N-glycosylation and ubiquitinylation of PD-L1 do not restrict interaction with BMS-202: A molecular modeling study

The Programmed cell Death protein-1/Ligand 1 (PD-1/L1) checkpoint is a major target in oncology. Monoclonal antibodies targeting PD-1 or PD-L1 are used to treat different types of solid tumors and lymphoma. PD-L1-binding small molecules are also actively searched. The lead compound is the biphenyl drug BMS-202 which stabilizes PD-L1 protein dimers and displays a potent antitumor activity in experimental models. Here we have investigated the effect of N-glycosylation (at N35, N192, N200 and N219) and mono-ubiquitination (at K178) of PD-L1 on the interaction with BMS-202 by molecular modeling. Two complementary tridimensional models of PD-L1, based on available crystallographic structures, were constructed with BMS-202 bound. The structures were glycosylated, with a fucosylated bi-antennary N-glycan and ubiquitinated. Model 1 refers to glycoPD-L1 bearing 16 N-glycans, with or without 4 ubiquitin residues. Model 2 presents 8 N-glycans and 2 ubiquitin residues. In both cases, BMS-202 was bound to the protein interface, stabilizing a PD-L1 dimer. The incorporation of the N-glycans or the ubiquitins did not significantly alter the drug-protein recognition. The interface of the drug-stabilized protein dimer is unaffected by the glycosylation or ubiquitination. Calculations of the binding energies indicated that the glycosylation slightly reduces the stability of the drug-protein complexes but does not prevent the drug binding process. Our modeling study suggests that the drug can target efficiently the different forms of PD-L1 in cells, glycosylated, ubiquitinated or not. These models of N-glycosylated and ubiquitinated PD-L1 will be useful to study other PD-L1 protein complexes.     

Mathematical Modelling of Glyphosate Molecularly Imprinted Polymer-Based Microsensor with Multiple Phenomena

The massive and careless use of glyphosate (GLY) in agricultural production raises many questions regarding environmental pollution and health risks, it is then important to develop simple methods to detect it. Electrochemical impedance spectroscopy (EIS) is an effective analytical tool for characterizing properties at the electrode/electrolyte interface. It is useful as an analytical procedure, but it can also help in the interpretation of the involved fundamental electrochemical and electronic processes. In this study, the impedance data obtained experimentally for a microsensor based on molecularly imprinted chitosan graft on 4-aminophenylacetic acid for the detection of glyphosate was analyzed using an exact mathematical model based on physical theories. The procedure for modeling experimental responses is well explained. The analysis of the observed impedance response leads to estimations of the microscopic parameters linked to the faradic and capacitive current. The interaction of glyphosate molecules with the imprinted sites of the CS-MIPs film is observed in the high frequency range. The relative variation of the charge transfer resistance is proportional to the log of the concentration of glyphosate. The capacitance decreases as the concentration of glyphosate increases, which is explained by the discharging of the charged imprinted sites when the glyphosate molecule interacts with the imprinted sites through electrostatic interactions. The phenomenon of adsorption of the ions in the CMA film is observed in the low frequency range, this phenomenon being balanced by the electrostatic interaction of glyphosate with the imprinted sites in the CS-MIPs film.     

On the inflation and deflation dynamics of liquid-filled,hyperelastic balloons

We derive a reduced-order model describing the inflation and deflation dynamics of a liquid-filled hyperelastic balloon, focusing on inviscid laminar flow and the extensional motion of the balloon. We initially study the flow and pressure fields for dictated motion of the solid, which throughout deflation are obtained by solving the potential problem. However, during inflation, flow separation creates a jet within the balloon, requiring a different approach. The analyses of both flow regimes lead to a simple piecewise model, describing the fluidic pressure during inflation and deflation, which is verified by finite element computations. We then use a variational approach to derive the equation describing the interaction between the extensional mode of the balloon and the entrapped fluid, yielding a nonlinear hybrid oscillator equation. Analytical and graphical investigations of the suggested model are presented, shedding light on its static and dynamic behaviour under different operating conditions. Our simplified model and its underlying assumptions are verified utilizing a fully coupled finite element scheme, showing excellent agreement.     

