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IEEE Transactions on NanoBioscience Publication Information 电气和电子工程师学会《纳米生物科学论文集》出版信息
IF 3.7 4区 生物学 Q1 BIOCHEMICAL RESEARCH METHODS Pub Date : 2024-07-01 DOI: 10.1109/TNB.2024.3415191
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引用次数: 0
Design and Probing of Prism-Based SPR Nano-Biosensor for Human Sperm Detection. 用于人类精子检测的棱镜式 SPR 纳米生物传感器的设计与探测
IF 3.7 4区 生物学 Q1 BIOCHEMICAL RESEARCH METHODS Pub Date : 2024-06-26 DOI: 10.1109/TNB.2024.3419571
Yesudasu Vasimalla, Baljinder Kaur, Suman Maloji, Santosh Kumar

Human sperm functioning is crucial for maintaining natural reproduction, but its sterility is enhanced by variations in environmental conditions. Because of these agitating properties, powerful computer-aided devices are required, but their precision is inadequate, particularly when it comes to samples with low sperm concentrations. Therefore, for the first time, this article introduces the sulfide material-based structure for the detection of human sperm samples using the prism-based surface plasmon resonance sensor (SPR) Nano-biosensor. The proposed structure is designed on the basis of a prism-based Kretschmann configuration and includes silver, silicon, a sulfide layer, black phosphorus, and a sensing medium. This work takes advantage of the excitement of surface plasmons and evanescent waves in the metal dielectric region. For the detection process, seven sperm samples are taken, with their concentration, mobility, and refractive index measured by the refractometer. The proposed structure provides a maximum sensitivity of 409.17°/RIU, QF of 97.45RIU-1 and a DA of 1.37. The results provide a substantial improvement in comparison to the reported work in the literature.

人类精子的功能对维持自然繁殖至关重要,但环境条件的变化会增加精子的不育性。由于这些搅拌特性,需要功能强大的计算机辅助设备,但其精度不够,尤其是在检测精子浓度较低的样本时。因此,本文首次介绍了基于硫化物材料的结构,利用棱镜表面等离子体共振传感器(SPR)纳米生物传感器检测人类精子样品。所提出的结构是在基于棱镜的 Kretschmann 构型基础上设计的,包括银、硅、硫化物层、黑磷和传感介质。这项工作利用了表面等离子体和蒸发波在金属介质区域的激励作用。在检测过程中,采集了七个精子样本,并通过折射仪测量了它们的浓度、迁移率和折射率。拟议结构的最大灵敏度为 409.17°/RIU,QF 为 97.45RIU-1,DA 为 1.37。与文献报道的工作相比,结果有了很大改进。
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引用次数: 0
Machine learning-enhanced predictive modeling for arbitrary deterministic lateral displacement design and test. 用于任意确定性侧向位移设计和测试的机器学习增强型预测建模。
IF 3.7 4区 生物学 Q1 BIOCHEMICAL RESEARCH METHODS Pub Date : 2024-06-17 DOI: 10.1109/TNB.2024.3415365
Yidan Zhang, Junchao Wang, Jinkai Chen, Guodong Su, Wen-Sheng Zhao, Jun Liu

The separation of biological particles like cells and macromolecules from liquid samples is vital in clinical medicine, supporting liquid biopsies and diagnostics. Deterministic Lateral Displacement (DLD) is prominent for sorting particles in microfluidics by size. However, the design, fabrication, and testing of DLDs are complex and time-consuming. Researchers typically rely on finite element analysis to predict particle trajectories, which are crucial in evaluating the performance of DLD. Traditional particle trajectory predictions through finite element analysis often inaccurately reflect experimental results due to manufacturing and experimental variabilities. To address this issue, we introduced a machine learning-enhanced approach, combining past experimental data and advanced modeling techniques. Our method, using a dataset of 132 experiments from 40 DLD chips and integrating finite element simulation with a microfluidic-optimized particle simulation algorithm (MOPSA) and a Random Forest model, improves trajectory prediction and critical size determination without physical tests. This enhanced accuracy in simulation across various DLD chips speeds up development. Our model, validated against three DLD chip designs, showed a high correlation between predicted and experimental particle trajectories, streamlining chip development for clinical applications.

