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Performance Analysis and ISI Mitigation with Imperfect Transmitter in Molecular Communication IEEE Trans. NanoBiosci. (IF 3.9) Pub Date : 2024-03-14 Dongliang Jing, Lin Lin, Andrew W. Eckford
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Analysis of Tapered Fibre Optic Surface Plasmon Resonance Bio-Sensor Chip with highly Perturbed Taper Profiles IEEE Trans. NanoBiosci. (IF 3.9) Pub Date : 2024-03-13 Sanjeev Kumar Raghuwanshi
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Biomedical Applications of Green Synthesized Zinc Oxide and Magnesium-Doped Zinc Oxide Nanoparticles Using Aqueous Extract of Ziziphus Oxyphylla Leaves IEEE Trans. NanoBiosci. (IF 3.9) Pub Date : 2024-03-12 Suliman Syed, Arshad Islam, Muhammad Shabeer, Akhtar Nadhman, Farhan Ahmad, Nadia Irfan, Shaila Mehwish, Ajmal Khan
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A High-Throughput Microdroplet-Based Single Cell Transfection Method for Gene Knockout Based on the CRISPR/Cas9 System IEEE Trans. NanoBiosci. (IF 3.9) Pub Date : 2024-03-07 Jiayu Sun, Yang Jiao, Fei Pan, Shuk Han Cheng, Dong Sun
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Characterizations of Centrifugal Electrospun Polyvinyl alcohol/Sodium alginate/Tamanu oil/Silver nanoparticles Wound Dressing IEEE Trans. NanoBiosci. (IF 3.9) Pub Date : 2024-03-01 Thi Phuong Anh Tran, Anh Hue Luong, Wei-Chih Lin
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Wireless Body Area NanoNetworks via Vascular Molecular Communication IEEE Trans. NanoBiosci. (IF 3.9) Pub Date : 2024-02-13 Ghazaleh Kianfar, Mehdi Azadi, Jamshid Abouei, Arash Mohammadi, Konstantinos N. Plataniotis
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Optimization of Novel 2D material based SPR Biosensor using Machine Learning IEEE Trans. NanoBiosci. (IF 3.9) Pub Date : 2024-01-25 Shobhit K. Patel, Jaymit Surve, Abdullah Baz, Yagnesh Parmar
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An Encoding Table Corresponding to ASCII Codes for DNA Data Storage and a New Error Correction Method HMSA IEEE Trans. NanoBiosci. (IF 3.9) Pub Date : 2024-01-22 Xuncai Zhang, Fuzhen Zhou
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Bimetal Thin Film, Semiconductors, and 2D Nanomaterials in SPR Biosensors: An Approach to Enhanced Urine Glucose Sensing IEEE Trans. NanoBiosci. (IF 3.9) Pub Date : 2024-01-15 Shatrughna Kumar, Archana Yadav, Boris A. Malomed
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Coordination and Bioorganometallic Chemistry: Exploring the Potential Applications of Metal Coordination and Organometallic Complexes in Medical and Microbiological Advancements IEEE Trans. NanoBiosci. (IF 3.9) Pub Date : 2024-01-09 A. A. Siller-Ceniceros, J. C. Martínez-Loyola, A. León-Buitimea, D. C. Almonte-Flores, M. E. Sánchez-Castro, J. R. Morones-Ramírez
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An AFM-based Model-Fitting-Free Viscoelasticity Characterization Method for Accurate Grading of Primary Prostate Tumor IEEE Trans. NanoBiosci. (IF 3.9) Pub Date : 2024-01-09 Na Liu, Tianyuan Zhang, Ziheng Chen, Yue Wang, Tao Yue, Jialin Shi, Gongxin Li, Chen Yang, Haowen Jiang, Yu Sun
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Concatenated Nanopore DNA Codes IEEE Trans. NanoBiosci. (IF 3.9) Pub Date : 2024-01-04 Adrian Vidal, V.B. Wijekoon, Emanuele Viterbo
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IEEE Transactions on NanoBioscience Publication Information IEEE Trans. NanoBiosci. (IF 3.9) Pub Date : 2024-01-03
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IEEE Transactions on NanoBioscience Information for Authors IEEE Trans. NanoBiosci. (IF 3.9) Pub Date : 2024-01-03
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Design and Fabrication of Enzymatic Potentiometric Biosensor Based on Flexible Printed Circuit Board for Glucose Detection. IEEE Trans. NanoBiosci. (IF 3.9) Pub Date : 2023-11-28 Po-Yu Kuo,Chi-Han Liao,Tai-Hui Wang,Ming-Tai Hsu
This study investigated the development and optimization of a flexible printed circuit board-based glucose biosensor with an emphasis on high sensitivity, selectivity, and overall performance. Advances in glucose biosensing have highlighted its importance in medical diagnostics, especially diabetes management. The fabrication process involves depositing a RuO2 sensing film on a flexible printed circuit