Modeling the drying of ultrasound and glucose pretreated sweet potatoes: The impact on phytochemical and functional groups

The influence of ultrasonic frequency (20 kHz) and glucose pretreatments either alone or in combination on the drying of sweet potato slices (3 mm) using a hot-air dryer at 60 °C was tested to study the kinetics modeling, phytochemicals, antioxidant activities, and functional and textural changes of the final dried product. The results indicated that total phenolic content and total flavonoid content were significantly higher in glucose-pretreated samples while antioxidant activities were higher in ultrasound- and glucose-pretreated samples. For vitamin C, much degradation occurred in the glucose-pretreated samples when compared with the other pretreated samples apart from the control. Enzymatic browning made a minor contribution to the ultrasound/glucose-pretreated samples, while no significant differences were noted in the glucose-pretreated samples. A modified Henderson and Pabis (MHP) model, followed by the two-term and Hii models, fitted best among the 15 selected mathematical models. Fourier Transform Infrared Spectroscopy (FTIR) analysis revealed the presence of glucose, phenols, and flavonols in all samples. Microstructural analysis confirmed the hardness (N) in the final glucose-pretreated samples due to glucose layers and less cell damage.     

Tumor Hypoxia Heterogeneity Affects Radiotherapy: Inverse-Percolation Shell-Model Monte Carlo Simulations

Tumor hypoxia was discovered a century ago, and the interference of hypoxia with all radiotherapies is well known. Here, we demonstrate the potentially extreme effects of hypoxia heterogeneity on radiotherapy and combination radiochemotherapy. We observe that there is a decrease in hypoxia from tumor periphery to tumor center, due to oxygen diffusion, resulting in a gradient of radiative cell-kill probability, mathematically expressed as a probability gradient of occupied space removal. The radiotherapy-induced break-up of the tumor/TME network is modeled by the physics model of inverse percolation in a shell-like medium, using Monte Carlo simulations. The different shells now have different probabilities of space removal, spanning from higher probability in the periphery to lower probability in the center of the tumor. Mathematical results regarding the variability of the critical percolation concentration show an increase in the critical threshold with the applied increase in the probability of space removal. Such an observation will have an important medical implication: a much larger than expected radiation dose is needed for a tumor breakup enabling successful follow-up chemotherapy. Information on the TME’s hypoxia heterogeneity, as shown here with the numerical percolation model, may enable personalized precision radiation oncology therapy.     

Immunity in the ABM-DSGE Framework for Preventing and Controlling Epidemics—Validation of Results

The COVID-19 pandemic has raised many questions on how to manage an epidemiological and economic crisis around the world. Since the beginning of the COVID-19 pandemic, scientists and policy makers have been asking how effective lockdowns are in preventing and controlling the spread of the virus. In the absence of vaccines, the regulators lacked any plausible alternatives. Nevertheless, after the introduction of vaccinations, to what extent the conclusions of these analyses are still valid should be considered. In this paper, we present a study on the effect of vaccinations within the dynamic stochastic general equilibrium model with an agent-based epidemic component. Thus, we validated the results regarding the need to use lockdowns as an efficient tool for preventing and controlling epidemics that were obtained in November 2020.     

数学形态学在红外多弱小目标提取中的应用

应用了高帽和低帽变换对图像进行对比度增强、采用基于流域变换的粘连目标分割的方法把图像中粘连目标分割开来,进而采用了自适应的阈值把图像二值化.通过这一系列的处理后,从红外图像中提取出了弱小目标信息.这种方法在红外弱小目标的判别中对目标的提取效果较佳,也给后续处理提供了方便.     

树脂吸附法分离纯化桑叶总黄酮——（Ⅱ）动态法分离桑叶总黄酮的工艺条件及数学模拟

考察了H103树脂固定床吸附分离桑叶总黄酮的工艺参数,并对吸附工艺进行了数学模拟和比较.实验结果表明,H103树脂固定床吸附分离桑叶总黄酮在上样浓度6.05mg/mL时,以9mL/min上样,吸附完全后用60%乙醇以4.5mL/min流速洗脱,桑叶总黄酮产品的回收率为90.57%,纯度为76.33%,建立的固定床吸附模型为预测固定床吸附桑叶水提液中桑叶黄酮达到穿透点时间及固定床吸附容量提供了准确、快捷的方法.     

近红外光谱法分析格列齐特片

应用化学计量法处理光谱数据,用偏最小二乘法建立格列齐特片的近红外分析模型。通过光谱预处理和模型的逐步优化最终确定定量分析模型的相关系数为0.991,交叉验证均方差(RMSECV)为0.641,预测均方根误差(RMSEP)为0.980,主因子数为4。选取15个验证样品对模型进行检验,检测结果相对误差在-2.04%～3.52%之间。