Uses of Molecular Docking Simulations in Elucidating Synergistic, Additive, and/or Multi-Target (SAM) Effects of Herbal Medicines.

The philosophy of herbal medicines is that they contain multiple active components that target many aspects of a given disease. This is in line with the recent multiple-target strategy adopted due to shortcomings with the previous "magic bullet", single-target strategy. The complexity of biological systems means it is often difficult to elucidate the mechanisms of synergistic, additive, and/or multi-target (SAM) effects.

Fractal Modelling of Heterogeneous Catalytic Materials and Processes.

This review considers the use of fractal concepts to improve the development, fabrication, and characterisation of catalytic materials and supports. First, the theory of fractals is discussed, as well as how it can be used to better describe often highly complex catalytic materials and enhance structural characterisation via a variety of different methods, including gas sorption, mercury porosimetry, NMR, and several imaging modalities. The review then surveys various synthesis and fabrication methods that can be used to create catalytic materials that are fractals or possess fractal character.

The Anatomy of Amorphous, Heterogeneous Catalyst Pellets.

This review focuses on disordered, or amorphous, porous heterogeneous catalysts, especially those in the forms of pellets and monoliths. It considers the structural characterisation and representation of the void space of these porous media. It discusses the latest developments in the determination of key void space descriptors, such as porosity, pore size, and tortuosity.

Use of activated Chromolaena odorata biomass for the removal of crystal violet from aqueous solution: kinetic, equilibrium, and thermodynamic study.

In the present study, biomass from the Chromolaena odorata plant's stem was activated using sulfuric acid to adsorb crystal violet (CV) dye. The adsorption operation of CV dye was studied considering the effect of variables like pH, initial dye concentration, time, adsorbent dosage, and temperature. The pseudo-second-order equation best fitted the kinetic study.

Assessing the quality of RNA isolated from human breast tissue after ambient room temperature exposure.

High quality human tissue is essential for molecular research, but pre-analytical conditions encountered during tissue collection could degrade tissue RNA. We evaluated how prolonged exposure of non-diseased breast tissue to ambient room temperature (22±1°C) impacted RNA quality. Breast tissue received between 70 to 190 minutes after excision was immediately flash frozen (FF) or embedded in Optimal Cutting Temperature (OCT) compound upon receipt (T0).

In-situ microwave-assisted catalytic upgrading of heavy oil: Experimental validation and effect of catalyst pore structure on activity.

In-situ combustion alone may not provide sufficient heating for downhole, catalytic upgrading of heavy oil in the Toe-to-Heel Air Injection (THAI) process. In this study, a new microwave heating technique has been proposed as a strategy to provide the requisite heating. Microwave technology is alone able to provide rapid heating which can be targeted at the catalyst packing and/or the incoming oil in its immediate vicinity.

Molecular hydrogen and catalytic combustion in the production of hyperpolarized 83Kr and 129Xe MRI contrast agents.

Hyperpolarized (hp) (83)Kr is a promising MRI contrast agent for the diagnosis of pulmonary diseases affecting the surface of the respiratory zone. However, the distinct physical properties of (83)Kr that enable unique MRI contrast also complicate the production of hp (83)Kr. This work presents a previously unexplored approach in the generation of hp (83)Kr that can likewise be used for the production of hp (129)Xe.

Techniques for direct experimental evaluation of structure-transport relationships in disordered porous solids.

Determining structure-transport relationships is critical to optimising the activity and selectivity performance of porous pellets acting as heterogeneous catalysts for diffusion-limited reactions. For amorphous porous systems determining the impact of particular aspects of the void space on mass transport often requires complex characterization and modelling steps to deconvolve the specific influence of the feature in question. These characterization and modelling steps often have limited accuracy and precision.

Insights into the influence of the cooling profile on the reconstitution times of amorphous lyophilized protein formulations.

Lyophilized protein formulations must be reconstituted back into solution prior to patient administration and in this regard long reconstitution times are not ideal. The factors that govern reconstitution time remain poorly understood. The aim of this research was to understand the influence of the lyophilization cooling profile (including annealing) on the resulting cake structure and reconstitution time.

