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Probabilistic Modeling of Operant Conditioning Behaviors via Stochastic DNA Strand Displacement Cascades 通过随机DNA链位移级联的操作性条件反射行为的概率建模。
IF 4.4 4区 生物学 Q1 BIOCHEMICAL RESEARCH METHODS Pub Date : 2025-08-19 DOI: 10.1109/TNB.2025.3599580
Junwei Sun;Qi'an Sun;Zicheng Wang;Yanfeng Wang
Operant conditioning is a learning mechanism by which animals adapt to its external environment and past experiences. In the field of artificial intelligence, DNA strand displacement (DSD) technology has performed well in various aspects. Chemical reaction networks (CRNs) are constructed using stochastic DSD technology to study operant conditioning, and the simulation results are verified by Visual DSD software. In this paper, the DSD technology is utilized to construct CRNs to achieve different kinds of learning and forgetting processes and generalization in operant conditioning. A comparative analysis is carried out on the four simulation results, and the peak acquisition values of each experiment are compared. The stochastic DSD technology is used to design stochastic CRNs to construct probabilistic decision making systems. The two-way probabilistic decision making of and the three-way probabilistic decision making of animal behaviors are studied. This paper presents the weight variations for each experiment in tabular form. Finally, a comparative analysis is conducted on the probabilistic outcomes of the two-way and three-way probabilistic decision-making experiments. CRNs can be used to achieve realistic behaviors in engineered bionic systems. It provides a direction for the integration of biology and psychology.
操作性条件反射是动物适应外部环境和过去经验的一种学习机制。在人工智能领域,DNA链位移(DSD)技术在各个方面都有很好的表现。利用随机DSD技术构建化学反应网络(crn)研究操作条件,并利用Visual DSD软件对模拟结果进行验证。本文利用DSD技术构建crn来实现操作性条件反射中不同类型的学习遗忘过程和泛化。对四种仿真结果进行对比分析,并对每次实验的峰值采集值进行比较。利用随机DSD技术设计随机crn,构建概率决策系统。研究了动物行为的双向概率决策和三向概率决策。本文以表格形式给出了每个实验的权重变化。最后,对双向和三向概率决策实验的概率结果进行了比较分析。crn可用于实现工程仿生系统的真实行为。它为生物学与心理学的融合提供了方向。
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引用次数: 0
Investigating the Adsorption Potential of Bentonite Nanoparticles as an Economical Adsorbent for Decontamination of Antibiotics From Aqueous Solution: Kinetics and Regeneration Studies 研究膨润土纳米颗粒作为一种经济的吸附剂从水溶液中去除抗生素的吸附潜力:动力学和再生研究。
IF 4.4 4区 生物学 Q1 BIOCHEMICAL RESEARCH METHODS Pub Date : 2025-07-31 DOI: 10.1109/TNB.2025.3589269
Sepideh Sahragard;Ali Naghizadeh
This study examines the adsorption efficacy of bentonite nanoparticles for removing Trimethoprim (TMP) and Penicillin G (PNG) antibiotics from aqueous solutions, emphasizing cost-effectiveness and operational efficiency. The bentonite nanoparticles, characterized by a surface area of 210–250 m2/g and a point of zero charge (pH ${}_{text {zpc}}text {)}$ of ~6, demonstrated optimal performance under acidic conditions (pH 3). At an adsorbent dosage of 0.1 g/L, initial antibiotic concentration of 100 mg/L, and contact time of 90 minutes (25°C), maximum adsorption capacities of 36.07 mg/g (TMP) and 39.43 mg/g (PNG) were achieved. Adsorption kinetics adhered to a pseudo-second-order model (R ${}^{{2}} =0.97$ for TMP; R ${}^{{2}} =0.99$ for PNG), suggesting chemisorption as the rate-limiting step. Isotherm studies aligned with the Freundlich and Dubinin–Radushkevich models, indicating heterogeneous surface interactions and predominantly physical adsorption mechanisms.
