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Influence of nanocarrier additives on biomechanical response of a rat skin. 纳米载体添加剂对大鼠皮肤生物力学反应的影响
IF 3.7 4区 生物学 Q1 BIOCHEMICAL RESEARCH METHODS Pub Date : 2024-10-04 DOI: 10.1109/TNB.2024.3471588
Diplesh Gautam, Yashika Tomar, Pradeep Shukla, Vamshi Krishna Rapalli, Venkatesh Kp Rao, Gautam Singhvi

Skin health monitoring focuses on identifying diseases through the assessment of the mechanical properties of the skin. These properties may degrade with time, which can alter the skin's natural frequencies and the form of the modes associated with those frequencies. Exploring the skin's mechanical properties can enhance our understanding of its dynamics, improving clinical trials and diagnostics. In this work, the dynamics of the skin were measured using a laser-based non-invasive optical sensor experiment. We measured the skin's mechanical properties over time by analyzing its resonant frequencies and mode shapes. A nanocarrier gel and ketoconazole cream were topically applied to keep the skin hydrated and facilitate deeper penetration of the additives in the skin. Time-based research was used to assess the effect of different formulations on skin elasticity. Experimental results for the modulus of elasticity were compared with those obtained using Finite Element Analysis (FEA) simulations. We observed a reduction in frequencies of cream and gel-treated skin by 29.98% and 44.029% respectively compared to normal skin (frequency: 263.3 ± 1.18 Hz and Modulus of elasticity: 7.56 ± 2.60 MPa). A decrease in stiffness (function of frequency) attributed to increased water content, was observed in cream- and nanocarrier gel-treated skin compared to normal skin. Experimental and numerical results are found to be consistent with one another. This optical sensor-based approach has the potential for studying diseased skin mechanics and its response to gel and cream treatments, aiming to reduce skin disorder morbidity and severity.

皮肤健康监测的重点是通过评估皮肤的机械特性来识别疾病。这些特性可能会随着时间的推移而退化,从而改变皮肤的自然频率以及与这些频率相关的模态形式。探索皮肤的机械特性可以增强我们对皮肤动态的了解,从而改进临床试验和诊断。在这项工作中,我们使用基于激光的非侵入式光学传感器实验测量了皮肤的动态特性。我们通过分析皮肤的共振频率和模态形状,测量了皮肤随时间变化的机械特性。我们局部涂抹了纳米载体凝胶和酮康唑乳膏,以保持皮肤水分,促进添加剂在皮肤中的深层渗透。基于时间的研究用于评估不同配方对皮肤弹性的影响。弹性模量的实验结果与有限元分析(FEA)模拟得出的结果进行了比较。我们观察到,与正常皮肤相比,膏霜和凝胶处理皮肤的频率分别降低了 29.98% 和 44.029%(频率:263.3 ± 1.18 Hz,弹性模量:7.56 ± 2.60 MPa)。与正常皮肤相比,经过乳霜和纳米载体凝胶处理的皮肤刚度(频率函数)下降,这归因于含水量的增加。实验结果和数值结果是一致的。这种基于光学传感器的方法可用于研究病变皮肤力学及其对凝胶和乳霜治疗的反应,从而降低皮肤病的发病率和严重程度。
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引用次数: 0
Impact of Gold Nanoparticles Intraperitoneal Injection on Mice's Erythrocytes and Renal Tissue. 金纳米粒子腹腔注射对小鼠红细胞和肾组织的影响
IF 3.7 4区 生物学 Q1 BIOCHEMICAL RESEARCH METHODS Pub Date : 2024-10-03 DOI: 10.1109/TNB.2024.3471813
Hassan A Almarshad, Abozer Elderdery, Fawaz O Alenazy, Shawgi A Elissidig

The purpose of this study was to investigate the effects of two different types of gold nanoparticles (AuNPs) delivered by intraperitoneal (IP) injection on blood and kidney tissue changes in a mouse model. Three groups of fifteen adult male BALB/c healthy mice, weighing approximately 25-30 g, were used for the experiment and designated G1, G2, and G3, respectively. G1 mice received vehicle, whereas G2 and G3 received an IP injection of 10 mg/kg body weight of methoxy poly ethylene glycol gold nanoparticles (PEG-AuNPs) and fluorescently dye labeled gold nanoparticles (Dye-AuNPs), respectively. Hematological parameters were measured based on the standard complete blood cell count (CBC) technique. The two nanoparticles, i.e., PEG-AuNPs and Dye-AuNPs, significantly reduced most red blood cell (RBC) parameters in the groups with the exception of a nonsignificant effect on hemoglobin (HBG) levels. Both gold nanoparticles, i.e., PEG-AuNPs and Dye-AuNPs, led to a reduced RBC count, mean corpuscular volume (MCV), and mean corpuscular hemoglobin (MCH) level when compared with the control. Notably, Dye-AuNPs and PEG-AuNPs resulted in a considerably higher RBC distribution RDW-(CV % and SD fL). Glomerular injury was suggested based on the development of hydropic degeneration and the presence of a protein-rich fluid inside the tubules. Renal tissue and blood indices changed significantly in response to the two nanoparticles, suggesting possible organ injury.