从液体样本中分离细胞和大分子等生物颗粒在临床医学中至关重要,可为液体活检和诊断提供支持。确定性侧向位移(DLD)是微流体技术中按尺寸分拣颗粒的主要方法。然而,DLD 的设计、制造和测试既复杂又耗时。研究人员通常依靠有限元分析来预测粒子轨迹,这对评估 DLD 的性能至关重要。由于制造和实验方面的差异,通过有限元分析预测粒子轨迹的传统方法往往不能准确反映实验结果。为了解决这个问题,我们结合以往的实验数据和先进的建模技术,引入了一种机器学习增强型方法。我们的方法使用了来自 40 个 DLD 芯片的 132 个实验数据集,并将有限元仿真与微流体优化粒子仿真算法 (MOPSA) 和随机森林模型相结合,无需物理测试即可改进轨迹预测和临界尺寸确定。在各种 DLD 芯片上提高模拟的准确性可加快研发速度。我们的模型针对三种 DLD 芯片设计进行了验证,结果表明粒子轨迹预测与实验之间具有很高的相关性,从而简化了临床应用的芯片开发。
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引用次数: 0
A label free fluorescent aptamer sensor based on the combined action of Graphene oxide and SYBR Green I for the detection of Aflatoxin B1. 基于氧化石墨烯和 SYBR Green I 联合作用的无标记荧光拟合传感器,用于检测黄曲霉毒素 B1。
IF 3.9 4区 生物学 Q1 BIOCHEMICAL RESEARCH METHODS Pub Date : 2024-05-20 DOI: 10.1109/TNB.2024.3403158
Mengyang Hu, Meng Cheng, Na Wang, Yidan Sang, Yafei Dong, Luhui Wang

Here, based on the characteristics of Graphene oxide(GO) and SYBR Green I(SGI) dye, an enzyme-free and label-free fluorescent biosensor with signal amplification through DNA strand reaction is proposed for the detection of Aflatoxin B1(AFB1) in food safety. Firstly, without the addition of AFB1, the substrate in the system includes a double stranded Apt-S with a long sticky end and two hairpins H1 and H2. Although the complementary pairing of bases may exhibit fluorescence due to the insertion of SGI dyes, the use of GO, which is highly capable of adsorbing single stranded parts and quenching fluorescence, cleverly reduces the background fluorescence. Adding the target AFB1 triggers DNA inter chain reactions, generating a large amount of long double stranded DNA H1-H2, thereby generating strong fluorescence signals under the action of SGI. More importantly, logical theory verification and computer simulation were conducted before biological experiments, providing a theoretical basis for the implementation of the biosensor. After analysis, the fluorescence biosensor exhibits a good linear relationship with AFB1 concentration in the range of 5-50nM, with a detection limit of 0.76nM. It also has good specificity, anti-interference ability, and practical application ability, and has broad application prospects in the field of food safety.

本文基于氧化石墨烯(GO)和SYBR Green I(SGI)染料的特性,提出了一种通过DNA链反应放大信号的无酶、无标记荧光生物传感器,用于食品安全中黄曲霉毒素B1(AFB1)的检测。首先,在不添加 AFB1 的情况下,系统中的底物包括一条具有长粘性末端的双链 Apt-S,以及两条发夹 H1 和 H2。虽然碱基互补配对可能会因 SGI 染料的插入而发出荧光,但使用具有很强吸附单链部分和淬灭荧光能力的 GO 可以巧妙地减少背景荧光。加入目标 AFB1 会引发 DNA 链间反应,生成大量长双链 DNA H1-H2,从而在 SGI 的作用下产生强烈的荧光信号。更重要的是,在生物实验之前进行了逻辑理论验证和计算机模拟,为生物传感器的实现提供了理论依据。经过分析,该荧光生物传感器在 5-50nM 范围内与 AFB1 浓度呈良好的线性关系,检测限为 0.76nM。同时,它还具有良好的特异性、抗干扰能力和实际应用能力,在食品安全领域具有广阔的应用前景。
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引用次数: 0
Bioinspired Quantum Oracle Circuits for Biomolecular Solutions of the Maximum Cut Problem 最大切割问题生物分子解决方案的生物启发量子甲骨文电路
IF 3.7 4区 生物学 Q1 BIOCHEMICAL RESEARCH METHODS Pub Date : 2024-04-30 DOI: 10.1109/TNB.2024.3395420
Weng-Long Chang;Renata Wong;Yu-Hao Chen;Wen-Yu Chung;Ju-Chin Chen;Athanasios V. Vasilakos
Given an undirected, unweighted graph with n vertices and m edges, the maximum cut problem is to find a partition of the n vertices into disjoint subsets ${V}_{{1}}$ and ${V}_{{2}}$ such that the number of edges between them is as large as possible. Classically, it is an NP-complete problem, which has potential applications ranging from circuit layout design, statistical physics, computer vision, machine learning and network science to clustering. In this paper, we propose a biomolecular and a quantum algorithm to solve the maximum cut problem for any graph G. The quantum algorithm is inspired by the biomolecular algorithm and has a quadratic speedup over its classical counterparts, where the temporal and spatial complexities are reduced to, respectively, ${O}text {(}sqrt {{2}^{n}/{r}}text {)}$ and ${O}text {(}{m}^{{2}}text {)}$ . With respect to oracle-related quantum algorithms for NP-complete problems, we identify our algorithm as optimal. Furthermore, to justify the feasibility of the proposed algorithm, we successfully solve a typical maximum cut problem for a graph with three vertices and two edges by carrying out experiments on IBM’s quantum simulator.
