用EM算法改进鸟枪法蛋白质鉴定中的无标记定量方法

蛋白质定量是探索疾病发生发展状况和寻找新药靶标的重要手段。在shotgun蛋白组学中,目前常用定量方法包括综合同位素标记后的质谱峰强度方法和无标记定量方法。根据数据类型无标记定量方法可以分为两类:基于鉴定蛋白的质谱数的方法和基于质谱峰强度的方法。本研究主要用EM算法改进基于鉴定蛋白质谱数的定量方法,并用免疫印迹实验获得的酵母全蛋白的丰度来验证EM算法改进后定量的有效性结果表明,改进后的质谱数和蛋白丰度的相关性比改进前有一定的提高。同时,利用这些数据对主要的几种基于鉴定蛋白的质谱数的模型进行了比较,发现PAI模型最好,SpS模型次之,emPAI模型最不适合于蛋白质定量。     

In Vitro Anti-Diabetic Activities and UHPLC-ESI-MS/MS Profile of Muntingia calabura Leaves Extract

Anti-diabetic compounds from natural sources are now being preferred to prevent or treat diabetes due to adverse effects of synthetic drugs. The decoction of Muntingia calabura leaves was traditionally consumed for diabetes treatment. However, there has not been any published data currently available on the processing effects on this plant’s biological activity and phytochemical profile. Therefore, this study aims to evaluate the effect of three drying methods (freeze-drying (FD), air-drying (AD), and oven-drying (OD)) and ethanol:water ratios (0, 50, and 100%) on in vitro anti-diabetic activities of M. calabura leaves. In addition, an ultrahigh-performance-liquid chromatography–electrospray ionization tandem mass spectrometry (UHPLC-ESI-MS/MS) method was used to characterize the metabolites in the active extract. The FD M. calabura leaves, extracted with 50% ethanol, is the most active extract that exhibits a high α-glucosidase and α-amylase inhibitory activities with IC₅₀ values of 0.46 ± 0.05 and 26.39 ± 3.93 µg/mL, respectively. Sixty-one compounds were tentatively identified by using UHPLC-ESI-MS/MS from the most active extract. Quantitative analysis, by using UHPLC, revealed that geniposide, daidzein, quercitrin, 6-hydroxyflavanone, kaempferol, and formononetin were predominant compounds identified from the active extract. The results have laid down preliminary steps toward developing M. calabura leaves extract as a potential source of bioactive compounds for diabetic treatment.     

Important Requirements for the Selection of Internal Standards during the Development of Desorption/Ionization Assays for Drug Quantification in Biological Matrices—A Practical Example

Desorption/ionization mass spectrometry (DI-MS) approaches allow for the rapid quantification of drugs in biological matrices using assays that can be validated according to regulatory guidelines. However, specific adaptations must be applied to create reliable quantification methods, depending on the approach and instrumentation used. In the present article, we demonstrate the importance of the molecular weight, the fragmentation pattern, and the purity of the internal standard for the development of matrix-assisted laser desorption/ionization (MALDI)-ion mobility (IM)-tandem MS and MS/MS methods. We present preliminary results of method development for the quantification of selinexor in microdialysis fluids with a stable isotopically labeled internal standard. In addition, we discuss the selection of internal standards for MALDI-MS assays using different instrumentations.     

Uncertainty quantification for dynamics of geometrically nonlinear structures coupled with internal acoustic fluids in presence of sloshing and capillarity

In this paper, we propose an uncertainty quantification analysis, which is the continuation of a recent work performed in a deterministic framework. The fluid–structure system under consideration is the one experimentally studied in the sixties by Abramson, Kana, and Lindholm from the Southwest Research Institute under NASA contract. This coupled system is constituted of a linear acoustic liquid contained in an elastic tank that undergoes finite dynamical displacements, inducing geometrical nonlinear effects in the structure. The liquid has a free surface on which sloshing and capillarity effects are taken into account. The problem is expressed in terms of the acoustic pressure field in the fluid, of the displacement field of the elastic structure, and of the normal elevation field of the free surface. The nonlinear reduced-order model constructed in the recent work evoked above is reused for implementing the nonparametric probabilistic approach of uncertainties. The objective of this paper is to present a sensitivity analysis of this coupled fluid–structure system with respect to uncertainties and to use a classical statistical inverse problem for carrying out the experimental identification of the hyperparameter of the stochastic model. The analysis show a significant sensitivity of the displacement of the structure, of the acoustic pressure in the liquid, and of the free-surface elevation to uncertainties in both linear and geometrically nonlinear simulations.     

不同基体改进剂对电感耦合等离子体质谱法测量血清中甲胎蛋白的影响

血清中甲胎蛋白(AFP)的准确测量对于癌症的临床诊断和治疗具有重要意义.电感耦合等离子体质谱法(ICP-MS)具有灵敏度高、检出限低、多元素同时检测等优点,但用于血清中低丰度蛋白的检测时,检出限常不及荧光检测法,因此,提高ICP-MS免疫分析测量低丰度蛋白质时的灵敏度具有重要意义.本研究发现,增强液能很大程度增加Eu信号强度,选取醋酸、醇类、EDTA三类有机试剂模拟增强液来探索增强机理.结果表明:酸性体系能增加目标元素在基体中的稳定性,减少其在管壁的吸附;碳原子或分子容易接受电子提高Eu的电离效率;EDTA能与金属离子结合,减少吸附,但同时EDTA与其它金属结合引入更多的干扰,从而使空白信号增大,5％ HAc既能满足酸性要求也能满足含碳量要求,作为基体时铕的灵敏度最高,同时也不影响空白信号.因此选择5％ HAc作为解离液,并应用于人血清中甲胎蛋白含量的测定,线性范围为1～600 μg/L,检出限为0.57 μg/L,采用基体改进ICP-MS测量人血清中AFP的含量与TRFIA测量结果一致,且精密度要优于TRFIA的测量结果.     