本研究旨在探讨通过腹腔注射(IP)给药的两种不同类型的金纳米粒子(AuNPs)对小鼠模型的血液和肾脏组织变化的影响。实验使用了三组 15 只成年雄性 BALB/c 健康小鼠(体重约 25-30 克),分别命名为 G1、G2 和 G3。G1 小鼠接受药物治疗,而 G2 和 G3 则分别接受 10 mg/kg 体重的甲氧基聚乙二醇金纳米颗粒(PEG-AuNPs)和荧光染料标记金纳米颗粒(Dye-AuNPs)的 IP 注射。血液学参数根据标准全血细胞计数(CBC)技术进行测量。除对血红蛋白(HBG)水平无显著影响外,PEG-AuNPs 和 Dye-AuNPs 这两种纳米粒子能显著降低各组的大多数红细胞(RBC)参数。与对照组相比,PEG-AuNPs 和 Dye-AuNPs 这两种金纳米粒子都会导致红细胞计数、平均血球容积 (MCV) 和平均血红蛋白 (MCH) 水平降低。值得注意的是,Dye-AuNPs 和 PEG-AuNPs 导致 RBC 分布 RDW-(CV % 和 SD fL)显著升高。肾小球损伤是基于肾小管内出现水肿变性和富含蛋白质的液体。肾组织和血液指数在两种纳米颗粒的作用下发生了显著变化,表明可能存在器官损伤。
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引用次数: 0
Impact of Anomalous Diffusion Phenomenon on Molecular Information Delivery in Bounded Environment. 反常扩散现象对有界环境中分子信息传递的影响
IF 3.7 4区 生物学 Q1 BIOCHEMICAL RESEARCH METHODS Pub Date : 2024-09-25 DOI: 10.1109/TNB.2024.3467695
Lokendra Chouhan

Through this paper, a three-dimensional molecular communication (MC) inside a cuboid container is considered. Instead of normal diffusion phenomenon, the anomalous diffusion phenomenon is incorporated which enhances the practicability of the model. The Fick's law is re-defined for the considering rectangular coordinate system in which information carrying molecules (ICMs) diffuse anomalously in the environment. The impact of flow of the fluid along the +x direction in the environment is also considered. Moreover, considering free propagator phenomenon, the expressions of spatio-temporal probability density function (PDF) of the ICMs is derived for the considered model. Further, the novel closed-form expressions for first arrival time density (FATD) of the ICM, survival probability (SP) at any time, and its corresponding first arrival probability (FAP) are also derived. Furthermore, the considered MC model is also analyzed in terms of minimum bit-error-rate (BER) using log-likelihood ratio test (LLRT) optimal detector. The derived expressions are verified using MATLAB based particle-based and Monte-Carlo simulations.

