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代谢组学 3

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Cross-sectional network analysis of plasma proteins/metabolites correlated with pathogenesis and therapeutic

《医学前沿（英文）》 doi: 10.1007/s11684-023-1022-x

摘要： The treatment of PML/RARA+ acute promyelocytic leukemia (APL) with all-trans-retinoic acid and arsenic trioxide (ATRA/ATO) has been recognized as a model for translational medicine research. Though an altered microenvironment is a general cancer hallmark, how APL blasts shape their plasma composition is poorly understood. Here, we reported a cross-sectional correlation network to interpret multilayered datasets on clinical parameters, proteomes, and metabolomes of paired plasma samples from patients with APL before or after ATRA/ATO induction therapy. Our study revealed the two prominent features of the APL plasma, suggesting a possible involvement of APL blasts in modulating plasma composition. One was characterized by altered secretory protein and metabolite profiles correlating with heightened proliferation and energy consumption in APL blasts, and the other featured APL plasma-enriched proteins or enzymes catalyzing plasma-altered metabolites that were potential trans-regulatory targets of PML/RARA. Furthermore, results indicated heightened interferon-gamma signaling characterizing a tumor-suppressing function of the immune system at the first hematological complete remission stage, which likely resulted from therapy-induced cell death or senescence and ensuing supraphysiological levels of intracellular proteins. Overall, our work sheds new light on the pathophysiology and treatment of APL and provides an information-rich reference data cohort for the exploratory and translational study of leukemia microenvironment.

关键词： acute promyelocytic leukemia     plasma proteomics     plasma metabolomics     cross-sectional correlation network     pathogenesis     treatment    

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analysis of with enhanced poly--glutamic acid production through atmospheric and room temperature plasma

《化学科学与工程前沿（英文）》 2022年 第16卷 第12期   页码 1751-1760 doi: 10.1007/s11705-022-2211-x

摘要： Poly-γ-glutamic acid is an extracellular polymeric substance with various applications owing to its valuable properties of biodegradability, flocculating activity, water solubility, and nontoxicity. However, the ability of natural strains to produce poly-γ-glutamic acid is low. Atmospheric and room temperature plasma was applied in this study to conduct mutation breeding of Bacillus licheniformis CGMCC 2876, and a mutant strain M32 with an 11% increase in poly-γ-glutamic acid was obtained. Genome resequencing analysis identified 7 nonsynonymous mutations of ppsC encoding lipopeptide synthetase associated with poly-γ-glutamic acid metabolic pathways. From molecular docking, more binding sites and higher binding energy were speculated between the mutated plipastatin synthase subunit C and glutamate, which might contribute to the higher poly-γ-glutamic acid production. Moreover, the metabolic mechanism analysis revealed that the upregulated amino acids of M32 provided substrates for glutamate and promoted the conversion between L- and D-glutamate acids. In addition, the glycolytic pathway is enhanced, leading to a better capacity for using glucose. The maximum poly-γ-glutamic acid yield of 14.08 g·L–1 was finally reached with 30 g·L–1 glutamate.

关键词： ARTP mutagenesis     Bacillus licheniformis     poly-γ-glutamic acid     metabolomics    

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Progress in NMR-based metabolomics of

Qifang PAN,Jingya ZHAO,Yuliang WANG,Kexuan TANG

《农业科学与工程前沿（英文）》 2015年 第2卷 第3期   页码 195-204 doi: 10.15302/J-FASE-2015063

摘要： Metabolomics has been rapidly developed as an important field in plant sciences and natural products chemistry. As the only natural source for a diversity of monoterpenoid indole alkaloids (MIAs), especially the low-abundance antitumor agents vinblastine and vincristine, is highly valued and has been studied extensively as a model for medicinal plants improvement. Due to multistep enzymatic biosynthesis and complex regulation, genetic modification in the MIA pathway has resulted in complicated changes of both secondary and primary metabolism in , affecting not only the MIA pathway but also other pathways. Research at the metabolic level is necessary to increase knowledge on the genetic regulation of the whole metabolic network connected to MIA biosynthesis. Nuclear magnetic resonance (NMR) is a very suitable and powerful complementary technique for the identification and quantification of metabolites in the plant matrix. NMR-based metabolomics has been used in studies of for pathway elucidation, understanding stress responses, classification among different cultivars, safety and quality controls of transgenic plants, cross talk between pathways, and diversion of carbon fluxes, with the aim of fully unravelling MIA biosynthesis, its regulation and the function of the alkaloids in the plant from a systems biology point of view.