Combining mercury thermoporometry with integrated gas sorption and mercury porosimetry to improve accuracy of pore-size distributions for disordered solids.

The typical approach to analysing raw data, from common pore characterization methods such as gas sorption and mercury porosimetry, to obtain pore size distributions for disordered porous solids generally makes several critical assumptions that impact the accuracy of the void space descriptors thereby obtained. These assumptions can lead to errors in pore size of as much as 500%. In this work, we eliminated these assumptions by employing novel experiments involving fully integrated gas sorption, mercury porosimetry and mercury thermoporometry techniques.

Tissue imprints: assessing their potential for routine biobanking collection.

Biomedical research depends on the availability of good quality biospecimens. Unfortunately, certain specimens are scarce due to disease rarity or size restrictions of surgical materials. To increase access to limited surgical specimens, Biobanks need to reassess and adjust their collection programs.

NMR cryoporometry characterisation studies of the relation between drug release profile and pore structural evolution of polymeric nanoparticles.

PLGA/PLA polymeric nanoparticles could potentially enhance the effectiveness of convective delivery of drugs, such as carboplatin, to the brain, by enabling a more sustained dosage over a longer time than otherwise possible. However, the link between the controlled release nanoparticle synthesis route, and the subsequent drug release profile obtained, is not well-understood, which hinders design of synthesis routes and availability of suitable nanoparticles. In particular, despite pore structure evolution often forming a key aspect of past theories of the physical mechanism by which a particular drug release profile is obtained, these theories have not been independently tested and validated against pore structural information.

Improving sensitivity and accuracy of pore structural characterisation using scanning curves in integrated gas sorption and mercury porosimetry experiments.

Gas sorption scanning curves are increasingly used as a means to supplement the pore structural information implicit in boundary adsorption and desorption isotherms to obtain more detailed pore space descriptors for disordered solids. However, co-operative adsorption phenomena set fundamental limits to the level of information that conventional scanning curve experiments can deliver. In this work, we use the novel integrated gas sorption and mercury porosimetry technique to show that crossing scanning curves are obtained for some through ink-bottle pores within a disordered solid, thence demonstrating that their shielded pore bodies are undetectable using conventional scanning experiments.

Probing hysteresis during sorption of cyclohexane within mesoporous silica using NMR cryoporometry and relaxometry.

The conventional data analysis methods for obtaining a pore size distribution (PSD) from gas sorption data make several critical assumptions that impact significantly on the accuracy of the PSD thereby obtained. In particular, assumptions must be made concerning the nature of the pore-filling or emptying process in adsorption, or desorption, respectively. The possibility of pore-pore interactions is also generally neglected.

Investigation of the problems with using gas adsorption to probe catalyst pore structure evolution during coking.

A common approach to try to understand the mechanism of coking in heterogeneous catalysts is to monitor the evolution of the pore structure using gas adsorption analysis of discharged pellets. However, the standard methods of analysis of gas adsorption data, to obtain pore-size distributions, make the key assumption of thermodynamically-independent pores. This assumption neglects the possibility of co-operative adsorption phenomena, which will shown to be a critical problem when looking at coking catalysts.

Probing the impact of advanced melting and advanced adsorption phenomena on the accuracy of pore size distributions from cryoporometry and adsorption using NMR relaxometry and diffusometry.

The accuracy of pore size distributions (PSD) obtained from gas adsorption and cryoporometry is compromised by the presence of advanced adsorption and advanced melting effects, respectively. In order to improve PSD accuracy, it is necessary to know the extent of such effects. In this work cryoporometry and adsorption have been combined to study the onset of advanced melting effects in a sample partially-saturated with different volumes of condensate, in turn, by pre-equilibration with different vapour pressures of adsorbate.

Determination of the location of coke in catalysts by a novel NMR-based, liquid-porosimetry approach.

In this work, a new technique, suitable for chemically-heterogeneous materials, has been used to characterise the structural properties of porous heterogeneous catalysts. A liquid-liquid exchange (LLE) process within nanoporous catalysts has been followed using NMR relaxometry and NMR diffusometry. In order to validate the new technique, two model materials were used.

Altered strand transfer activity of a multiple-drug-resistant human immunodeficiency virus type 1 reverse transcriptase mutant with a dipeptide fingers domain insertion.

