Review
Biochemical Research Methods
Elizabeth C. Wilkirson, Kavya L. Singampalli, Jiran Li, Desh Deepak Dixit, Xue Jiang, Diego H. Gonzalez, Peter B. Lillehoj
Summary: The detection and quantification of biomarkers in blood is crucial for the early identification, diagnosis, and treatment of various diseases. Affinity-based electrochemical sensors, which offer high sensitivity, specificity, fast detection times, ease of use, and portability, are a promising approach for detecting molecular biomarkers. However, the complexity of whole blood poses challenges, requiring sample purification and sophisticated equipment. This article provides an overview of strategies employed to improve the performance of affinity-based electrochemical sensors for biomolecular detection in whole blood.
ANALYTICAL AND BIOANALYTICAL CHEMISTRY
(2023)
Article
Materials Science, Multidisciplinary
Badrinath Jagannath, Madhavi Pali, Kai-Chun Lin, Devangsingh Sankhala, Pejman Naraghi, Sriram Muthukumar, Shalini Prasad
Summary: This work demonstrates the discovery, quantification, and validation of infection prognostic markers, IP-10 and TRAIL, in human sweat using wearable technology. It also shows the potential of a wearable SWEATSENSER device for continuous monitoring of infection markers.
ADVANCED MATERIALS TECHNOLOGIES
(2022)
Article
Chemistry, Analytical
Samantha J. Courtney, Zachary R. Stromberg, Adan Gutierrez, Daniel Jacobsen, Loreen R. Stromberg, Kiersten D. Lenz, James Theiler, Brian T. Foley, Jason Gans, Karina Yusim, Jessica Z. Kubicek-Sutherland
Summary: Detection methods that do not require nucleic acid amplification are advantageous for rapid viral diagnostics, particularly for influenza detection. Influenza viruses are prone to genetic mutations, making these detection platforms essential for diagnosis.
Article
Chemistry, Analytical
Jie Xu, Zhujun Liu, Zhen Zhang, Tongbo Wu
Summary: The trans-cleavage activity of Cas12a is affected by the length of the fluorescent probe and the reaction buffer. The optimal conditions for Cas12a are a probe length of 15 nucleotides and NEBuffer 4 as the buffer, resulting in a 50-fold improvement in activity and a significant decrease in the detection limit for DNA targets. This method provides a powerful tool for Cas12a trans-cleavage activity applications.
ANALYTICAL CHEMISTRY
(2023)
Article
Medicine, General & Internal
Tristan T. Timbrook, Cherilyn D. Garner, Kyle D. Hueth, Gerald A. Capraro, Louise Zimmer, Hari P. Dwivedi
Summary: Procalcitonin (PCT) has shown good predictive value in distinguishing bacteremic hospitalizations. Combined with clinical characteristics, it can help identify high-risk bacteremia patients and guide further diagnostic testing.
Review
Chemistry, Analytical
Alejandra Alba-Patino, Andreu Vaquer, Enrique Baron, Steven M. Russell, Marcio Borges, Roberto de la Rica
Summary: This article reviews recent advances in diagnostic tools for managing sepsis based on micro- and nanostructured materials. It discusses popular biomarkers and detection methods for sepsis diagnosis, and highlights the role of micro- and nanostructured materials in developing biosensors to meet the specific needs of different points of sepsis care. The article also summarizes the most utilized materials and points out future challenges for development.
Review
Chemistry, Analytical
Joydip Sengupta, Chaudhery Mustansar Hussain
Summary: Early and accurate diagnosis of cancer is essential for successful treatment and improved patient outcomes. This review paper explores the potential integration of Green Graphene (GG) with biosensors to achieve a sustainable platform for early cancer diagnosis. GG, derived in an environmentally friendly manner, possesses unique properties that make it an appealing candidate for cancer diagnostics.