Summary of ISO/TC 201 standard: XXI. ISO 21270:2004—Surface chemical analysis—X‐ray photoelectron and Auger electron spectrometers—Linearity of intensity scale

This International Standard specifies two methods for determining the maximum count rate for an acceptable limit of divergence from linearity of the intensity scale of Auger and x‐ray photoelectron spectrometers. It also includes methods to correct for intensity non‐linearities so that a higher maximum count rate can be employed for those spectrometers for which the relevant correction equations have been shown to be valid. Copyright © 2004 John Wiley & Sons, Ltd.     

An overview of analytical methodologies for the determination of antibiotics in environmental waters

The widespread occurrence of antibiotics as contaminants in the aquatic environment has increased attention in the last years. The concern over the release of antibiotics into the environment is related primarily to the potential for the development of antimicrobial resistance among microorganisms. This article presents an overview of analytical methodologies for the determination of quinolone (Qs) and fluoroquinolone (FQs), macrolide (MLs), tetracycline (TCs), sulfonamide (SAs) antibiotics and trimethoprim (TMP) in different environmental waters. The analysis of these antibiotics has usually been carried out by high-performance liquid chromatography (HPLC) coupled to mass spectrometry (MS) or tandem mass spectrometry (MS/MS) and to a lesser extent by ultraviolet (UV) or fluorescence detection (FD). A very important step before LC analysis is sample preparation and extraction leading to elimination of interferences and prevention of matrix effect and preconcentration of target analytes.     

多情景降雨-径流的巫山县公路洪灾预警研究

暴雨情景下,山区径流水位突涨、流速与流量骤变等易发生公路洪灾,对人民生命财产安全造成巨大威胁。以巫山县为例,在不同强度降雨阈值下对降雨-径流水文参数指标进行量化处理,全面分析了降雨与水位、流速、流量之间的关系,并在多情景降雨下,基于公路洪灾孕灾指标,构建了公路洪灾预警模型。研究结果表明：山区径流水位变化幅度大于流速,而在大暴雨及特大暴雨情景下（降雨临界值185 mm）,流速变化大于水位,在不同降雨阈值下,等级较低的河流更易发生公路洪灾,其水位空间变化更剧烈、效应范围更广;而流量与水位变化则对等级较高的径流影响更大,且河流等级越高变化越明显;巫山县公路洪灾易发程度介于轻度与重度之间,东北与西南部区域公路洪灾易发性强,且较为集中,西南部、东部与中部,公路洪灾易发程度介于重度与中度之间,西北部、中部与南部区,介于轻度与中度之间。该研究结果可为山区公路洪灾防治提供决策依据。     

Padé–Legendre approximants for uncertainty analysis with discontinuous response surfaces

A novel uncertainty propagation method for problems characterized by highly non-linear or discontinuous system responses is presented. The approach is based on a Padé–Legendre (PL) formalism which does not require modifications to existing computational tools (non-intrusive approach) and it is a global method. The paper presents a novel PL method for problems in multiple dimensions, which is non-trivial in the Padé literature. In addition, a filtering procedure is developed in order to minimize the errors introduced in the approximation close to the discontinuities. The numerical examples include fluid dynamic problems characterized by shock waves: a simple dual throat nozzle problem with uncertain initial state, and the turbulent transonic flow over a transonic airfoil where the flight conditions are assumed to be uncertain. Results are presented in terms of statistics of both shock position and strength and are compared to Monte Carlo simulations.     

Real-time quantification of viable bacteria in liquid medium using infrared thermography

Quantifying viable bacteria in liquids is important in environmental, food processing, manufacturing, and medical applications. Since vegetative bacteria generate heat as a result of biochemical reactions associated with cellular functions, thermal sensing techniques, including infrared thermography (IRT), have been used to detect viable cells in biologic samples. We developed a novel method that extends the dynamic range and improves the sensitivity of bacterial quantification by IRT. The approach uses IRT video, thermodynamics laws, and heat transfer mechanisms to directly measure, in real-time, the amount of energy lost as heat from the surface of a liquid sample containing bacteria when the specimen cools to a lower temperature over 2 min. We show that the Energy Content (EC) of liquid media containing as few as 120 colony-forming units (CFU) of Escherichia coli per ml was significantly higher than that of sterile media (P < 0.0001), and that EC and viable counts were strongly positively correlated (r = 0.986) over a range of 120 to approximately 5 × 10⁸ CFU/ml. Our IRT approach is a unique non-contact method that provides real-time bacterial enumeration over a wide dynamic range without the need for sample concentration, modification, or destruction. The approach could be adapted to quantify other living cells in a liquid milieu and has the potential for automation and high throughput.