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On Secrecy Performance in D-MoSK-based 3-D Diffusive Molecular Communication System. IEEE Trans. NanoBiosci. (IF 3.9) Pub Date : 2023-10-04 Zhen Jia,Lisheng Ma,Shigen Shen,Xiaohong Jiang
This paper studies the secrecy performance in a 3-D diffusive molecular communication system with the general depleted molecule shift keying (D-MoSK) modulation, where a point transmitter Alice transmits through diffusion multiple types of molecules modulation to a legitimate absorbing receiver Bob, suffering the eavesdropping from an absorbing eavesdropper Eve. We first develop a solid theoretical
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Guest Editorial Bioinformatics and Computational Biology Special Section IEEE Trans. NanoBiosci. (IF 3.9) Pub Date : 2023-10-03 Xiaohua Hu
In recent years, we have witnessed many successful applications of bioinformatics and computational biology methods in the field of Bionano to help us understand the biological system in the nanoscale, such as the BioNano nextgeneration mapping system to enhance the performance of physical map construction. Bioinformatics and computational tools and methods are essential to assemble, process, and analyze
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Guest Editorial Biomedical and Health Informatics Special Section IEEE Trans. NanoBiosci. (IF 3.9) Pub Date : 2023-10-03 Xiaohua Hu
Integrating nanotechnology with biomedical and health informatics could advance the understanding of human disease and help medical and healthcare professionals to make better diagnosis decisions and design better treatments. In this Biomedical and Health Informatics Special Section, we have selected six articles to report some of the latest developments in this area.
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DNA sequences under multiple guanine-cytosine (GC) base pairs constraint. IEEE Trans. NanoBiosci. (IF 3.9) Pub Date : 2023-09-18 Xuwei Yang,Changjun Zhou
DNA computing is a new computing method that has high efficiency in solving large-scale nonlinear and Non-deterministic Polynomial complete problems. The design of DNA sequences is an important step in DNA computing, and the quality of the DNA sequences directly affects the accuracy of DNA computing results. Efficiently designing high-quality DNA sequences is currently a significant challenge. In order
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Identification and Measurement of Biomarkers at Single Microorganism Level for In Situ Monitoring Deep Ultraviolet Disinfection Process. IEEE Trans. NanoBiosci. (IF 3.9) Pub Date : 2023-09-07 Yuxuan Xue,Ye Ma,Zhiyong Sun,Xinyu Liu,Mukun Zhang,Jiawei Zhang,Ning Xi
Since the COVID-19 disease has been further aggravated, the prevention of pathogen transmission becomes a vital issue to restrain casualties. Recent research outcomes have shown the possibilities of the viruses existing on inanimate surfaces up to few days, which carry the risk of touch propagation of the disease. Deep ultraviolet germicide irradiation (UVGI) with the wavelength of 255-280nm has been
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PCF Based Four-Channel SPR Biosensor with Wide Sensing Range. IEEE Trans. NanoBiosci. (IF 3.9) Pub Date : 2023-09-04 Md Shahedul Hasan,Md Anas Ebna Kalam,Mohammad Faisal
In this article, we have demonstrated a highly sensitive four-channel photonic crystal fiber (PCF) based surface plasmon resonance (SPR) biosensor which can detect four different analytes simultaneously. To ease practical implementation, four analyte sensing layers and plasmonic materials such as gold (Au) and gold (Au) with Tantalum Pentoxide (Ta2O5) are placed on the exterior of the four arms of
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A novel Algorithm for Solving the Prize Collecting Traveling Salesman Problem based on DNA Computing. IEEE Trans. NanoBiosci. (IF 3.9) Pub Date : 2023-08-22 Zhao-Cai Wang,Kun Liang,Xiao-Guang Bao,Tun-Hua Wu
DNA computing is a new pattern of computing that combines biotechnology and information technology. As a new technology born in less than three decades, it has developed at an extremely rapid rate, which can be attributed to its advantages, including high parallelism, powerful data storage capacity, and low power consumption. Nowadays, DNA computing has become one of the most popular research fields