TRAC-TRENDS IN ANALYTICAL CHEMISTRY
(2023)
Review
Pharmacology & Pharmacy
Alice Gualerzi, Silvia Picciolini, Cristiano Carlomagno, Francesca Roda, Marzia Bedoni
Summary: Extracellular Vesicles (EVs) are versatile carriers for biomarkers associated with multiple human disorders, and the application of biophotonics has led to the development of innovative platforms with excellent sensitivity for their diagnostic detection. These bio-photonic approaches have demonstrated great potential for clinical translation by discriminating between nanovesicles and contaminants, achieving higher resolution than traditional procedures, and showing moderate to excellent diagnostic accuracy in clinical samples.
ADVANCED DRUG DELIVERY REVIEWS
(2021)
Article
Microbiology
Semjon Grinberg, Susanne Schubert, Kristina Hochauf-Stange, Alexander H. Dalpke, Marco Narvaez Encalada
Summary: In this study, a novel device for rapid identification and antimicrobial susceptibility testing from positive blood cultures was evaluated. The results showed that the device provided reliable and concordant results compared to the standard workflow, with significant time savings.
JOURNAL OF CLINICAL MICROBIOLOGY
(2022)
Review
Chemistry, Analytical
Noah Emerson Brosseau, Isabelle Vallee, Anne Mayer-Scholl, Momar Ndao, Gregory Karadjian
Summary: Centuries of scientific breakthroughs have brought us closer to understanding and managing the spread of parasitic diseases. Aptamers have emerged as attractive alternatives to antibodies as therapeutic and diagnostic agents due to their superior stability, reusability, and modifiability. This review provides a summary of parasite-specific aptamer-based biosensors, their mechanisms, and performance.
Article
Chemistry, Analytical
C. L. Nguyen, A. Adekunle, A. Gomez Vidales, A. Moreau, B. Tartakovsky, L. Woodward
Summary: This study compares two equivalent electrical circuit (EEC) models for modeling and on-line monitoring of microbial fuel cells (MFCs). The study found that the resistor - constant phase element (CPE) model performed better in early detection of changes in the MFC internal parameters.
JOURNAL OF ELECTROANALYTICAL CHEMISTRY
(2022)
Article
Chemistry, Analytical
Yuri D. Ivanov, Kristina A. Malsagova, Kristina V. Goldaeva, Tatyana O. Pleshakova, Andrey F. Kozlov, Rafael A. Galiullin, Ivan D. Shumov, Vladimir P. Popov, Irina K. Abramova, Vadim S. Ziborov, Oleg F. Petrov, Alexander Yu. Dolgoborodov, Alexander I. Archakov
Summary: This study aimed to test the performance of a nanoribbon biosensor in detecting the core antigen of hepatitis C virus, and compared two different types of molecular probes. The results showed that the nanoribbon biosensor could detect an antigen concentration of approximately 10(-15) M in a buffer with pH 5.1, regardless of the type of probe used.
Review
Medicine, Research & Experimental
Deepa Ponnaiyan, C. M. Anitha, P. S. G. Prakash, Sangeetha Subramanian, Roshan R. R. Rughwani, Gayathri Kumar, Sowmya Reddy Nandipati
Summary: Mucormycosis, a life-threatening condition, is a post-COVID-19 side effect that requires early identification and timely treatment. Conventional diagnostic techniques have limitations in early detection, necessitating the use of advanced tools such as nucleic acid diagnostics and PCR. These tools aid in the prevention of adverse outcomes by identifying invasive fungal infections at an early stage.
EXPERIMENTAL AND THERAPEUTIC MEDICINE
(2023)
Article
Nanoscience & Nanotechnology
Robert G. Hjort, Cicero C. Pola, Raquel R. A. Soares, Jemima Opare-Addo, Emily A. Smith, Jonathan C. Claussen, Carmen L. Gomes
Summary: Saliva-based sensors are crucial in medical diagnostics and sports medicine for monitoring health and performance. Researchers have developed amperometric lactate and coulometric potassium test strip sensors using laser-induced graphene, enabling low-cost and frequent monitoring.