给定一个有 n 个顶点和 m 条边的无向、无权重图,最大剪切问题就是将 n 个顶点划分为不相交的子集 ${V}_{{1}}$ 和 ${V}_{{2}}$ ,使它们之间的边的数量尽可能多。从经典上讲,这是一个 NP-完全问题,其潜在应用范围包括电路布局设计、统计物理、计算机视觉、机器学习和网络科学以及聚类。本文提出了一种生物分子算法和一种量子算法来解决任意图 G 的最大切割问题。量子算法受到生物分子算法的启发,与经典算法相比速度提高了四倍,其中时间复杂度和空间复杂度分别降低为 ${O}text {(}sqrt {{2}^{n}/{r}}text {)}$ 和 ${O}text {(}{m}^{2}}text {)}$ 。相对于 NP-complete问题的甲骨文相关量子算法,我们认为我们的算法是最优的。此外,为了证明所提算法的可行性,我们在 IBM 的量子模拟器上进行了实验,成功地解决了一个有三个顶点和两条边的图的典型最大切割问题。
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引用次数: 0
Preliminary Exploration of the Biophysical Mechanisms of Pulsed Magnetic Field- Induced Cell Permeabilization 脉冲磁场诱导细胞渗透的生物物理机制初探
IF 3.7 4区 生物学 Q1 BIOCHEMICAL RESEARCH METHODS Pub Date : 2024-04-16 DOI: 10.1109/TNB.2024.3385413
Chi Ma;Mengnan Zhang;Fei Teng;Wei Zheng;Yan Mi
Pulsed magnetic field treatment can enhance cell membrane permeability, allowing large molecular substances that normally cannot pass through the cell membrane to enter the cell. This research holds significant prospects for biomedical applications. However, the mechanism underlying pulsed magnetic field-induced cell permeabilization remains unclear, impeding further progress in research related to pulsed magnetic field. Currently, hypotheses about the mechanism are struggling to explain experimental results. Therefore, this study developed a parameter-adjustable pulsed magnetic field generator and designed experiments. Starting from the widely accepted hypothesis of “induced electric fields by pulsed magnetic field,” we conducted a preliminary exploration of the biophysical mechanisms underlying pulsed magnetic field-induced cell permeabilization. Finally, we have arrived at an intriguing conclusion: under the current technical parameters, the impact of the pulsed magnetic field itself is the primary factor influencing changes in cell membrane permeability, rather than the induced electric field. This conclusion holds significant implications for understanding the biophysical mechanisms behind pulsed magnetic field therapy and its potential biomedical applications.
脉冲磁场处理可增强细胞膜的通透性,使通常无法通过细胞膜的大分子物质进入细胞。这项研究在生物医学应用方面前景广阔。然而,脉冲磁场诱导细胞通透性的机制仍不清楚,阻碍了脉冲磁场相关研究的进一步发展。目前,有关该机制的假设很难解释实验结果。因此,本研究开发了一种参数可调的脉冲磁场发生器,并设计了实验。从 "脉冲磁场诱导电场 "这一广为接受的假说出发,我们对脉冲磁场诱导细胞通透的生物物理机制进行了初步探索。最后,我们得出了一个耐人寻味的结论:在目前的技术参数下,脉冲磁场本身的影响是影响细胞膜通透性变化的主要因素,而不是诱导电场。这一结论对于理解脉冲磁场疗法背后的生物物理机制及其潜在的生物医学应用具有重要意义。
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引用次数: 0
Benchmarking Power Generation From Multiple Wastewater Electrolytes in Microbial Fuel Cells With 3D Printed Disk-Electrodes 微生物燃料电池中多种废水电解质的发电基准与 3D 打印磁盘电极
IF 3.7 4区 生物学 Q1 BIOCHEMICAL RESEARCH METHODS Pub Date : 2024-04-08 DOI: 10.1109/TNB.2024.3385739
Yuvraj Maphrio Mao;Khairunnisa Amreen;Sanket Goel
Microbial Fuel Cells (MFCs) have recently gained attention, as they are inexpensive, green in nature, and sustainable. As per the report, by Allied Market Research the global market size of MFCs will increase from ${$}$ 264.8 million in 2021 to ${$}$ 452.2 million in 2030, growing at a CAGR of 4.5%. The present work is a comparative study of various types of electrolytes that can be used in MFCs. The working electrodes were printed using conducting graphene-based Polylactic Acid (PLA) filaments with the help of a 3D printer under the principle of the fused deposition method. Simulated electrolytes and natural environmental microbial electrolytes were used here. Also, electrolytes of pure E. coli culture were studied. Lake water reported the highest power density of 8.259 mW/cm2 while Stale E. Coli reported the lowest around 0.184 mW/cm2. The study comprehensively lists potential wastewaters that can fuel the MFCs. With the pioneering of various comparative studies of electrolytes, one can insight into the recruitment of electrolytes with high-performance benchmarks for miniaturized energy storage and other microelectronics applications.