本研究考察了膨润土纳米颗粒从水溶液中去除甲氧苄啶(TMP)和青霉素G (PNG)抗生素的吸附效果,强调了成本效益和操作效率。膨润土纳米颗粒的表面积为210 ~ 250 m²/g,零电荷点(pHzpc)为~6,在酸性条件下(pH 3)表现出最佳性能。在吸附剂用量为0.1 g/L、初始抗生素浓度为100 mg/L、接触时间为90 min(25℃)的条件下,最大吸附量分别为36.07 mg/g (TMP)和39.43 mg/g (PNG)。TMP的吸附动力学符合准二阶模型(R²= 0.97);对于PNG, R²= 0.99),表明化学吸附是限速步骤。等温线研究与Freundlich和Dubinin-Radushkevich模型一致,表明非均质表面相互作用和主要的物理吸附机制。
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引用次数: 0
Molecular Communication-Based Quorum Sensing Disruption for Enhanced Immune Defense 基于分子通讯的群体感应干扰增强免疫防御。
IF 4.4 4区 生物学 Q1 BIOCHEMICAL RESEARCH METHODS Pub Date : 2025-07-30 DOI: 10.1109/TNB.2025.3593879
Shees Zulfiqar;Ozgur B. Akan
Molecular Communication (MC) utilizes chemical molecules to transmit information, introducing innovative strategies for pharmaceutical interventions and enhanced immune system monitoring. This paper explores Molecular communication-based approach to disrupt Quorum Sensing (QS) pathways to bolster immune defenses against antimicrobial-resistant bacteria. Quorum Sensing enables bacteria to coordinate critical behaviors, including virulence and antibiotic resistance, by exchanging chemical signals, known as autoinducers. By interfering with this bacterial communication, we can disrupt the synchronization of activities that promote infection and resistance. One of the key points is a discussion of the RNAIII-inhibitor (RIP) that blocks RNAII and RNAIII synthesis in the Accessory Gene Regulator (AGR) system, being important transcripts determining the production of toxins and immune evasion in Staphylococcus aureus. This interference in effect cripples the bacterial defensive mechanisms against immune responses hence promoting the host capability to recognize and kill the pathogen. In addition, QS inhibitors such as RIP can be combined with established antimicrobials to synergistically lower the necessary dose of the latter agent to alleviate the resistance selective pressure. Overall, this MC-based method does not only focus on taking care of bacterial virulence on a communication level but also allows to create an environment that promotes a more effective and stronger immune response, which seems a highly encouraging trend in managing resistant bacterial infections.
分子通信(MC)利用化学分子传递信息,为药物干预和增强免疫系统监测引入创新策略。本文探讨了基于分子通信的方法来破坏群体感应(QS)途径,以加强对抗微生物耐药细菌的免疫防御。群体感应使细菌能够通过交换被称为自诱导剂的化学信号来协调关键行为,包括毒性和抗生素耐药性。通过干扰这种细菌交流,我们可以破坏促进感染和抵抗的活动的同步。其中一个重点是对RNAIII抑制剂(RIP)的讨论,RIP在辅助基因调控(AGR)系统中阻断RNAII和RNAIII的合成,是决定金黄色葡萄球菌毒素产生和免疫逃避的重要转录本。这种干扰实际上削弱了细菌对免疫反应的防御机制,从而促进了宿主识别和杀死病原体的能力。此外,RIP等QS抑制剂可与已建立的抗菌素联合使用,以协同降低后者的必要剂量,以减轻耐药选择压力。总的来说,这种基于mc的方法不仅专注于在通信水平上照顾细菌的毒力,而且还允许创造一个促进更有效和更强的免疫反应的环境,这似乎是管理耐药细菌感染的一个非常令人鼓舞的趋势。
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引用次数: 0
The Effectiveness of Lipids Derived From Pseudomonas Putida Bacteria in the Formulation of Nanoliposomes Enhances the Delivery of Vincristine for the Treatment of Prostate Cancer 从恶臭假单胞菌中提取的脂质在纳米脂质体制剂中的有效性增强了长春新碱治疗前列腺癌的递送。
IF 4.4 4区 生物学 Q1 BIOCHEMICAL RESEARCH METHODS Pub Date : 2025-07-23 DOI: 10.1109/TNB.2025.3591912
Saba Jalilian;Mohammad Javad Hoseinifar;Zahra Asadi;Elham Arkan;Nahid Moarrefzadeh;Faranak Aghaz
Prostate cancer (PCa) presents a significant challenge globally due to drug resistance and the severe side effects linked to conventional treatments. In this study, we developed vincristine-loaded nanoliposome-based lipids derived from Pseudomonas putida bacteria (VCR-NLPs) utilizing a thin-layer method. The produced bacteria-lipid-based nanoliposomes represented a critical advancement in drug delivery, offering superior drug encapsulation, controlled release, and enhanced biocompatibility. VCR-NLPs were thoroughly characterized, displaying a spherical morphology with an average particle size of approximately 145 nm, a final zeta potential of −13.1 mV, and a biphasic release profile of VCR. The formulation exhibited efficient drug loading, with 50% release at pH 7.4 and 70% at pH 6, reflecting pH-responsive release behavior tailored to the acidic tumor microenvironment, thereby enhancing therapeutic efficacy. Our flow-cytometric analysis confirmed an efficient induction of late-stage apoptosis in PC3 cells after treatment with VCR-NLPs. These findings suggest that Pseudomonas putida-Lipid-based VCR-NLPs offer a promising nanocarrier system for targeted prostate cancer therapy, due to inducing controlled release of VCR and improving biocompatibility of it, for clinical treatments.
