically discuss the findings, including the mechanisms of action, efficacy and application of the silver-based synergistic antimicrobial composites. Hence, we provide a structured summary of the current state of the research direction and give an opinion on perspectives on the development of hybrid Ag-based nanoantimicrobials (NAMs)

Amphotericin forms an extramembranous and fungicidal sterol sponge.

For over 50 years, amphotericin has remained the powerful but highly toxic last line of defense in treating life-threatening fungal infections in humans with minimal development of microbial resistance. Understanding how this small molecule kills yeast is thus critical for guiding development of derivatives with an improved therapeutic index and other resistance-refractory antimicrobial agents. In the widely accepted ion channel model for its mechanism of cytocidal action, amphotericin forms aggregates inside lipid bilayers that permeabilize and kill cells. In contrast, we report that amphotericin exists primarily in the form of large, extramembranous aggregates that kill yeast by extracting ergosterol from lipid bilayers. These findings reveal that extraction of a polyfunctional lipid underlies the resistance-refractory antimicrobial action of amphotericin and suggests a roadmap for separating its cytocidal and membrane-permeabilizing activities. This new mechanistic understanding is also guiding development of what are to our knowledge the first derivatives of amphotericin that kill yeast but not human cells