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Ultracompact Lab-on-a-Chip Device for Surface-Enhanced Coherent Anti-Stokes Raman Scattering. IEEE Trans. NanoBiosci. (IF 3.9) Pub Date : 2023-08-16 Hamed Pezeshki
This paper introduces an ultracompact lab-on-a-chip device with a size of 8 × 0.8 μm2 for surface-enhanced coherent anti-Stokes Raman scattering. This device comprises of a unique hybrid plasmonic-photonic vertical coupler, for light-coupling between the device and a light source, and a heptamer plasmonic nanotweezer for trapping and manipulation of nanoparticles. The coupler with its nanoscale size
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DNA Encoding-Based Nucleotide Pattern and Deep Features for Instance and Class-Based Image Retrieval IEEE Trans. NanoBiosci. (IF 3.9) Pub Date : 2023-08-11 Jitesh Pradhan, Arup Kumar Pal, Sk Hafizul Islam, Chiranjeev Bhaya
Recently, DNA encoding has shown its potential to store the vital information of the image in the form of nucleotides, namely ${A}, {C}, {T}$ , and ${G}$ , with the entire sequence following run-length and GC-constraint. As a result, the encoded DNA planes contain unique nucleotide strings, giving more salient image information using less storage. In this paper, the advantages of DNA encoding have
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Plasmonic Optical Fiber Based Continuous in-Vivo Glucose Monitoring for ICU/CCU Setup IEEE Trans. NanoBiosci. (IF 3.9) Pub Date : 2023-08-07 Souvik Kundu, Shawana Tabassum, Ritwesh A. Kumar, E. Dale Abel, Ratnesh Kumar
This paper reports a sensor architecture for continuous monitoring of biomarkers directly in the blood, especially for ICU/CCU patients requiring critical care and rapid biomarker measurement. The sensor is based on a simple optical fiber that can be inserted through a catheter into the bloodstream, wherein gold nanoparticles are attached at its far distal end as a plasmonic material for highly sensitive
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COTiR: Molecular Communication Model for Synthetic Exosome-Based Tissue Regeneration IEEE Trans. NanoBiosci. (IF 3.9) Pub Date : 2023-08-07 Saswati Pal, Sudip Misra, Ranjan K. Mallik
Mesenchymal stem cell (MSC)-derived exosomes are recognized as an unparalleled therapy for tissue damage rendered by COVID-19 infection and subsequent hyper-inflammatory immune response. However, the natural targeting mechanism of exosomes is challenging to detect the damaged tissue over long diffusion distances efficiently. The coordinated movement of exosomes is desired for successful identification
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Ratio Shift Keying Modulation for Time-Varying Molecular Communication Channels IEEE Trans. NanoBiosci. (IF 3.9) Pub Date : 2023-07-25 M. Okan Araz, Ahmet R. Emirdagi, M. Serkan Kopuzlu, Murat Kuscu
Molecular Communications (MC) is a bio-inspired communication technique that uses molecules to encode and transfer information. Many efforts have been devoted to developing novel modulation techniques for MC based on various distinguishable characteristics of molecules, such as their concentrations or types. In this paper, we investigate a particular modulation scheme called Ratio Shift Keying (RSK)
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Multi-Level Residual Dual Attention Network for Major Cerebral Arteries Segmentation in MRA Toward Diagnosis of Cerebrovascular Disorders IEEE Trans. NanoBiosci. (IF 3.9) Pub Date : 2023-07-24 Subhash Chandra Pal, Dimitrios Toumpanakis, Johan Wikström, Chirag Kamal Ahuja, Robin Strand, Ashis Kumar Dhara
Segmentation of major brain vessels is very important for the diagnosis of cerebrovascular disorders and subsequent surgical planning. Vessel segmentation is an important preprocessing step for a wide range of algorithms for the automatic diagnosis or treatment of several vascular pathologies and as such, it is valuable to have a well-performing vascular segmentation pipeline. In this article, we propose
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A Novel Plasmonic Sensor Based on Dual-Channel D-Shaped Photonic Crystal Fiber for Enhanced Sensitivity in Simultaneous Detection of Different Analytes IEEE Trans. NanoBiosci. (IF 3.9) Pub Date : 2023-07-11 J. Divya, S. Selvendran, A. Sivanantha Raja, Vamsi Borra