关键词： Catharanthus roseus     monoterpenoid indole alkaloids     NMR     metabolomics    

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Time-dependent metabolomics uncover dynamic metabolic adaptions in MCF-7 cells exposed to bisphenol A

《环境科学与工程前沿（英文）》 2023年 第17卷 第1期 doi: 10.1007/s11783-023-1604-5

摘要：

● Metabolomic temporal profiling of cells exposed to xenobiotics.

关键词： Metabolomics     BPA     MCF-7     Temporal profiling     Metabolic adaption     Dysregulation correlation    

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Diagnostic evaluation of plasma aldosterone concentration to plasma renin activity ratio in primary aldosteronism

ZHANG Huilan, WANG Daowen

《医学前沿（英文）》 2008年 第2卷 第1期   页码 11-14 doi: 10.1007/s11684-008-0003-4

摘要： Using the plasma aldosterone concentration to plasma renin activity ratio (PAC/PRA ratio) as the screening test of choice for primary aldosteronism in hypertensive patients, we studied the clinical characteristics and the diagnostic value of PAC/PRA ratio in primary aldosteronism. The plasma aldosterone concentration (PAC) and plasma renin activity (PRA) levels were measured by radioimmunoassay in 902 hypertensive patients from out-patient clinics or hospitals. One hundred and twenty-six suspected primary aldosteronism patients whose PAC/PRA ratio was > 25 ng/dL/ng/mL/hr had a lamellar computed tomography (CT) scan in the adrenal gland and follow-up visits. The proportion of primary aldosteronism in hypertensive patients was 14% (126/902). There were 54 patients with unilateral or bilateral hyperplasia and 25 patients with adenoma according to the CT scan. 39% (49/126) of the patients with primary aldosteronism had hypokalemia. Twenty-five patients received surgical treatment. The efficacy and cure rates were 100% (25/25) and 48% (12/25), respectively. The effective rate of aldactone and the single-drug cure rate were 89% (48/54) and 24% (13/54), respectively. Primary aldosteronism affects over 10% of hypertensive patients in China. The PAC/PRA ratio can be considered as a routine screening test in hypertensives, especially resistant hypertensive patients and a high PAC/PRA ratio is an invaluable index in primary aldosteronism diagnosis.
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Metabolomics in human type 2 diabetes research

null

《医学前沿（英文）》 2013年 第7卷 第1期   页码 4-13 doi: 10.1007/s11684-013-0248-4

摘要：

The high prevalence of diabetes and diabetic complications has caused a huge burden on the modern society. Although scientific advances have led to effective strategies for preventing and treating diabetes over the past several decades, little progress has been made toward curing the disease or even getting it under control, from a public health and overall societal standpoint. There is still a lack of reliable biomarkers indicative of metabolic alterations associated with diabetes and different drug responses, highlighting the need for the development of early diagnostic and prognostic markers for diabetes and diabetic complications. The emergence of metabolomics has allowed researchers to systemically measure the small molecule metabolites, which are sensitive to the changes of both environmental and genetic factors and therefore, could be regarded as the link between genotypes and phenotypes. During the last decade, the progression made in metabolomics has provided insightful information on disease development and disease onset prediction. Recent studies using metabolomics approach coupled with statistical tools to predict incident diabetes revealed a number of metabolites that are significantly altered, including branched-chain and aromatic amino acids, such as isoleucine, leucine, valine, tyrosine and phenylalanine, as diagnostic or highly-significant predictors of future diabetes. This review summarizes the current findings of metabolomic studies in human investigations with the most common form of diabetes, type 2 diabetes.

