IEEE Transactions on NanoBioscience最新文献_第10页

IEEE Transactions on NanoBioscience Information for Authors IEEE纳米生物科学信息汇刊

IF 3.9 4区生物学

IEEE Transactions on NanoBioscience Pub Date : 2023-06-29 DOI: 10.1109/TNB.2023.3283635

引用次数: 0

Biosynthesis of Gold Nanoparticles Using Quince Seed Water Extract and Investigation of Their Anticancer Effect Against Cancer Cell Lines 利用榅桲籽水提取物生物合成金纳米粒子并研究其对癌症细胞株的抗癌效果

IF 3.9 4区生物学

IEEE Transactions on NanoBioscience Pub Date : 2023-06-28 DOI: 10.1109/TNB.2023.3287805

Mohammad Reza Ahmadpour;Mahdi Yousefi;Hassan Rakhshandeh;Majid Darroudi;Seyed Hadi Mousavi;Mohammad Soukhtanloo;Zahra Sabouri;Vahid Reza Askari;Alireza Hashemzadeh;Mohammad Azad Manjiri;Malihe Motavasselian

引用次数: 0

Optimization of Extracellular Vesicle Release for Targeted Drug Delivery 优化细胞外囊泡释放，实现靶向给药。

IF 3.9 4区生物学

IEEE Transactions on NanoBioscience Pub Date : 2023-06-19 DOI: 10.1109/TNB.2023.3287637

Martin Damrath;Mladen Veletić;Hamid Khoshfekr Rudsari;Ilangko Balasingham

引用次数: 0

Review of Physical Layer Security in Molecular Internet of Nano-Things 纳米物联网中的物理层安全回顾。

IF 3.9 4区生物学

IEEE Transactions on NanoBioscience Pub Date : 2023-06-14 DOI: 10.1109/TNB.2023.3285973

Song Qiu;Zhuangkun Wei;Yu Huang;Mahmoud Abbaszadeh;Jerome Charmet;Bin Li;Weisi Guo

{"title":"Review of Physical Layer Security in Molecular Internet of Nano-Things","authors":"Song Qiu;Zhuangkun Wei;Yu Huang;Mahmoud Abbaszadeh;Jerome Charmet;Bin Li;Weisi Guo","doi":"10.1109/TNB.2023.3285973","DOIUrl":"10.1109/TNB.2023.3285973","url":null,"abstract":"Molecular networking has been identified as a key enabling technology for Internet-of-Nano-Things (IoNT): microscopic devices that can monitor, process information, and take action in a wide range of medical applications. As the research matures into prototypes, the cybersecurity challenges of molecular networking are now being researched on at both the cryptographic and physical layer level. Due to the limited computation capabilities of IoNT devices, physical layer security (PLS) is of particular interest. As PLS leverages on channel physics and physical signal attributes, the fact that molecular signals differ significantly from radio frequency signals and propagation means new signal processing methods and hardware is needed. Here, we review new vectors of attack and new methods of PLS, focusing on 3 areas: (1) information theoretical secrecy bounds for molecular communications, (2) key-less steering and decentralized key-based PLS methods, and (3) new methods of achieving encoding and encryption through bio-molecular compounds. The review will also include prototype demonstrations from our own lab that will inform future research and related standardization efforts.","PeriodicalId":13264,"journal":{"name":"IEEE Transactions on NanoBioscience","volume":null,"pages":null},"PeriodicalIF":3.9,"publicationDate":"2023-06-14","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"10005367","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 1

Multi-Disease Detection Using a Prism-Based Surface Plasmon Resonance Sensor: A TMM and FEM Approach 使用棱镜式表面等离子体共振传感器检测多种疾病：TMM 和有限元方法

IF 3.9 4区生物学

IEEE Transactions on NanoBioscience Pub Date : 2023-06-14 DOI: 10.1109/TNB.2023.3286269