A dual-channel D-shaped photonic crystal fiber (PCF) based plasmonic sensor is proposed in this paper for the simultaneous detection of two different analytes using the surface plasmon resonance (SPR) technique. The sensor employs a 50 nm-thick layer of chemically stable gold on both cleaved surfaces of the PCF to induce the SPR effect. This configuration offers superior sensitivity and rapid response
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Green Synthesis of pH-Responsive Metal–Organic Frameworks for Delivery of Diclofenac Sodium IEEE Trans. NanoBiosci. (IF 3.9) Pub Date : 2023-07-10 Hafezeh Nabipour, Sohrab Rohani
The current study developed a drug delivery system through the green chemistry-based synthesis of a biologically friendly metal-organic framework (bio-MOF) called Asp-Cu, which included copper ions and the environmentally friendly molecule L(+)-aspartic acid (Asp). For the first time, diclofenac sodium (DS) was loaded onto the synthesized bio-MOF simultaneously. The system’s efficiency was then improved
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Game-Theoretic Analysis of Fusion Rules Over Molecular Reporting Channels IEEE Trans. NanoBiosci. (IF 3.9) Pub Date : 2023-07-06 Sunil Kumar, Prabhat Kumar Sharma, Manav R. Bhatnagar
This work adopts a game theoretic approach to analyze the behavior of transmitter nanomachines (TNMs) in a diffusive 3-dimensional (3-D) channel. In order to communicate the local observations about the region of interest (RoI) to a common supervisor nanomachine (SNM), TNMs transmit information-carrying molecules to SNM. For the production of information-carrying molecules, all the TNMs share the common
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Molecular Beamforming for Actuation in Molecular Communication Networks IEEE Trans. NanoBiosci. (IF 3.9) Pub Date : 2023-07-04 Joana Angjo, Ali E. Pusane, H. Birkan Yilmaz, Ertugrul Basar, Tuna Tugcu
The actuation accuracy of sensing tasks performed by molecular communication (MC) schemes is a very important metric. Reducing the effect of sensors fallibility can be achieved by improvements and advancements in the sensor and communication networks design. Inspired by the technique of beamforming used extensively in radio frequency communication systems, a novel molecular beamforming design is proposed
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Microfluidic Point-of-Care Diagnostics for Multi-Disease Detection Using Optical Techniques: A Review IEEE Trans. NanoBiosci. (IF 3.9) Pub Date : 2023-07-03 Shaik Ahmadsaidulu, Oindrila Banik, Prasoon Kumar, Santosh Kumar, Earu Banoth
The lifestyle of modern society is a major contributing factor for the majority of patients suffering from more than one disease. To Screen and diagnose each of those diseases, there is a great need for portable, and economical diagnostic tools, which are highly stipulated to yield rapid and accurate results using a small volume of the samples such as blood, saliva, sweat, etc. Point-of-care Testing
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Biosynthesis of Gold Nanoparticles Using Quince Seed Water Extract and Investigation of Their Anticancer Effect Against Cancer Cell Lines IEEE Trans. NanoBiosci. (IF 3.9) Pub Date : 2023-06-28 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
In this study, gold nanoparticles (Au-NPs) were synthesized using HAuCl4 and quince seed mucilage (QSM) extract, which was characterized by conventional methods including Fourier transforms electron microscopy (FTIR), UV-Visible spectroscopy (UV-Vis), Field emission electron microscopy (FESEM), Transmission electron microscopy (TEM), Dynamic light spectroscopy (DLS), and Zeta-potential. The QSM acted
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Optimization of Extracellular Vesicle Release for Targeted Drug Delivery IEEE Trans. NanoBiosci. (IF 3.9) Pub Date : 2023-06-19 Martin Damrath, Mladen Veletić, Hamid Khoshfekr Rudsari, Ilangko Balasingham
Targeted drug delivery is a promising approach for many serious diseases, such as glioblastoma multiforme, one of the most common and devastating brain tumor. In this context, this work addresses the optimization of the controlled release of drugs which are carried by extracellular vesicles. Towards this goal, we derive and numerically verify an analytical solution for the end-to-end system model.