关键词： metabolomics     type 2 diabetes     metabolic pathway     mass spectrometry     nuclear magnetic resonance (NMR)    

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Important parameters in plasma jets for the production of RONS in liquids for plasma medicine: A brief

Anna Khlyustova, Cédric Labay, Zdenko Machala, Maria-Pau Ginebra, Cristina Canal

《化学科学与工程前沿（英文）》 2019年 第13卷 第2期   页码 238-252 doi: 10.1007/s11705-019-1801-8

摘要： Reactive oxygen and nitrogen species (RONS) are among the key factors in plasma medicine. They are generated by atmospheric plasmas in biological fluids, living tissues and in a variety of liquids. This ability of plasmas to create a delicate mix of RONS in liquids has been used to design remote or indirect treatments for oncological therapy by treating biological fluids by plasmas and putting them in contact with the tumour. Documented effects include selective cancer cell toxicity, even though the exact mechanisms involved are still under investigation. However, the “right” dose for suitable therapeutical activity is crucial and still under debate. The wide variety of plasma sources hampers comparisons. This review focuses on atmospheric pressure plasma jets as the most studied plasma devices in plasma medicine and compiles the conditions employed to generate RONS in relevant liquids and the concentration ranges obtained. The concentrations of H O , NO , NO and short-lived oxygen species are compared critically to provide a useful overview for the reader.

关键词： atmospheric plasma jets     liquids     ROS     RNS     plasma-dose    

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血浆代谢组学结合超微弱发光表征早期2型糖尿病的中医证型 Article

何敏, 孙濛濛, Slavik Koval, Roeland Van Wijk, Thomas Hankemeier, Jan Van der Greef, Eduard P.A. Van Wijk, 王梅

《工程（英文）》 2019年 第5卷 第5期   页码 916-923 doi: 10.1016/j.eng.2019.03.011

摘要：

2型糖尿病（T2DM）的患病率在全球范围内呈迅速上升趋势。因通用干预措施收效甚微，所以疾病研究的重点已经转向个性化策略，特别是疾病的早期阶段的个性化策略。中医基于系统观建立并结合了个性化策略，提高了我们对个性化诊断的认识。从系统生物学的角度，例如将代谢组学与其他系统性诊断方法（如超微弱发光）相结合，可提高对个性化诊断的理解，同时为此类个性化诊疗策略提供生化相关物质基础。在本研究中，我们研究了44名处于2型糖尿病前期的受试者的血浆代谢组学，探讨了基于以下中医亚型进行疾病早期分型的可行性：气阴两虚、气阴两虚挟痰湿、气阴两虚挟血瘀。此外，通过血浆代谢组学和超微弱发光在中医亚分型方面的关系，获得体内生化参数与体外表征参数的关联性信息，从而尝试对疾病亚型分类及判断有更深一步的阐释。结果表明，血浆代谢物的主成分分析揭示了从中医角度划分的2型糖尿病前期不同亚型之间的差异性。对于3种2型糖尿病前期亚型，相对含量较高的脂质（如胆固醇酯和甘油三酯）是鉴别其中之二的重要元素，并且可能与较高的心血管疾病风险相关。血浆代谢组学数据表明，血脂谱是超微弱发光在2型糖尿病亚型分型中收集的重要组成部分。结果表明，2型糖尿病前期的不同中医亚型之间存在代谢差异，可通过血浆代谢物分析来区分这些亚型，血浆代谢组学为系统性超微弱发光体表测量提供了生化参数相关依据。

关键词： 2型糖尿病     血浆代谢物     疾病亚型     超微弱发光     相关性网络    

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Kinetic Monte Carlo simulations of plasma-surface reactions on heterogeneous surfaces

Daniil Marinov

《化学科学与工程前沿（英文）》 2019年 第13卷 第4期   页码 815-822 doi: 10.1007/s11705-019-1837-9

摘要： Reactions of atoms and molecules on chamber walls in contact with low temperature plasmas are important in various technological applications. Plasma-surface interactions are complex and relatively poorly understood. Experiments performed over the last decade by several groups prove that interactions of reactive species with relevant plasma-facing materials are characterized by distributions of adsorption energy and reactivity. In this paper, we develop a kinetic Monte Carlo (KMC) model that can effectively handle chemical kinetics on such heterogenous surfaces. Using this model, we analyse published adsorption-desorption kinetics of chlorine molecules and recombination of oxygen atoms on rotating substrates as a test case for the KMC model.

