Finite element and finite volume‐element simulation of pseudo‐ECGs and cardiac alternans

In this paper, we are interested in the spatio‐temporal dynamics of the transmembrane potential in paced isotropic and anisotropic cardiac tissues. In particular, we observe a specific precursor of cardiac arrhythmias that is the presence of alternans in the action potential duration. The underlying mathematical model consists of a reaction–diffusion system describing the propagation of the electric potential and the nonlinear interaction with ionic gating variables. Either conforming piecewise continuous finite elements or a finite volume‐element scheme are employed for the spatial discretization of all fields, whereas operator splitting strategies of first and second order are used for the time integration. We also describe an efficient mechanism to compute pseudo‐ECG signals, and we analyze restitution curves and alternans patterns for physiological and pathological cardiac rhythms. Copyright © 2014 John Wiley & Sons, Ltd.     

Analysis of genomic methylation level using micellar electrokinetic chromatography with UV detection

Analytical methods for quantification of 5′‐methylcytosine in genomes are important tools to investigate epigenetic changes in gene expression during development, differentiation, aging, or cancer. Here, we report a novel genomic methylation content assay based on enzymatic hydrolysis of DNA and MEKC separation of 5′‐deoxyribonucleoside monophosphates (dNMP) using the cationic surfactant CTAB as pseudostationary phase. Calf Thymus DNA was used during method development to determine electrophoretic parameters and electrolyte composition for a complete separation between 2′‐deoxycytosine‐5′‐monophosphate and 2′‐deoxy‐5′‐methylcytosine 5′‐monophosphate (d5mCMP). Methylated and not methylated oligonucleotides were used to confirm the identity of each peak and evaluate analytical parameters of the method. The LOD of the method was found to be 12.5 pmol/μL for d5mCMP.     

Protecting group free synthesis of 6-substituted naphthols and binols

A straightforward route for the preparation of 6-substituted naphthols and 6,6'-disubstituted binols (binol = 2,2'-dihydroxy-1,1'-binaphthyl) is presented. The synthesis has been accomplished by a one-step procedure starting from 6-bromo derivatives via direct lithiation with n-BuLi, followed by the addition of several electrophiles. This C-C functionalization has been successfully achieved with iodomethane, 3-methoxybenzaldehyde, benzophenone, methyl-2-methylbenzoate, methylbenzoate, dimethyl carbonate, ethyl 2-chloro-2-oxoacetate, and 2,2-dimethyloxirane (E). This reactivity offers a useful protecting group free synthetic protocol, toward chiral disubstituted 6,6'-binols with configuration retention of the binol moiety.     

Nanocrystalline oxide (Y2O3, Dy2O3, ZrO2, NiO) coatings on BaTiO3 submicron particles by precipitation

Nanocoatings (5–20 nm) of different compounds on fine BaTiO₃ particles were obtained by means of precipitation processes. Homogeneous and smooth shells of Y(OH)CO₃ and Dy(OH)CO₃ were grown from nitrate solutions in the presence of urea. An irregular coating consisting of zirconia nanoparticles was produced from zirconyl nitrate solution using ammonia as a precipitating agent after adsorption of a polymeric polyelectrolyte on the BaTiO₃ surface. Composite particles with a peculiar morphology were obtained by inducing heterogeneous nucleation and growth of Ni(OH)₂ lamellae on the BaTiO₃ surface. The different shells can be transformed in a nanocrystalline coating of the corresponding oxide (Y₂O₃, Dy₂O₃, ZrO₂, NiO) by calcination at moderate temperatures (400–700 °C). The overall results indicate that precipitation from solution represents a versatile process to grow a second-phase layer on the surface of BaTiO₃ particles. This approach can be used as an alternative to mechanical wet mixing for controlled doping of ferroelectric materials and for the fabrication of composite materials with specific geometry of the two-phase assembly.     

Asymmetrical hippocampal connectivity in mesial temporal lobe epilepsy: evidence from resting state fMRI

Background

Recent studies have shown that the human right-hemispheric auditory cortex is particularly sensitive to reduction in sound quality, with an increase in distortion resulting in an amplification of the auditory N1m response measured in the magnetoencephalography (MEG). Here, we examined whether this sensitivity is specific to the processing of acoustic properties of speech or whether it can be observed also in the processing of sounds with a simple spectral structure. We degraded speech stimuli (vowel /a/), complex non-speech stimuli (a composite of five sinusoidals), and sinusoidal tones by decreasing the amplitude resolution of the signal waveform. The amplitude resolution was impoverished by reducing the number of bits to represent the signal samples. Auditory evoked magnetic fields (AEFs) were measured in the left and right hemisphere of sixteen healthy subjects.

Results

We found that the AEF amplitudes increased significantly with stimulus distortion for all stimulus types, which indicates that the right-hemispheric N1m sensitivity is not related exclusively to degradation of acoustic properties of speech. In addition, the P1m and P2m responses were amplified with increasing distortion similarly in both hemispheres. The AEF latencies were not systematically affected by the distortion.