Rabeya Bosrin Rumi;Alok Kumar Paul;Salem A. Alyami;Mohammad Ali Moni

{"title":"Multi-Disease Detection Using a Prism-Based Surface Plasmon Resonance Sensor: A TMM and FEM Approach","authors":"Rabeya Bosrin Rumi;Alok Kumar Paul;Salem A. Alyami;Mohammad Ali Moni","doi":"10.1109/TNB.2023.3286269","DOIUrl":"10.1109/TNB.2023.3286269","url":null,"abstract":"This research introduces a surface plasmon resonance (SPR)-based biosensor with multilayered structures for telecommunication wavelength in order to detect multiple diseases. The malaria and the chikungunya viruses are taken into account and the presence of these viruses are determined by examining several blood components in healthy and affected phases. Here, two distinct configurations (Al-BTO-Al-MoS2 and Cu-BTO-Cu-MoS2) are proposed and contrasted for the detection of numerous viruses. The performance characteristics of this work have been analyzed using Transfer Matrix Method (TMM) method and Finite Element Method (FEM) method under angle interrogation technique. From the TMM and FEM solutions, it is evident that the Al-BTO-Al-MoS2 structure provides the highest sensitivities of ~270 deg./RIU for malaria and ~262 deg./RIU for chikungunya viruses, with satisfactory detection accuracy of ~1.10 for malaria, ~1.64 for chikungunya, and quality factor of ~204.40 for malaria, ~208.20 for chikungunya. In addition, the Cu-BTO-Cu MoS2 structure offers the highest sensitivities of ~310 deg./RIU for malaria and ~298 deg./RIU for chikungunya, with satisfactory detection accuracy of ~0.40 for malaria, ~0.58 for chikungunya, and quality factor of ~89.85 for malaria, ~86.38 for chikungunya viruses. Therefore, the performance of the proposed sensors is analyzed using two distinct methods and gives around similar results. In a sum, this research could be utilized as a theoretical foundation and first step in the development of a real sensor.","PeriodicalId":13264,"journal":{"name":"IEEE Transactions on NanoBioscience","volume":null,"pages":null},"PeriodicalIF":3.9,"publicationDate":"2023-06-14","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"9853795","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Modeling Extracellular Vesicles-Mediated Interactions of Cells in the Tumor Microenvironment 模拟细胞外囊泡介导的肿瘤微环境中细胞的相互作用

IF 3.9 4区生物学

IEEE Transactions on NanoBioscience Pub Date : 2023-06-12 DOI: 10.1109/TNB.2023.3284090

Mohammad Zoofaghari;Fabrizio Pappalardo;Martin Damrath;Ilangko Balasingham

{"title":"Modeling Extracellular Vesicles-Mediated Interactions of Cells in the Tumor Microenvironment","authors":"Mohammad Zoofaghari;Fabrizio Pappalardo;Martin Damrath;Ilangko Balasingham","doi":"10.1109/TNB.2023.3284090","DOIUrl":"10.1109/TNB.2023.3284090","url":null,"abstract":"Interactions of cells via extracellular vesicles (EVs) manipulate various actions, including cancer initiation and progression, inflammation, anti-tumor signaling and cell migration, proliferation and apoptosis in the tumor microenvironment. EVs as the external stimulus can activate or inhibit some receptor pathways in a way that amplify or attenuate a kind of particle release at target cells. This can also be carried out in a biological feedback-loop where the transmitter is affected by the induced release initiated by the target cell due to the EVs received from the donor cell, to create a bilateral process. In this paper, at first we derive the frequency response of internalization function in the framework of a unilateral communication link. This solution is adapted to a closed-loop system to find the frequency response of a bilateral system. The overall releases of the cells, given by the combination of the natural release and the induced release, are reported at the end of this paper and the results are compared in terms of distance between the cells and reaction rates of EVs at the cell membranes.","PeriodicalId":13264,"journal":{"name":"IEEE Transactions on NanoBioscience","volume":null,"pages":null},"PeriodicalIF":3.9,"publicationDate":"2023-06-12","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"9680469","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Timed Tissue P Systems With Channel States 具有通道状态的定时组织 P 系统

IF 3.9 4区生物学

IEEE Transactions on NanoBioscience Pub Date : 2023-06-12 DOI: 10.1109/TNB.2023.3278653

Yueguo Luo;Yuzhen Zhao;Yi Liu

引用次数: 0

Iterative Soft Decoding Algorithm for DNA Storage Using Quality Score and Redecoding 利用质量分数和重编码的 DNA 存储迭代软解码算法

IF 3.9 4区生物学

IEEE Transactions on NanoBioscience Pub Date : 2023-06-09 DOI: 10.1109/TNB.2023.3284406

Jaeho Jeong;Hosung Park;Hee-Youl Kwak;Jong-Seon No;Hahyeon Jeon;Jeong Wook Lee;Jae-Won Kim

{"title":"Iterative Soft Decoding Algorithm for DNA Storage Using Quality Score and Redecoding","authors":"Jaeho Jeong;Hosung Park;Hee-Youl Kwak;Jong-Seon No;Hahyeon Jeon;Jeong Wook Lee;Jae-Won Kim","doi":"10.1109/TNB.2023.3284406","DOIUrl":"10.1109/TNB.2023.3284406","url":null,"abstract":"Ever since deoxyribonucleic acid (DNA) was considered as a next-generation data-storage medium, lots of research efforts have been made to correct errors occurred during the synthesis, storage, and sequencing processes using error correcting codes (ECCs). Previous works on recovering the data from the sequenced DNA pool with errors have utilized hard decoding algorithms based on a majority decision rule. To improve the correction capability of ECCs and robustness of the DNA storage system, we propose a new iterative soft decoding algorithm, where soft information is obtained from FASTQ files and channel statistics. In particular, we propose a new formula for log-likelihood ratio (LLR) calculation using quality scores (Q-scores) and a redecoding method which may be suitable for the error correction and detection in the DNA sequencing area. Based on the widely adopted encoding scheme of the fountain code structure proposed by Erlich et al., we use three different sets of sequenced data to show consistency for the performance evaluation. The proposed soft decoding algorithm gives 2.3%\u0000<inline-formula> <tex-math>$sim $ </tex-math></inline-formula>\u00007.0% improvement of the reading number reduction compared to the state-of-the-art decoding method and it is shown that it can deal with erroneous sequenced oligo reads with insertion and deletion errors.","PeriodicalId":13264,"journal":{"name":"IEEE Transactions on NanoBioscience","volume":null,"pages":null},"PeriodicalIF":3.9,"publicationDate":"2023-06-09","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"9601921","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