关键词： plasma-surface interaction     kinetic Monte Carlo     plasma nano technology    

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From plasma to plasmonics: toward sustainable and clean water production through membranes

《化学科学与工程前沿（英文）》 2023年 第17卷 第12期   页码 1809-1836 doi: 10.1007/s11705-023-2339-3

摘要： The increasing demand for potable water is never-ending. Freshwater resources are scarce and stress is accumulating on other alternatives. Therefore, new technologies and novel optimization methods are developed for the existing processes. Membrane-based processes are among the most efficient methods for water treatment. Yet, membranes suffer from severe operational problems, namely fouling and temperature polarization. These effects can harm the membrane’s permeability, permeate recovery, and lifetime. To mitigate such effects, membranes can be treated through two techniques: plasma treatment (a surface modification technique), and treatment through the use of plasmonic materials (surface and bulk modification). This article showcases plasma- and plasmonic-based treatments in the context of water desalination/purification. It aims to offer a comprehensive review of the current developments in membrane-based water treatment technologies along with suggested directions to enhance its overall efficiency through careful selection of material and system design. Moreover, basic guidelines and strategies are outlined on the different membrane modification techniques to evaluate its prerequisites. Besides, we discuss the challenges and future developments about these membrane modification methods.

关键词： water treatment     membrane-based process     plasma treatment     plasma polymerization     plasmonic     light-to-heat conversion    

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Atomistic simulations of plasma catalytic processes

Erik C. Neyts

《化学科学与工程前沿（英文）》 2018年 第12卷 第1期   页码 145-154 doi: 10.1007/s11705-017-1674-7

摘要： There is currently a growing interest in the realisation and optimization of hybrid plasma/catalyst systems for a multitude of applications, ranging from nanotechnology to environmental chemistry. In spite of this interest, there is, however, a lack in fundamental understanding of the underlying processes in such systems. While a lot of experimental research is already being carried out to gain this understanding, only recently the first simulations have appeared in the literature. In this contribution, an overview is presented on atomic scale simulations of plasma catalytic processes as carried out in our group. In particular, this contribution focusses on plasma-assisted catalyzed carbon nanostructure growth, and plasma catalysis for greenhouse gas conversion. Attention is paid to what can routinely be done, and where challenges persist.

关键词： atomic scale simulation     plasma-catalyst    

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Sepsis biomarkers: an omics perspective

null

《医学前沿（英文）》 2014年 第8卷 第1期   页码 58-67 doi: 10.1007/s11684-014-0318-2

摘要：

Sepsis is a common cause of death in hospitalized patients worldwide. The early detection of sepsis remains a great challenge for clinicians, and delayed diagnosis frequently undermines treatment efforts, thereby contributing to high mortality. Omics technologies allow high-throughput screening of sepsis biomarkers. This review describes currently available and novel sepsis biomarkers in the context of genomics, transcriptomics, proteomics, and metabolomics. The combination of these technologies can help refine the diagnosis of sepsis. This review paper serves as a reference for future studies that employ an integrated, multi-omics approach to disease identification.

关键词： sepsis     biomarker     genomics     transcriptomics     proteomics     metabolomics    

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Plasma-catalysis: Is it just a question of scale?

J. Christopher Whitehead

《化学科学与工程前沿（英文）》 2019年 第13卷 第2期   页码 264-273 doi: 10.1007/s11705-019-1794-3

摘要： The issues of describing and understanding the changes in performance that result when a catalyst is placed into plasma are discussed. The different chemical and physical interactions that result and how their combination might produce beneficial results for the plasma-catalytic processing of different gas streams are outlined with particular emphasis being placed on the different range of spatial and temporal scales that must be considered both in experiment and modelling. The focus is on non-thermal plasma where the lack of thermal equilibrium creates a range of temperature scales that must be considered. This contributes in part to a wide range of inhomogeneity in different properties such as species concentrations and electric fields that must be determined experimentally by methods and be incorporated into modelling. It is concluded that plasma-catalysis is best regarded as conventional catalysis perturbed by the presence of a discharge, which modifies its operating conditions, properties and outcomes often in a very localised way. The sometimes used description “plasma-activated catalysis” is an apt one.