微生物燃料电池(MFCs)因其价格低廉、绿色环保和可持续发展的特性,最近备受关注。根据 Allied Market Research 的报告,MFCs 的全球市场规模将从 2021 年的 2.648 亿美元增至 2030 年的 4.522 亿美元,年复合增长率为 4.5%。本研究对可用于 MFC 的各类电解质进行了比较研究。在熔融沉积法原理的帮助下,使用基于导电石墨烯的聚乳酸(PLA)长丝在三维打印机上打印了工作电极。这里使用了模拟电解质和天然环境微生物电解质。此外,还研究了纯大肠杆菌培养物的电解质。湖水的功率密度最高,为 8.259 mW/cm2,而陈腐大肠杆菌的功率密度最低,约为 0.184 mW/cm2。该研究全面列出了可为 MFCs 提供燃料的潜在废水。随着各种电解质比较研究的开展,人们可以深入了解如何为微型化能源存储和其他微电子应用招募具有高性能基准的电解质。
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引用次数: 0
A Molecular Communication Perspective on Synchronization of Coupled Microfluidic-Spectroscopy 微流控光谱耦合同步的分子通讯视角
IF 3.7 4区 生物学 Q1 BIOCHEMICAL RESEARCH METHODS Pub Date : 2024-04-02 DOI: 10.1109/TNB.2024.3384082
Xuewen Qian;Stefan Angerbauer;Malcolm Egan;Marco Di Renzo;Werner Haselmayr
A challenge for real-time monitoring of biochemical processes, such as cells, is detection of biologically relevant molecules. This is due to the fact that spectroscopy methods for detection may perturb the cellular environment. One approach to overcome this problem is coupled microfluidic-spectroscopy, where a microfluidic output channel is introduced in order to observe biologically relevant molecules. This approach allows for non-passive spectroscopy methods, such as mass spectrometry, to identify the structure of molecules released by the cell. Due to the non-negligible length of the microfluidic channel, when a sequence of stimuli are applied to a cell it is not straightforward to determine which spectroscopy samples correspond to a given stimulus. In this paper, we propose a solution to this problem by taking a molecular communication (MC) perspective on the coupled microfluidic-spectroscopy system. In particular, assignment of samples to a stimulus is viewed as a synchronization problem. We develop two new algorithms for synchronization in this context and carry out a detailed theoretical and numerical study of their performance. Our results show improvements over maximum-likelihood synchronization algorithms in terms of detection performance when there are uncertainties in the composition of the microfluidic channel.
对细胞等生化过程进行实时监控的一个挑战是检测生物相关分子。这是因为光谱检测方法可能会扰乱细胞环境。克服这一问题的一种方法是微流体-光谱耦合技术,即引入微流体输出通道以观察生物相关分子。这种方法允许采用非被动光谱方法(如质谱法)来确定细胞释放的分子结构。由于微流体通道的长度不可忽略,当对细胞施加一连串刺激时,很难直接确定哪些光谱样本与特定刺激相对应。在本文中,我们从分子通讯(MC)的角度出发,提出了微流控光谱耦合系统的解决方案。特别是,将样本分配到刺激被视为一个同步问题。在此背景下,我们开发了两种新的同步算法,并对其性能进行了详细的理论和数值研究。我们的研究结果表明,当微流体通道的组成存在不确定性时,最大似然同步算法的检测性能比最大似然同步算法有所提高。
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引用次数: 0
IEEE Transactions on NanoBioscience Publication Information 电气和电子工程师学会《纳米生物科学论文集》出版信息
IF 3.9 4区 生物学 Q1 BIOCHEMICAL RESEARCH METHODS Pub Date : 2024-03-28 DOI: 10.1109/TNB.2024.3378371
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引用次数: 0
IEEE Transactions on NanoBioscience Information for Authors 电气和电子工程师学会《纳米生物科学学报》为作者提供的信息
IF 3.9 4区 生物学 Q1 BIOCHEMICAL RESEARCH METHODS Pub Date : 2024-03-28 DOI: 10.1109/TNB.2024.3378375
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引用次数: 0
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