PanDa Game: Optimized Privacy-Preserving Publishing of Individual-Level Pandemic Data Based on a Game Theoretic Model PanDa Game：基于博弈论模型的个人级流行病数据的优化隐私保护发布。

IF 3.9 4区生物学

IEEE Transactions on NanoBioscience Pub Date : 2023-06-08 DOI: 10.1109/TNB.2023.3284092

Abinitha Gourabathina;Zhiyu Wan;J. Thomas Brown;Chao Yan;Bradley A. Malin

{"title":"PanDa Game: Optimized Privacy-Preserving Publishing of Individual-Level Pandemic Data Based on a Game Theoretic Model","authors":"Abinitha Gourabathina;Zhiyu Wan;J. Thomas Brown;Chao Yan;Bradley A. Malin","doi":"10.1109/TNB.2023.3284092","DOIUrl":"10.1109/TNB.2023.3284092","url":null,"abstract":"Sharing individual-level pandemic data is essential for accelerating the understanding of a disease. For example, COVID-19 data have been widely collected to support public health surveillance and research. In the United States, these data are typically de-identified before publication to protect the privacy of the corresponding individuals. However, current data publishing approaches for this type of data, such as those adopted by the U.S. Centers for Disease Control and Prevention (CDC), have not flexed over time to account for the dynamic nature of infection rates. Thus, the policies generated by these strategies have the potential to both raise privacy risks or overprotect the data and impair the data utility (or usability). To optimize the tradeoff between privacy risk and data utility, we introduce a game theoretic model that adaptively generates policies for the publication of individual-level COVID-19 data according to infection dynamics. We model the data publishing process as a two-player Stackelberg game between a data publisher and a data recipient and then search for the best strategy for the publisher. In this game, we consider 1) average performance of predicting future case counts; and 2) mutual information between the original data and the released data. We use COVID-19 case data from Vanderbilt University Medical Center from March 2020 to December 2021 to demonstrate the effectiveness of the new model. The results indicate that the game theoretic model outperforms all state-of-the-art baseline approaches, including those adopted by CDC, while maintaining low privacy risk. We further perform an extensive sensitivity analyses to show that our findings are robust to order-of-magnitude parameter fluctuations.","PeriodicalId":13264,"journal":{"name":"IEEE Transactions on NanoBioscience","volume":null,"pages":null},"PeriodicalIF":3.9,"publicationDate":"2023-06-08","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"9950843","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Developing a New Phylogeny-Driven Random Forest Model for Functional Metagenomics 为功能宏基因组学开发一个新的系统发育驱动的随机森林模型。

IF 3.9 4区生物学

IEEE Transactions on NanoBioscience Pub Date : 2023-06-06 DOI: 10.1109/TNB.2023.3283462

Jyotsna Talreja Wassan;Haiying Wang;Huiru Zheng

{"title":"Developing a New Phylogeny-Driven Random Forest Model for Functional Metagenomics","authors":"Jyotsna Talreja Wassan;Haiying Wang;Huiru Zheng","doi":"10.1109/TNB.2023.3283462","DOIUrl":"10.1109/TNB.2023.3283462","url":null,"abstract":"Metagenomics is an unobtrusive science linking microbial genes to biological functions or environmental states. Classifying microbial genes into their functional repertoire is an important task in the downstream analysis of Metagenomic studies. The task involves Machine Learning (ML) based supervised methods to achieve good classification performance. Random Forest (RF) has been applied rigorously to microbial gene abundance profiles, mapping them to functional phenotypes. The current research targets tuning RF by the evolutionary ancestry of microbial phylogeny, developing a Phylogeny-RF model for functional classification of metagenomes. This method facilitates capturing the effects of phylogenetic relatedness in an ML classifier itself rather than just applying a supervised classifier over the raw abundances of microbial genes. The idea is rooted in the fact that closely related microbes by phylogeny are highly correlated and tend to have similar genetic and phenotypic traits. Such microbes behave similarly; and hence tend to be selected together, or one of these could be dropped from the analysis, to improve the ML process. The proposed Phylogeny-RF algorithm has been compared with state-of-the-art classification methods including RF and the phylogeny-aware methods of MetaPhyl and PhILR, using three real-world 16S rRNA metagenomic datasets. It has been observed that the proposed method not only achieved significantly better performance than the traditional RF model but also performed better than the other phylogeny-driven benchmarks (p < 0.05). For example, Phylogeny-RF attained a highest AUC of 0.949 and Kappa of 0.891 over soil microbiomes in comparison to other benchmarks.","PeriodicalId":13264,"journal":{"name":"IEEE Transactions on NanoBioscience","volume":null,"pages":null},"PeriodicalIF":3.9,"publicationDate":"2023-06-06","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"9576385","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0