关键词： plasma catalysis     plasma-activated catalysis     non-thermal plasma     CO2 conversion    

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Submerged arc plasma system combined with ozone oxidation for the treatment of wastewater containing

《环境科学与工程前沿（英文）》 2021年 第15卷 第5期 doi: 10.1007/s11783-020-1384-0

摘要：

• Submerged arc plasma was introduced in terms of wastewater treatment.

关键词： Thermal plasma     Submerged arc plasma     Wastewater     Ozone     Phenol     Highly energetic electron    

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Modelling and diagnostics of multiple cathodes plasma torch system for plasma spraying

Kirsten BOBZIN, Nazlim BAGCIVAN, Lidong ZHAO, Ivica PETKOVIC, Jochen SCHEIN, Karsten HARTZ-BEHREND, Stefan KIRNER, José-Luis MARQUéS, Günter FORSTER

《机械工程前沿（英文）》 2011年 第6卷 第3期   页码 324-331 doi: 10.1007/s11465-011-0125-2

摘要：

Usage of a multiple-arcs system has significantly improved process stability and coating properties in air plasma spraying. However, there are still demands on understanding and controlling the physical process to determine process conditions for reproducible coating quality and homogeneity of coating microstructure. The main goal of this work is the application of numerical simulation for the prediction of the temperature profiles at the torch outlet for real process conditions. Behaviour of the gas flow and electric arcs were described in a three-dimensional numerical model. The calculated results showed the characteristic triangular temperature distribution at the torch nozzle outlet caused by three electric arcs. These results were compared with experimentally determined temperature distributions, which were obtained with specially developed computed tomography equipment for reconstructing the emissivity and temperature distribution of the plasma jet close to the torch exit. The calculated results related to temperature values and contours were verified for the most process parameters with experimental ones.

关键词： plasma spraying     electric arc     three-cathode plasma torch     numerical simulation     computed tomography    

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标题 作者 时间 类型 操作

Cross-sectional network analysis of plasma proteins/metabolites correlated with pathogenesis and therapeutic

期刊论文

analysis of with enhanced poly--glutamic acid production through atmospheric and room temperature plasma

期刊论文

Progress in NMR-based metabolomics of

Qifang PAN,Jingya ZHAO,Yuliang WANG,Kexuan TANG

期刊论文

Time-dependent metabolomics uncover dynamic metabolic adaptions in MCF-7 cells exposed to bisphenol A

期刊论文

Diagnostic evaluation of plasma aldosterone concentration to plasma renin activity ratio in primary aldosteronism

ZHANG Huilan, WANG Daowen

期刊论文

Metabolomics in human type 2 diabetes research

null

期刊论文

Important parameters in plasma jets for the production of RONS in liquids for plasma medicine: A brief

Anna Khlyustova, Cédric Labay, Zdenko Machala, Maria-Pau Ginebra, Cristina Canal

期刊论文

血浆代谢组学结合超微弱发光表征早期2型糖尿病的中医证型

何敏, 孙濛濛, Slavik Koval, Roeland Van Wijk, Thomas Hankemeier, Jan Van der Greef, Eduard P.A. Van Wijk, 王梅

期刊论文

Kinetic Monte Carlo simulations of plasma-surface reactions on heterogeneous surfaces

Daniil Marinov

期刊论文

From plasma to plasmonics: toward sustainable and clean water production through membranes

期刊论文

Atomistic simulations of plasma catalytic processes

Erik C. Neyts

期刊论文

Sepsis biomarkers: an omics perspective

null

期刊论文

Plasma-catalysis: Is it just a question of scale?

J. Christopher Whitehead

期刊论文

Submerged arc plasma system combined with ozone oxidation for the treatment of wastewater containing

期刊论文

Modelling and diagnostics of multiple cathodes plasma torch system for plasma spraying

Kirsten BOBZIN, Nazlim BAGCIVAN, Lidong ZHAO, Ivica PETKOVIC, Jochen SCHEIN, Karsten HARTZ-BEHREND, Stefan KIRNER, José-Luis MARQUéS, Günter FORSTER

期刊论文