本文考虑了立方体容器内的三维分子通讯(MC)。模型中不再使用正常扩散现象,而是加入了反常扩散现象,从而提高了模型的实用性。在考虑到信息携带分子(ICM)在环境中异常扩散的矩形坐标系中,重新定义了菲克定律。还考虑了流体沿 +x 方向在环境中流动的影响。此外,考虑到自由传播者现象,推导出了所考虑模型中 ICM 的时空概率密度函数 (PDF) 表达式。此外,还推导出了 ICM 的首次到达时间密度 (FATD)、任意时间的存活概率 (SP) 及其相应的首次到达概率 (FAP) 的新型闭式表达式。此外,还使用对数似然比检验(LLRT)最佳检测器分析了所考虑的 MC 模型的最小误码率(BER)。推导出的表达式通过基于 MATLAB 的粒子模拟和蒙特卡罗模拟进行了验证。
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引用次数: 0
PCF-based Sensors for Biomedical Applications-A Review 基于 PCF 的生物医学应用传感器--综述
IF 3.9 4区 生物学 Q1 BIOCHEMICAL RESEARCH METHODS Pub Date : 2024-09-17 DOI: 10.1109/tnb.2024.3462748
Sushma Sawraj, Dharmendra Kumar, Ram Pravesh, Vijay Shanker Chaudhary, Bramha Prasad Pandey, Sneha Sharma, Santosh Kumar
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引用次数: 0
A novel framework for tongue feature extraction framework based on sublingual vein segmentation 基于舌下静脉分割的新型舌头特征提取框架
IF 3.9 4区 生物学 Q1 BIOCHEMICAL RESEARCH METHODS Pub Date : 2024-09-17 DOI: 10.1109/tnb.2024.3462461
Xiaohua Wan, Yulong Hu, Dehui Qiu, Juan Zhang, Xiaotong Wang, Fa Zhang, Bin Hu
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引用次数: 0
Molecular Communication-Based Intelligent Dopamine Rate Modulator for Parkinson’s Disease Treatment 用于帕金森病治疗的基于分子通讯的智能多巴胺速率调节器
IF 3.9 4区 生物学 Q1 BIOCHEMICAL RESEARCH METHODS Pub Date : 2024-09-12 DOI: 10.1109/tnb.2024.3456031
Elham Baradari, Ozgur B Akan
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引用次数: 0
State Observer Synchronization of Three-dimensional Chaotic Oscillatory Systems Based on DNA Strand Displacement 基于 DNA 链位移的三维混沌振荡系统的状态观测器同步化
IF 3.9 4区 生物学 Q1 BIOCHEMICAL RESEARCH METHODS Pub Date : 2024-09-11 DOI: 10.1109/tnb.2024.3457755
Zicheng Wang, Haojie Wang, Yanfeng Wang, Junwei Sun
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引用次数: 0
Strategic Multi-Omics Data Integration via Multi-Level Feature Contrasting and Matching 通过多层次特征对比和匹配实现战略性多传感器数据整合
IF 3.7 4区 生物学 Q1 BIOCHEMICAL RESEARCH METHODS Pub Date : 2024-09-10 DOI: 10.1109/TNB.2024.3456797
Jinli Zhang;Hongwei Ren;Zongli Jiang;Zheng Chen;Ziwei Yang;Yasuko Matsubara;Yasushi Sakurai
The analysis and comprehension of multi-omics data has emerged as a prominent topic in the field of bioinformatics and data science. However, the sparsity characteristics and high dimensionality of omics data pose difficulties in terms of extracting meaningful information. Moreover, the heterogeneity inherent in multiple omics sources makes the effective integration of multi-omics data challenging To tackle these challenges, we propose MFCC-SAtt, a multi-level feature contrast clustering model based on self-attention to extract informative features from multi-omics data. MFCC-SAtt treats each omics type as a distinct modality and employs autoencoders with self-attention for each modality to integrate and compress their respective features into a shared feature space. By utilizing a multi-level feature extraction framework along with incorporating a semantic information extractor, we mitigate optimization conflicts arising from different learning objectives. Additionally, MFCC-SAtt guides deep clustering based on multi-level features which further enhances the quality of output labels. By conducting extensive experiments on multi-omics data, we have validated the exceptional performance of MFCC-SAtt. For instance, in a pan-cancer clustering task, MFCC-SAtt achieved an accuracy of over 80.38%.
多组学数据的分析和理解已成为生物信息学和数据科学领域的一个重要课题。然而,omics 数据的稀疏性和高维性给提取有意义的信息带来了困难。为了应对这些挑战,我们提出了基于自我关注的多级特征对比聚类模型 MFCC-SAtt,以从多组学数据中提取信息特征。MFCC-SAtt 将每种 omics 类型视为一种不同的模态,并针对每种模态采用具有自我注意功能的自动编码器,将它们各自的特征整合并压缩到一个共享特征空间中。通过利用多层次特征提取框架和语义信息提取器,我们缓解了不同学习目标带来的优化冲突。此外,MFCC-SAtt 还能引导基于多层次特征的深度聚类,从而进一步提高输出标签的质量。通过在多组学数据上进行大量实验,我们验证了 MFCC-SAtt 的卓越性能。例如,在泛癌症聚类任务中,MFCC-SAtt 的准确率超过了 80.38%。
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引用次数: 0
Design and Performance Evaluation of Machine Learning-based Terahertz Metasurface Chemical Sensor. 基于机器学习的太赫兹元表面化学传感器的设计与性能评估。
IF 3.7 4区 生物学 Q1 BIOCHEMICAL RESEARCH METHODS Pub Date : 2024-09-03 DOI: 10.1109/TNB.2024.3453372
Abdullah Baz, Jacob Wekalao, Ngaira Mandela, Shobhit K Patel