ACS APPLIED NANO MATERIALS
(2023)
Article
Biochemical Research Methods
Yihao Zhang, Yu Wang, Luze Xu, Chunbo Lou, Qi Ouyang, Long Qian
Summary: A novel in vitro DNA detection system, named Paired dCas9 (PC) reporter, has been developed for specific DNA detection. The system utilizes a pair of dCas9 proteins linked to split halves of luciferase, enabling rapid prototyping of pathogen DNA detection kits.
Article
Chemistry, Physical
Pengfei Zhang, Aniruddha M. Kaushik, Kuangwen Hsieh, Sixuan Li, Shawna Lewis, Kathleen E. Mach, Joseph C. Liao, Karen C. Carroll, Tza-Huei Wang
Summary: The development of a new cascaded droplet microfluidic platform has addressed the scalability constraint in rapid single-cell AST technologies, demonstrating the potential for generating multiple groups of droplets with custom antibiotic conditions within a single device. This platform has shown promising results in producing clinically useful antibiograms with minimum inhibitory concentrations in approximately 90 minutes for the first antibiotic and 2 minutes for each subsequent antibiotic condition. The platform also demonstrated potential clinical utility in testing clinical isolates and urine specimens against commonly used antibiotics, achieving high categorical agreements with laboratory-based results in a significantly shorter timeframe.
Article
Biology
Okyaz Eminaga, Mahmoud Abbas, Jeanne Shen, Mark Laurie, James D. Brooks, Joseph C. Liao, Daniel L. Rubin
Summary: This study proposes a new scalable model family called PlexusNet, which regulates its architecture by network's depth, width, and branch. It also includes a new learnable data normalization algorithm. The designed PlexusNet achieves comparable performance to SOTA models ResNet-18 and EfficientNet B0/1 in five clinical classification problems, but with lower parameter capacity and representative feature maps.
COMPUTERS IN BIOLOGY AND MEDICINE
(2023)
Article
Cell Biology
T. Jessie Ge, Vasiliki Nataly Rahimzadeh, Kevin Mintz, Walter G. Park, Nicole Martinez-Martin, Joseph C. Liao, Seung-min Park
SCIENCE TRANSLATIONAL MEDICINE
(2023)
Article
Oncology
Muhannad Alsyouf, Seyedeh-Sanam Ladi-Seyedian, Badrinath Konety, Kamal Pohar, Jeffrey M. Holzbeierlein, Max Kates, Brian Willard, Jennifer M. Taylor, Joseph C. Liao, Hristos Z. Kaimakliotis, Sima P. Porten, Gary D. Steinberg, Mark D. Tyson, Yair Lotan, Siamak Daneshmand
Summary: The study aimed to evaluate the necessity of restaging transurethral resection of bladder tumor (TURBT) in high-risk nonmuscle invasive bladder cancer (NMIBC) if the initial TURBT was performed using blue light (BL) technology. Through analysis of patient data from the Cysview registry, it was found that restaging TURBT is still necessary even if initial TURBT was performed using BL, as BL did not reduce rates of residual disease or risk of upstaging in Ta or T1 disease.
UROLOGIC ONCOLOGY-SEMINARS AND ORIGINAL INVESTIGATIONS
(2023)
Article
Multidisciplinary Sciences
T. Jessie Ge, Daniel Massana Roquero, Grace H. Holton, Kathleen E. Mach, Kris Prado, Hubert Lau, Kristin Jensen, Timothy C. Chang, Simon Conti, Kunj Sheth, Shan X. Wang, Joseph C. Liao
Summary: The researchers demonstrate a magnetic hydrogel that selectively coats kidney stone fragments for easy retrieval. The hydrogel shows good biocompatibility and antimicrobial activity, leading to improved stone clearance rates and patient outcomes.
NATURE COMMUNICATIONS
(2023)
Article
Biochemical Research Methods
Joao Paulo Pera Mendes, Ninghao Zhu, Pak Kin Wong
Summary: This study utilizes a combined computational-experimental approach to design and optimize a sticky-end probe biosensor for the detection of transcription factor-DNA binding activity.