Prolonged highly active anti-retroviral therapy with multiple nucleoside reverse transcriptase inhibitors for the treatment of patients infected with human immunodeficiency virus type 1 (HIV-1) can induce the development of an HIV-1 reverse transcriptase (RT) harboring a dipeptide insertion at the RT fingers domain with a background thymidine analog mutation. This mutation renders viral resistance to multiple nucleoside reverse transcriptase inhibitors. We investigated the effect of the dipeptide fingers domain insertion mutation on strand transfer activity using two clinical RT variants isolated during the pre-treatment and post-treatment of an infected patient, termed pre-drug RT without dipeptide insertion and post-drug RT with Ser-Gly insertion, respectively.

HIV-1 reverse transcriptase dissociates during strand transfer.

Steps in the replication of human immunodeficiency virus type 1 (HIV-1) occurring in the virus but not in the host are preferred targets of antiretroviral therapy. Strand transfer is unique; the DNA strand being made by viral reverse transcriptase (RT) is moved from one RNA template position to another. Understanding the mechanism requires knowing whether the RT directly mediates the template exchange or dissociates during the exchange, so that it occurs by polymer dynamics.

Selective incorporation of functional dicarboxylates into zinc metal-organic frameworks.

Zinc(II) nitrate reacts with different ratios of 1,4-benzenedicarboxylic acid (H(2)bdc) and 2-halo-1,4-benzenedicarboxylic acid (H(2)bdc-X, X = Br or I) to give [Zn(4)O(bdc)(3-x)(bdc-X)(x)], in which preferential incorporation of bdc is observed. The selective incorporation is related to crystal growth rates, and the proportion of incorporated bdc-X rises with increasing reaction time.

NMR studies of cooperative effects in adsorption.

The conversion of gas adsorption isotherms into pore size distributions generally relies upon the assumption of thermodynamically independent pores. Hence, pore-pore cooperative adsorption effects, which might result in a significantly skewed pore size distribution, are neglected. In this work, cooperative adsorption effects in water adsorption on a real, amorphous, mesoporous silica material have been studied using magnetic resonance imaging (MRI) and pulsed-gradient stimulated-echo (PGSE) NMR techniques.

Factors that determine the efficiency of HIV-1 strand transfer initiated at a specific site.

Human immunodeficiency virus-1 employs strand transfer for recombination between two viral genomes. We have previously provided evidence that strand transfer proceeds by an invasion-mediated mechanism in which a DNA segment on the original RNA template is invaded by a second RNA template at a gap site. The initial RNA-DNA hybrid then expands until the DNA is fully transferred.

The initial release of cisplatin from poly(lactide-co-glycolide) microspheres.

PLGA microspheres loaded with cisplatin were produced using a single emulsion method. A semi-empirical model, with bi-exponential terms, was found to give a better fit to the drug release profiles compared to a mono-exponential model. This model suggests that there are two separate fractions of drug present in the depot.

MF-DFT and experimental investigations of the origins of hysteresis in mercury porosimetry of silica materials.

In order to be able to make a proper interpretation of mercury porosimetry data, to obtain a structural characterization of a porous solid, a full understanding of the causes of hysteresis in mercury porosimetry is required. Several different theories have previously been proposed, but it is still difficult to make a priori predictions of the level of hysteresis anticipated. In this work, the effect of the degree of smaller scale surface roughness on the hysteresis width has been studied using mean-field density functional simulations and the results obtained confirmed by experiments on silica materials.

Mechanism analysis indicates that recombination events in HIV-1 initiate and complete over short distances, explaining why recombination frequencies are similar in different sections of the genome.

Strand transfer drives recombination between the co-packaged genomes of HIV-1, a process that allows rapid viral evolution. The proposed invasion-mediated mechanism of strand transfer during HIV-1 reverse transcription has three steps: (1) invasion of the initial or donor primer template by the second or acceptor template; (2) propagation of the primer-acceptor hybrid; and (3) primer terminus transfer. Invasion occurs at a site at which the reverse transcriptase ribonuclease H (RNase H) has created a nick or short gap in the donor template.