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Review of Physical Layer Security in Molecular Internet of Nano-Things IEEE Trans. NanoBiosci. (IF 3.9) Pub Date : 2023-06-14 Song Qiu, Zhuangkun Wei, Yu Huang, Mahmoud Abbaszadeh, Jerome Charmet, Bin Li, Weisi Guo
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
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Multi-Disease Detection Using a Prism-Based Surface Plasmon Resonance Sensor: A TMM and FEM Approach IEEE Trans. NanoBiosci. (IF 3.9) Pub Date : 2023-06-14 Rabeya Bosrin Rumi, Alok Kumar Paul, Salem A. Alyami, Mohammad Ali Moni
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
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Modeling Extracellular Vesicles-Mediated Interactions of Cells in the Tumor Microenvironment IEEE Trans. NanoBiosci. (IF 3.9) Pub Date : 2023-06-12 Mohammad Zoofaghari, Fabrizio Pappalardo, Martin Damrath, Ilangko Balasingham
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
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Timed Tissue P Systems With Channel States IEEE Trans. NanoBiosci. (IF 3.9) Pub Date : 2023-06-12 Yueguo Luo, Yuzhen Zhao, Yi Liu
Tissue P systems with channel states are a variant of tissue P systems that can be employed as highly parallel computing devices, where the channel states can control the movements of objects. In a sense, the time-free approach can improve the robustness of P systems; hence, in this work, we introduce the time-free property into such P systems and explore their computational performances. Specifically
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Iterative Soft Decoding Algorithm for DNA Storage Using Quality Score and Redecoding IEEE Trans. NanoBiosci. (IF 3.9) Pub Date : 2023-06-09 Jaeho Jeong, Hosung Park, Hee-Youl Kwak, Jong-Seon No, Hahyeon Jeon, Jeong Wook Lee, Jae-Won Kim
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
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PanDa Game: Optimized Privacy-Preserving Publishing of Individual-Level Pandemic Data Based on a Game Theoretic Model IEEE Trans. NanoBiosci. (IF 3.9) Pub Date : 2023-06-08 Abinitha Gourabathina, Zhiyu Wan, J. Thomas Brown, Chao Yan, Bradley A. Malin
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
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Developing a New Phylogeny-Driven Random Forest Model for Functional Metagenomics IEEE Trans. NanoBiosci. (IF 3.9) Pub Date : 2023-06-06 Jyotsna Talreja Wassan, Haiying Wang, Huiru Zheng
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
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Automatic Evaluating of Multi-Phase Cranial CTA Collateral Circulation Based on Feature Fusion Attention Network Model IEEE Trans. NanoBiosci. (IF 3.9) Pub Date : 2023-06-05 Duo Tan, Jiayang Liu, Shanxiong Chen, Rui Yao, Yongmei Li, Shiyu Zhu, Linfeng Li
Stroke is one of the main causes of disability and death, and it can be divided into hemorrhagic stroke and ischemic stroke. Ischemic stroke is more common, and about 8 out of 10 stroke patients suffer from ischemic stroke. In clinical practice, doctors diagnose stroke by using computed tomography angiography (CTA) image to accurately evaluate the collateral circulation in stroke patients. This imaging
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Design and Analysis of Multi-Analyte Detection Based Biosensor in the Visible to Near-Infrared (VNIR) Region IEEE Trans. NanoBiosci. (IF 3.9) Pub Date : 2023-05-31 Kawsar Ahmed, Ruhul Amin, Francis M. Bui, Li Chen, Noor Mohammadd, Fahad Ahmed Al-Zahrani, Santosh Kumar
This manuscript introduces a highly sensitive dual-core photonic crystal fiber (PCF) based multi-analyte surface plasmon resonance (SPR) sensor, possessing the ability to detect multiple analytes at once. A chemically stable thin plasmonic substance of gold (Au) layer, holding a thickness of 30 nm, is employed to the outer portion of the stated design that manifests a negative real permittivity. Moreover
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Deep Learning Based Parameterization of Diffeomorphic Image Registration for Cardiac Image Segmentation IEEE Trans. NanoBiosci. (IF 3.9) Pub Date : 2023-05-23 Ameneh Sheikhjafari, Deepa Krishnaswamy, Michelle Noga, Nilanjan Ray, Kumaradevan Punithakumar
Cardiac segmentation from magnetic resonance imaging (MRI) is one of the essential tasks in analyzing the anatomy and function of the heart for the assessment and diagnosis of cardiac diseases. However, cardiac MRI generates hundreds of images per scan, and manual annotation of them is challenging and time-consuming, and therefore processing these images automatically is of interest. This study proposes