前列腺癌(PCa)由于耐药性和与常规治疗相关的严重副作用,在全球范围内提出了重大挑战。在这项研究中,我们利用薄层法从恶臭假单胞菌(vcr - nlp)中提取了含有长春新碱的纳米脂质体。所产生的细菌脂质纳米脂质体代表了药物传递的关键进步,提供了优越的药物包封,控释和增强的生物相容性。对VCR- nlp进行了全面表征,显示出平均粒径约为145 nm的球形形貌,最终zeta电位为-13.1 mV,以及VCR的双相释放谱。该制剂具有高效的载药量,在pH 7.4和pH 6下分别有50%和70%的释药,反映了针对酸性肿瘤微环境的pH响应释药行为,从而提高了治疗效果。我们的流式细胞术分析证实了vcr - nlp治疗后PC3细胞晚期凋亡的有效诱导。这些结果表明,以恶臭假单胞菌-脂质为基础的VCR- nlp可诱导VCR的控释并提高其生物相容性,为前列腺癌靶向治疗提供了一种很有前景的纳米载体体系。
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引用次数: 0
IEEE Transactions on NanoBioscience Publication Information IEEE纳米生物科学学报
IF 3.7 4区 生物学 Q1 BIOCHEMICAL RESEARCH METHODS Pub Date : 2025-06-26 DOI: 10.1109/TNB.2025.3579896
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引用次数: 0
IEEE Transactions on NanoBioscience Information for Authors IEEE纳米生物科学信息汇刊
IF 3.7 4区 生物学 Q1 BIOCHEMICAL RESEARCH METHODS Pub Date : 2025-06-26 DOI: 10.1109/TNB.2025.3579900
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引用次数: 0
Understanding the Crossing of Blood–Brain Barrier Using Nanocarriers: Current Trends and the Role of Physiologically Based Pharmacokinetic Modeling 利用纳米载体了解血脑屏障的穿越:当前趋势和基于生理的药代动力学模型的作用。
IF 4.4 4区 生物学 Q1 BIOCHEMICAL RESEARCH METHODS Pub Date : 2025-06-16 DOI: 10.1109/TNB.2025.3580172
Nazeer Abdul Azeez;Sung-Hoon Ahn
Drug delivery to the brain across the blood-brain barrier (BBB) has been a challenge for drugs unable to passively diffuse through it. Various parameters of the drugs contribute to the potency to cross the barrier made up of tight junctions of the epithelial cell membrane. For drugs with low permeability, novel nanoscale drug carriers have been developed to enhance delivery into the brain by circumventing the BBB. The carriers are fabricated in nanoscale for better penetration of the tight junctions in BBB. Understanding the physiology of the blood-brain barrier and the mechanism of molecular transport across it is crucial for designing effective drug carriers. Physiologically based pharmacokinetics (PBPK) modeling is a powerful tool for simulating the permeability of drugs and drug carriers across the BBB. The perfusion-limited kinetics and permeability-limited kinetics are two key equations that describe the transport of the drug into the brain and aiding in the determination of whether surface modifications to the drug carrier are necessary to improve the permeability. This review discusses the mechanisms of molecule transfer across the BBB, the parameters that filter drugs from the blood, the role of nanocarriers in enhancing permeability, the significance of PBPK modeling in extrapolating ${boldsymbol {i}n}~boldsymbol {vivo}$ permeability data of the drugs, and the recommended surface modifications to optimize drug delivery to the brain.