This paper presents a terahertz metasurface based sensor design incorporating graphene and other plasmonic materials for highly sensitive detection of different chemicals. The proposed sensor employs the combination of multiple resonator designs - including circular and square ring resonators - to attain enhanced sensitivity among other performance parameters. Machine learning techniques like Random Forest regression, are employed to enhance the sensor design and predict its performance. The optimized sensor demonstrates excellent sensitivity of 417 GHzRIU-1 and a low detection limit of 0.264 RIU for ethanol and benzene detection. Furthermore, the integration of machine learning cuts down the simulation time and computational requirements by approximately 90% without compromising accuracy. The sensor's unique design and performance characteristics, including its high-quality factor of 14.476, position it as a promising candidate for environmental monitoring and chemical sensing applications. Moreover, it also demonstrates potential for 2-bit encoding applications through strategic modulation of graphene chemical potential values. On the other hand, it also shows prospects of 2-bit encoding applications via the modulation of graphene chemical. This work provides a major advancement to the terahertz sensing application by proposing new materials, structures, and methods in computation in order to develop a high-performance chemical sensor.

本文介绍了一种基于太赫兹元表面的传感器设计,其中结合了石墨烯和其他等离子材料,用于高灵敏度地检测不同的化学物质。所提出的传感器采用了多种谐振器设计(包括圆形和方形环形谐振器)的组合,以提高灵敏度和其他性能参数。采用随机森林回归等机器学习技术来增强传感器设计并预测其性能。优化后的传感器灵敏度高达 417 GHzRIU-1,乙醇和苯的检测限低至 0.264 RIU。此外,在不影响精度的情况下,机器学习的集成将模拟时间和计算要求减少了约 90%。该传感器独特的设计和性能特点,包括 14.476 的高质量系数,使其成为环境监测和化学传感应用的理想候选产品。此外,通过对石墨烯化学势值进行策略性调制,它还展示了 2 位编码应用的潜力。另一方面,它还展示了通过调制石墨烯化学势值进行 2 位编码的应用前景。这项工作通过提出新材料、新结构和新计算方法,为太赫兹传感应用提供了重大进展,从而开发出高性能化学传感器。
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引用次数: 0
A Representation Learning Approach for Predicting circRNA Back-Splicing Event via Sequence-Interaction-Aware Dual Encoder 通过序列交互感知双编码器预测 circRNA 回接事件的表征学习方法
IF 3.7 4区 生物学 Q1 BIOCHEMICAL RESEARCH METHODS Pub Date : 2024-09-03 DOI: 10.1109/TNB.2024.3454079
Chengxin He;Lei Duan;Huiru Zheng;Xinye Wang;Lili Guan;Jiaxuan Xu
Circular RNAs (circRNAs) play a crucial role in gene regulation and association with diseases because of their unique closed continuous loop structure, which is more stable and conserved than ordinary linear RNAs. As fundamental work to clarify their functions, a large number of computational approaches for identifying circRNA formation have been proposed. However, these methods fail to fully utilize the important characteristics of back-splicing events, i.e., the positional information of the splice sites and the interaction features of its flanking sequences, for predicting circRNAs. To this end, we hereby propose a novel approach called SIDE for predicting circRNA back-splicing events using only raw RNA sequences. Technically, SIDE employs a dual encoder to capture global and interactive features of the RNA sequence, and then a decoder designed by the contrastive learning to fuse out discriminative features improving the prediction of circRNAs formation. Empirical results on three real-world datasets show the effectiveness of SIDE. Further analysis also reveals that the effectiveness of SIDE.
环状 RNA(circRNA)因其独特的闭合连续环状结构而在基因调控和疾病相关方面发挥着至关重要的作用,这种结构比普通线性 RNA 更稳定、更保守。作为阐明其功能的基础性工作,人们提出了大量识别 circRNA 形成的计算方法。然而,这些方法未能充分利用反向剪接事件的重要特征,即剪接位点的位置信息及其侧翼序列的相互作用特征来预测 circRNA。为此,我们提出了一种名为 SIDE 的新方法,仅利用原始 RNA 序列预测 circRNA 的反向剪接事件。在技术上,SIDE 采用双重编码器捕捉 RNA 序列的全局和交互特征,然后通过对比学习设计解码器,融合出辨别特征,从而提高 circRNA 形成的预测能力。在三个真实世界数据集上的实证结果表明了 SIDE 的有效性。进一步的分析还显示了 SIDE 的有效性。
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引用次数: 0
期刊
IEEE Transactions on NanoBioscience
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