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CellEnBoost: A Boosting-Based Ligand-Receptor Interaction Identification Model for Cell-to-Cell Communication Inference IEEE Trans. NanoBiosci. (IF 3.9) Pub Date : 2023-05-22 Lihong Peng, Ruya Yuan, Chendi Han, Guosheng Han, Jingwei Tan, Zhao Wang, Min Chen, Xing Chen
Cell-to-cell communication (CCC) plays important roles in multicellular organisms. The identification of communication between cancer cells themselves and one between cancer cells and normal cells in tumor microenvironment helps understand cancer genesis, development and metastasis. CCC is usually mediated by Ligand-Receptor Interactions (LRIs). In this manuscript, we developed a Boosting-based LRI
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Estimating Time Window to Administer Anti-Cytokine Therapeutic Drugs to COVID-19 Patients IEEE Trans. NanoBiosci. (IF 3.9) Pub Date : 2023-05-22 Saswati Pal, Sudip Misra, Nabiul Islam
The severe COVID-19 infection often leads to “Cytokine Release Syndrome (CRS)”, which is a serious adverse medical condition causing multiple organ failures. Anti-cytokine therapy has shown promising results for the treatment of the CRS. As part of the anti-cytokine therapy, the immuno-suppressants or anti-inflammatory drugs are infused to block the release of cytokine molecules. However, determining
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Recent Advancement in Fiber-Optic-Based SPR Biosensor for Food Adulteration Detection—A Review IEEE Trans. NanoBiosci. (IF 3.9) Pub Date : 2023-05-22 Md Tauseef Iqbal Ansari, Sanjeev Kumar Raghuwanshi, Santosh Kumar
Food safety is a scientific discipline that requires sophisticated handling, production, and storage. Food is common for microbial development; it acts as a source for growth and contamination. The traditional procedures for food analysis are time-consuming and labor-intensive, but optical sensors overcome these constraints. Biosensors have replaced rigorous lab procedures like chromatography and immunoassays
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3D ARCNN: An Asymmetric Residual CNN for False Positive Reduction in Pulmonary Nodule IEEE Trans. NanoBiosci. (IF 3.9) Pub Date : 2023-05-22 Bowen Liu, Hong Song, Qiang Li, Yucong Lin, Xutao Weng, Zhaoli Su, Jian Yang
Lung cancer is with the highest morbidity and mortality, and detecting cancerous lesions early is essential for reducing mortality rates. Deep learning-based lung nodule detection techniques have shown better scalability than traditional methods. However, pulmonary nodule test results often include a number of false positive outcomes. In this paper, we present a novel asymmetric residual network called
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Protein Function Prediction With Functional and Topological Knowledge of Gene Ontology IEEE Trans. NanoBiosci. (IF 3.9) Pub Date : 2023-05-19 Yingwen Zhao, Zhihao Yang, Yongkai Hong, Yumeng Yang, Lei Wang, Yin Zhang, Hongfei Lin, Jian Wang
Gene Ontology (GO) is a widely used bioinformatics resource for describing biological processes, molecular functions, and cellular components of proteins. It covers more than 5000 terms hierarchically organized into a directed acyclic graph and known functional annotations. Automatically annotating protein functions by using GO-based computational models has been an area of active research for a long
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A 3-D Chromosome Structure Reconstruction Method With High Resolution Hi-C Data Using Nonlinear Dimensionality Reduction and Divide-and-Conquer Strategy IEEE Trans. NanoBiosci. (IF 3.9) Pub Date : 2023-05-18 Haiyan Gong, Fuqiang Ma, Xiaotong Zhang, Yi Yang, Minghong Li, Zhengyuan Chen, Sichen Zhang, Yang Chen
Chromosomes are fundamental components of genetic material, and their structural characteristics play an essential role in the regulation of gene expression. The advent of high-resolution Hi-C data has enabled scientists to explore the three-dimensional structure of chromosomes. However, most of the currently available methods for reconstructing chromosome structures are unable to achieve high resolutions
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A Graph Convolution Network-Based Model for Prioritizing Personalized Cancer Driver Genes of Individual Patients IEEE Trans. NanoBiosci. (IF 3.9) Pub Date : 2023-05-17 Wei Peng, Piaofang Yu, Wei Dai, Xiaodong Fu, Li Liu, Yi Pan