药物通过血脑屏障(BBB)进入大脑一直是一个挑战,因为药物不能被动地扩散通过它。药物的不同参数影响了它们穿过上皮细胞膜紧密连接的屏障的效力。对于低通透性的药物,新的纳米级药物载体已经被开发出来,通过绕过血脑屏障来增强药物进入大脑的能力。为了更好地穿透血脑屏障中的紧密连接,载体是在纳米尺度上制造的。了解血脑屏障的生理学和分子在血脑屏障上的转运机制对于设计有效的药物载体至关重要。基于生理的药代动力学(PBPK)模型是模拟药物和药物载体通过血脑屏障的渗透性的有力工具。灌注限制动力学和渗透性限制动力学是描述药物进入大脑的两个关键方程,有助于确定是否需要对药物载体进行表面修饰以改善渗透性。本文讨论了血脑屏障分子转移的机制、药物从血液中过滤的参数、纳米载体在增强血脑屏障渗透性中的作用、PBPK模型在推断药物体内渗透性数据中的意义,以及推荐的表面修饰以优化药物向大脑的传递。
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引用次数: 0
Ag-Doped ZnO Nanoparticles: A Versatile Multifunctional Nanomaterial for Anticancer, Antibacterial, and Recyclable Photocatalyst ag掺杂ZnO纳米粒子:抗癌、抗菌和可回收光催化剂的多功能纳米材料。
IF 4.4 4区 生物学 Q1 BIOCHEMICAL RESEARCH METHODS Pub Date : 2025-06-05 DOI: 10.1109/TNB.2025.3576227
Parvindar M. Sah;Smita G. Gite;Harshala S. Naik;Ratnamala Sonawane;Julia Nadrowska;Patrycja Golińska;Rajesh W. Raut;Aniket K. Gade
Silver doping into zinc oxide nanoparticles (Ag-ZnO NPs) were prepared via the co-precipitation method. The XRD analysis revealed the hexagonal structure characteristic of ZnO nanoparticles. The diminishing intensity of the peaks in Ag-ZnO NPs’ XRD pattern indicated the successful incorporation of Ag metal within the ZnO lattice. Elemental composition validation was performed through energy-dispersive X-ray spectroscopy (EDX), while FTIR spectroscopy elucidated the functional groups present in both ZnO and Ag nanoparticles. A judicious approach of 3% silver doping was employed to overcome silver’s toxicity potential at higher concentrations. Remarkably, the Ag-ZnO NPs exhibited exceptional, reusable photocatalytic prowess over four cycles in the degradation of methylene blue. Furthermore, the Ag-ZnO NPs showcased potent antibacterial efficacy against select pathogens, including Escherichia coli ATCC 27853, Salmonella typhi CT18, Staphylococcus aureus NCTC8325, and Bacillus subtilis QST 713. Notably, these nanoparticles also exhibited significant anticancer activity against Hep-G2, a human hepatoma cell line. Silver-doped zinc oxide emerges as a promising asset against wastewater dye pollution and holds promising applications in liver cancer.
采用共沉淀法制备了银掺杂氧化锌纳米粒子(Ag-ZnO NPs)。XRD分析揭示了ZnO纳米颗粒的六方结构特征。Ag-ZnO NPs的XRD谱图中峰的强度逐渐减弱,表明Ag金属成功地掺入到ZnO晶格中。通过能量色散x射线光谱(EDX)进行元素组成验证,而FTIR光谱则阐明了ZnO和Ag纳米颗粒中存在的官能团。采用3%银掺杂的方法克服银在较高浓度下的毒性。值得注意的是,Ag-ZnO NPs在降解亚甲基蓝的四个循环中表现出了非凡的、可重复使用的光催化能力。此外,Ag-ZnO NPs对大肠杆菌ATCC 27853、伤寒沙门氏菌CT18、金黄色葡萄球菌NCTC8325和枯草芽孢杆菌QST 713等病原菌均有较强的抗菌作用。值得注意的是,这些纳米颗粒对人肝癌细胞系Hep-G2也表现出显著的抗癌活性。银掺杂氧化锌是一种很有前途的抗废水染料污染的资产,在肝癌治疗中具有很好的应用前景。
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引用次数: 0
Real-Time Detection of Myocardial Infarction Onset Using Communication Network-Enabled Recursive Bayesian Updating 基于通信网络的递归贝叶斯更新实时检测心肌梗死发作。
IF 4.4 4区 生物学 Q1 BIOCHEMICAL RESEARCH METHODS Pub Date : 2025-06-03 DOI: 10.1109/TNB.2025.3576231
Uche A. K. Chude-Okonkwo;Athanasios V. Vasilakos
Myocardial infarction (MI) is one of the leading cardiovascular pathologies that often result in mortality. One of the methods to improve patient outcomes and lower mortality in MI occurrence is early detection. This requires access to individuals’ real-time vital cardiac signs to detect the onset of MI. However, most known vital cardiac signs and biomarkers of MI are either not always present in MI episodes or are not unique to MI. Hence, there is a need to develop a framework that can uniquely determine the onset of MI. This work proposes a framework for early detection of the MI onset that leverages the MI biomarker sensing capability of the Graphene-field effect transistor (G-FET), the remote vital cardiac indicators transmission ability of a communication network, and the real-time adaptive potential of recursive Bayesian updating based on an individual’s changing condition. The resultant posterior probability associated with the Bayesian updating, which is dynamically modified as new data is received in real-time, indicates the MI onset. This ensures early detection of MI. Considering an MI onset detection window of 30 to 60 minutes as a critical time to ensure that MI effects are salvageable, numerical results are provided. The numerical results demonstrate that the proposed framework provides early detection of MI onset, crucial to salvaging its effects and lowering mortality. The influence of some of the design parameters on the system performance is also evaluated.