Article
Engineering, Biomedical
Xiao Jia, Eugene Shkolyar, Mark A. Laurie, Okyaz Eminaga, Joseph C. Liao, Lei Xing
Summary: This study developed a deep learning algorithm for accurate detection of bladder tumors in white-light cystoscopy. The algorithm, CystoNet-T, uses a transformer-augmented pyramidal CNN architecture to improve tumor detection performance. The algorithm achieved high F1 and AP scores on a test set of patient data.
PHYSICS IN MEDICINE AND BIOLOGY
(2023)
Article
Multidisciplinary Sciences
Ninghao Zhu, Mona Ahmed, Yanlin Li, Joseph C. Liao, Pak Kin Wong
Summary: Cancer cells collectively invade using a leader-follower organization, and the regulation of leader cells is poorly understood. In this study, a dual double-stranded LNA nanobiosensor was used to track the dynamics of lncRNA in live single cells during collective cancer invasion. The results show that the lncRNA MALAT1 is dynamically regulated in the invading fronts of cancer cells. Transient knockdown of MALAT1 prevents the formation of leader cells and abolishes cancer cell invasion.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2023)
Editorial Material
Medicine, General & Internal
Eugene Shkolyar, Carla Pugh, Joseph C. Liao
Proceedings Paper
Optics
Xiao Jia, Eugene Shkolyar, Okyaz Eminaga, Mark A. Laurie, Zixia Zhou, Timothy Lee, Md Tauhidul Islam, Max Q. -H. Meng, Joseph C. Liao, Lei Xing
Summary: In this study, a deep-learning algorithm called CystoNet-F was developed to enhance the detection of flat lesions in white-light cystoscopy. By incorporating domain translation, transfer learning, and region of interest detection, the algorithm improves the ability to detect lesions in standard white-light cystoscopy.
ADVANCED PHOTONICS IN UROLOGY 2023
(2023)
Proceedings Paper
Optics
Mark Laurie, Okyaz Eminaga, Eugene Shkolyar, Xiao Jia, Timothy Lee, Jin Long, Md Tauhidul Islam, Hubert Lau, Lei Xing, Joseph C. Liao
Summary: In this study, four advanced sequential models (SlowFast, Multiscale Vision Transformers, X3D, and CNN-LSTM) were used to train and classify bladder tumors. The best performing model was X3D with a sequence length of 8, achieving 100% sensitivity, 94.7% sensitivity, and 80.0% specificity. Sequential modeling has the potential to accurately classify a wide variety of bladder tumors in a real-time setting.
ADVANCED PHOTONICS IN UROLOGY 2023
(2023)
Article
Multidisciplinary Sciences
Hui Li, Kuangwen Hsieh, Pak Kin Wong, Kathleen E. Mach, Joseph C. Liao, Tza-Huei Wang
Summary: Single-cell pathogen diagnostic tools are increasingly used for identifying and monitoring bacterial infections and antimicrobial resistance. This Primer discusses the assessment, design, and implementation of single-cell pathogen diagnostics. The tools provide unprecedented quantitative precision and rapid turnaround times, which are crucial for precise and personalized bacterial infection treatments.
NATURE REVIEWS METHODS PRIMERS
(2023)
Proceedings Paper
Cell & Tissue Engineering
Haoyang Chen, Ninghao Zhu, Ryan Biskowitz, Jinyun Liu, Cheri X. Deng, Pak Kin Wong, Sri-Rajasekhar Kothapalli
Summary: We developed a novel transparent ultrasound transducer (TUT) platform for low intensity pulsed ultrasound (LIPUS) stimulation of cells and simultaneous imaging of live cell fluorescent calcium dynamics. The TUT platform eliminates the need for additional acoustic coupling and reduces contamination risk. The high light transmission and compact size of TUTs allow easy integration with state-of-the-art microscopy for high-resolution imaging of cells.
IMAGING, MANIPULATION, AND ANALYSIS OF BIOMOLECULES, CELLS, AND TISSUES XX
(2022)