Cancer driver genes are mutated genes that play a key role in the growth of cancer cells. Accurately identifying the cancer driver genes helps us understand cancer’s pathogenesis and develop effective treatment strategies. However, cancers are highly heterogeneous diseases; patients with the same cancer type may have different genomic characteristics and clinical symptoms. Hence, it is urgent to devise
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Local Feature Matters: Cascade Multi-Scale MLP for Edge Segmentation of Medical Images IEEE Trans. NanoBiosci. (IF 3.9) Pub Date : 2023-05-15 Jinkai Lv, Yuyong Hu, Quanshui Fu, Yuqiang Hu, Lin Lv, Guoqing Yang, Jinpeng Li, Yi Zhao
Convolution-based methods are increasingly being used in medical image segmentation tasks and have shown good performance, but there are always problems in segmenting edge parts. These methods all have the following challenges: 1) Previous methods do not highlight the relationship between foreground and background in segmented regions, which is helpful for complex segmentation edges, 2) inductive bias
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Predicting Plant miRNA-lncRNA Interactions via a Deep Learning Method IEEE Trans. NanoBiosci. (IF 3.9) Pub Date : 2023-05-11 Xiwei Tang, Lu Ji
In recent years, due to the contribution to elucidating the functional mechanisms of miRNAs and lncRNAs, the research on miRNA-lncRNA interaction prediction has increased exponentially. However, the prediction research is challenging in bioinformatics domain. It is expensive and time-consuming to verify the interactions by biological experiments. The existing prediction models have some limitations
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Extraction, Labeling, Clustering, and Semantic Mapping of Segments From Clinical Notes IEEE Trans. NanoBiosci. (IF 3.9) Pub Date : 2023-05-11 Petr Zelina, Jana Halámková, Vít Nováček
This work is motivated by the scarcity of tools for accurate, unsupervised information extraction from unstructured clinical notes in computationally underrepresented languages, such as Czech. We introduce a stepping stone to a broad array of downstream tasks such as summarisation or integration of individual patient records, extraction of structured information for national cancer registry reporting
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A Biosensing Platform Based on Metamaterials BioNEMS for Lab-on-Chip Systems IEEE Trans. NanoBiosci. (IF 3.9) Pub Date : 2023-05-10 Fahimeh Marvi, Kian Jafari
An optical nanoelectromechanical platform relied on a SRR metamaterial system is presented in this paper as a label-free biosensor. This structure includes a flexible BioNEMS (Bio-Nano-Electro-Mechanical Systems) transducer and a proposed SRR metamaterials for detection of biological changes. Metamaterial cells consist of two parts which are coupled with an air gap distance. A functionalized BioNEMS
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Individualized Seizure Cluster Prediction Using Machine Learning and Chronic Ambulatory Intracranial EEG IEEE Trans. NanoBiosci. (IF 3.9) Pub Date : 2023-05-10 Krishnakant V. Saboo, Yurui Cao, Vaclav Kremen, Vladimir Sladky, Nicholas M. Gregg, Paul M. Arnold, Philippa J. Karoly, Dean R. Freestone, Mark J. Cook, Gregory A. Worrell, Ravishankar K. Iyer
Epilepsy patients often experience acute repetitive seizures, known as seizure clusters, which can progress to prolonged seizures or status epilepticus if left untreated. Predicting the onset of seizure clusters is crucial to enable patients to receive preventative treatments. Additionally, studying the patterns of seizure clusters can help predict the seizure type (isolated or cluster) after observing
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Prediction of Cancer Metastasis Using Correlations Between miRNAs and Competing Endogenous RNAs IEEE Trans. NanoBiosci. (IF 3.9) Pub Date : 2023-05-10 Myeonghun Cho, Seokwoo Lee, Byungkyu Park, Kyungsook Han
Cancer metastasis is a complex process which involves the spread of tumor cells from the primary site to other parts of the body. Metastasis is the major cause of cancer mortality, accounting for about 90% of cancer deaths. Metastasis is primarily diagnosed by clinical examinations and imaging techniques, but such a diagnosis is made after metastasis has occurred. Prediction or early detection of metastasis