心肌梗死(MI)是导致死亡的主要心血管疾病之一。早期发现是改善患者预后和降低心肌梗死死亡率的方法之一。这需要访问个人实时至关重要的心脏检测心肌梗死的发病迹象。然而,大多数已知的重要心脏体征和生物标志物MI并不总是存在于心肌梗死发作或不独特MI。因此,有必要开发一个框架,可以唯一确定的MI。这项工作提出了一个框架,用于早期检测心肌梗死发病的利用的MI生物传感能力Graphene-field效应晶体管(G-FET),通信网络的远程心脏重要指标传输能力,以及基于个体变化情况的递归贝叶斯更新的实时自适应潜力。与贝叶斯更新相关的后验概率,随着实时接收到新数据而动态修改,表明MI开始。这确保了心肌梗死的早期检测。考虑到心肌梗死发病检测窗口为30至60分钟,这是确保心肌梗死效应可抢救的关键时间,因此提供了数值结果。数值结果表明,所提出的框架提供了心肌梗死发病的早期检测,对挽救其影响和降低死亡率至关重要。分析了部分设计参数对系统性能的影响。
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引用次数: 0
Differences in Immunological Impact of Chemically and Biologically Synthesized Silver Nanoparticles 化学和生物合成纳米银的免疫影响差异。
IF 4.4 4区 生物学 Q1 BIOCHEMICAL RESEARCH METHODS Pub Date : 2025-04-28 DOI: 10.1109/TNB.2025.3564822
Vlasta Demeckova;Veronika Demcakova;Jana Sedlakova-Kadukova
Silver nanoparticles (AgNPs) are widely used for their antimicrobial properties but pose risks like environmental contamination and potential harm to human health. Nanoparticles’ small size facilitates translocation within the body, often bringing them into contact with blood. Most toxicological research focuses on chemically synthesized AgNPs (CAgNPs) and their effects on microbes and animal cells. Fewer studies explore biologically synthesized AgNPs (BAgNPs) on animal cells, and their impact on blood components is uncertain with varied findings due to differences in size and stability. This study examined BAgNPs’ effects on blood components in healthy and diseased states, using algae Parachlorella kessleri for synthesis. Nanoparticle size and morphology were assessed via TEM and UV-Vis spectrophotometry. Exposure to BAgNPs resulted in an increased number of echinocytes, reduced neutrophils, and decreased leukocyte viability. Unlike CAgNPs, BAgNPs did not increase macrophage proliferation. Differences in biological properties between BAgNPs and CAgNPs stem from their colloidal stability in varying environments. CAgNPs, stabilized electrostatically, exhibited greater aggregation in environments with higher salinity and lower pH, diminishing their biological effects in human blood. Hence, electrostatically stabilized chemically produced AgNPs may not be suitable for biomedical applications.
银纳米颗粒(AgNPs)因其抗菌特性而被广泛使用,但也存在环境污染和对人体健康的潜在危害等风险。纳米颗粒的小尺寸便于在体内移位,经常使它们与血液接触。大多数毒理学研究集中在化学合成AgNPs (CAgNPs)及其对微生物和动物细胞的影响上。较少的研究探索生物合成AgNPs (BAgNPs)对动物细胞的影响,由于其大小和稳定性的差异,它们对血液成分的影响是不确定的。本研究检测了健康和患病状态下BAgNPs对血液成分的影响,利用kessleri副伞藻进行合成。通过透射电镜和紫外可见分光光度法测定纳米颗粒的大小和形态。暴露于BAgNPs导致棘细胞数量增加,中性粒细胞减少,白细胞活力降低。与CAgNPs不同,BAgNPs不增加巨噬细胞的增殖。BAgNPs和CAgNPs生物学特性的差异源于它们在不同环境下的胶体稳定性。静电稳定的CAgNPs在高盐度和低pH的环境中表现出更大的聚集,从而降低了它们在人体血液中的生物效应。因此,静电稳定的化学生产的AgNPs可能不适合生物医学应用。
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引用次数: 0
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IEEE Transactions on NanoBioscience
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