Conclusions

We propose that the increased activity of AEFs reflects cortical processing of acoustic properties common to both speech and non-speech stimuli. More specifically, the enhancement is most likely caused by spectral changes brought about by the decrease of amplitude resolution, in particular the introduction of periodic, signal-dependent distortion to the original sound. Converging evidence suggests that the observed AEF amplification could reflect cortical sensitivity to periodic sounds.     

New Histamine-Related Five-Membered N-Heterocycle Derivatives as Carbonic Anhydrase I Activators

A series of histamine (HST)-related compounds were synthesized and tested for their activating properties on five physiologically relevant human Carbonic Anhydrase (hCA) isoforms (I, II, Va, VII and XIII). The imidazole ring of HST was replaced with different 5-membered heterocycles and the length of the aliphatic chain was varied. For the most interesting compounds some modifications on the terminal amino group were also performed. The most sensitive isoform to activation was hCA I (K_A values in the low micromolar range), but surprisingly none of the new compounds displayed activity on hCA II. Some derivatives (1, 3a and 22) displayed an interesting selectivity for activating hCA I over hCA II, Va, VII and XIII.     

Cationic oligomerization of isoprene and structure of its oligomers

The results obtained in a study of isoprene cationic oligomerization in the presence of some oxyacids (H₂SO₄, CH₃SO₃H, Nafion^® H) are reported. Oligomers up to pentamers are obtained which were examined through gas chromatography/mass spectrometry analysis either of the reaction products or of the hydrogenated products. The structure of the dimer fraction was investigated and revealed the prevalent presence of α-pinene and p-cymene together with different cyclic unsaturated hydrocarbons. Only small quantities of linear dimers were found. Possible reaction mechanisms are presented.     

Anti-Multiple Myeloma Potential of Secondary Metabolites from Hibiscus sabdariffa—Part 2

Multiple Myeloma (MM) is an aggressive tumor causing millions of deaths every year and currently available therapies are often unsuccessful or correlated with severe side effects. In our previous work we demonstrated that the Hibiscus sabdariffa hydroalcoholic extract inhibits the growth of the MM cell line and we isolated two metabolites responsible for the activity: Hib-ester and Hib-carbaldehyde. Herein we report their interaction with proteasome, one of the main targets in the fight against MM. The molecular modelling study outlined a good interaction of both compounds with the target and these results prompted us to investigate their potential to inhibit proteasome. Metabolites were then isolated from the calyces and an extract with a high content of Hib-ester and Hib-carbaldehyde was prepared. An anticancer profile was drawn, evaluating apoptosis, autophagy and proteasome inhibition, with the anticancer properties being mainly attributed to the Hib-ester and Hib-carbaldehyde, while the proteasome inhibition of the extract could also be ascribed to the presence of anthocyanins, a class of secondary metabolites already known for their proteasome inhibitory activity.     

Using Steady-State Kinetics to Quantitate Substrate Selectivity and Specificity: A Case Study with Two Human Transaminases

We examined the ability of two human cytosolic transaminases, aspartate aminotransferase (GOT1) and alanine aminotransferase (GPT), to transform their preferred substrates whilst discriminating against similar metabolites. This offers an opportunity to survey our current understanding of enzyme selectivity and specificity in a biological context. Substrate selectivity can be quantitated based on the ratio of the k_cat/K_M values for two alternative substrates (the ‘discrimination index’). After assessing the advantages, implications and limits of this index, we analyzed the reactions of GOT1 and GPT with alternative substrates that are metabolically available and show limited structural differences with respect to the preferred substrates. The transaminases’ observed selectivities were remarkably high. In particular, GOT1 reacted ~10⁶-fold less efficiently when the side-chain carboxylate of the ’physiological’ substrates (aspartate and glutamate) was replaced by an amido group (asparagine and glutamine). This represents a current empirical limit of discrimination associated with this chemical difference. The structural basis of GOT1 selectivity was addressed through substrate docking simulations, which highlighted the importance of electrostatic interactions and proper substrate positioning in the active site. We briefly discuss the biological implications of these results and the possibility of using k_cat/K_M values to derive a global measure of enzyme specificity.     

Computing f-divergences and distances of high-dimensional probability density functions

Very often, in the course of uncertainty quantification tasks or data analysis, one has to deal with high-dimensional random variables. Here the interest is mainly to compute characterizations like the entropy, the Kullback–Leibler divergence, more general $f$-divergences, or other such characteristics based on the probability density. The density is often not available directly, and it is a computational challenge to just represent it in a numerically feasible fashion in case the dimension is even moderately large. It is an even stronger numerical challenge to then actually compute said characteristics in the high-dimensional case. In this regard it is proposed to approximate the discretized density in a compressed form, in particular by a low-rank tensor. This can alternatively be obtained from the corresponding probability characteristic function, or more general representations of the underlying random variable. The mentioned characterizations need point-wise functions like the logarithm. This normally rather trivial task becomes computationally difficult when the density is approximated in a compressed resp. low-rank tensor format, as the point values are not directly accessible. The computations become possible by considering the compressed data as an element of an associative, commutative algebra with an inner product, and using matrix algorithms to accomplish the mentioned tasks. The representation as a low-rank element of a high order tensor space allows to reduce the computational complexity and storage cost from exponential in the dimension to almost linear.