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Bioengineering, Volume 12, Issue 1 (January 2025) – 3 articles

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17 pages, 3137 KiB  
Article
Microdifferential Pressure Measurement Device for Cellular Microenvironments
by Mami Akaike, Jun Hatakeyama, Yoichi Saito, Yoshitaka Nakanishi, Kenji Shimamura and Yuta Nakashima
Bioengineering 2025, 12(1), 3; https://doi.org/10.3390/bioengineering12010003 (registering DOI) - 24 Dec 2024
Abstract
Mechanical forces influence cellular proliferation, differentiation, tissue morphogenesis, and functional expression within the body. To comprehend the impact of these forces on living organisms, their quantification is essential. This study introduces a novel microdifferential pressure measurement device tailored for cellular-scale pressure assessments. The [...] Read more.
Mechanical forces influence cellular proliferation, differentiation, tissue morphogenesis, and functional expression within the body. To comprehend the impact of these forces on living organisms, their quantification is essential. This study introduces a novel microdifferential pressure measurement device tailored for cellular-scale pressure assessments. The device comprises a glass substrate and a microchannel constructed of polydimethylsiloxane, polytetrafluoroethylene tubes, a glass capillary, and a microsyringe pump. This device obviates the need for electrical measurements, relying solely on the displacement of ultrapure water within the microchannel to assess the micropressure in embryos. First, the device was subjected to arbitrary pressures, and the relationship between the pressure and the displacement of ultrapure water in the microchannel was determined. Calibration results showed that the displacement dx [μm] could be calculated from the pressure P [Pa] using the equation dx = 0.36 P. The coefficient of determination was shown to be 0.87, indicating a linear response. When utilized to measure brain ventricular pressure in mouse embryos, the fabricated device yielded an average pressure reading of 1313 ± 640 Pa. This device can facilitate the measurement of pressure within microcavities in living tissues and other areas requiring precise and localized pressure evaluations. Full article
(This article belongs to the Special Issue Micro- and Nano-Technologies for Cell Analysis)
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17 pages, 3176 KiB  
Article
Taba Binary, Multinomial, and Ordinal Regression Models: New Machine Learning Methods for Classification
by Mohammad Tabatabai, Derek Wilus, Chau-Kuang Chen, Karan P. Singh and Tim L. Wallace
Bioengineering 2025, 12(1), 2; https://doi.org/10.3390/bioengineering12010002 (registering DOI) - 24 Dec 2024
Abstract
The classification methods of machine learning have been widely used in almost every discipline. A new classification method, called Taba regression, was introduced for analyzing binary, multinomial, and ordinal outcomes. To evaluate the performance of Taba regression, liver cirrhosis data obtained from a [...] Read more.
The classification methods of machine learning have been widely used in almost every discipline. A new classification method, called Taba regression, was introduced for analyzing binary, multinomial, and ordinal outcomes. To evaluate the performance of Taba regression, liver cirrhosis data obtained from a Mayo Clinic study were analyzed. The results were then compared with an artificial neural network (ANN), random forest (RF), logistic regression (LR), and probit analysis (PA). The results using cirrhosis data revealed that the Taba regression model could be a competitor to other classification models based on the true positive rate, F-score, accuracy, and area under the receiver operating characteristic curve (AUC). Taba regression can be used by researchers and practitioners as an alternative method of classification in machine learning. In conclusion, the Taba regression provided a reliable result with respect to accuracy, recall, F-score, and AUC when applied to the cirrhosis data. Full article
(This article belongs to the Special Issue Advances in Biomedical Data Science: Methods and Applications)
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10 pages, 995 KiB  
Article
The Potential Clinical Utility of the Customized Large Language Model in Gastroenterology: A Pilot Study
by Eun Jeong Gong, Chang Seok Bang, Jae Jun Lee, Jonghyung Park, Eunsil Kim, Subeen Kim, Minjae Kimm and Seoung-Ho Choi
Bioengineering 2025, 12(1), 1; https://doi.org/10.3390/bioengineering12010001 - 24 Dec 2024
Abstract
Background: The large language model (LLM) has the potential to be applied to clinical practice. However, there has been scarce study on this in the field of gastroenterology. Aim: This study explores the potential clinical utility of two LLMs in the field of [...] Read more.
Background: The large language model (LLM) has the potential to be applied to clinical practice. However, there has been scarce study on this in the field of gastroenterology. Aim: This study explores the potential clinical utility of two LLMs in the field of gastroenterology: a customized GPT model and a conventional GPT-4o, an advanced LLM capable of retrieval-augmented generation (RAG). Method: We established a customized GPT with the BM25 algorithm using Open AI’s GPT-4o model, which allows it to produce responses in the context of specific documents including textbooks of internal medicine (in English) and gastroenterology (in Korean). Also, we prepared a conventional ChatGPT 4o (accessed on 16 October 2024) access. The benchmark (written in Korean) consisted of 15 clinical questions developed by four clinical experts, representing typical questions for medical students. The two LLMs, a gastroenterology fellow, and an expert gastroenterologist were tested to assess their performance. Results: While the customized LLM correctly answered 8 out of 15 questions, the fellow answered 10 correctly. When the standardized Korean medical terms were replaced with English terminology, the LLM’s performance improved, answering two additional knowledge-based questions correctly, matching the fellow’s score. However, judgment-based questions remained a challenge for the model. Even with the implementation of ‘Chain of Thought’ prompt engineering, the customized GPT did not achieve improved reasoning. Conventional GPT-4o achieved the highest score among the AI models (14/15). Although both models performed slightly below the expert gastroenterologist’s level (15/15), they show promising potential for clinical applications (scores comparable with or higher than that of the gastroenterology fellow). Conclusions: LLMs could be utilized to assist with specialized tasks such as patient counseling. However, RAG capabilities by enabling real-time retrieval of external data not included in the training dataset, appear essential for managing complex, specialized content, and clinician oversight will remain crucial to ensure safe and effective use in clinical practice. Full article
(This article belongs to the Special Issue New Technique for Endoscopic Diagnosis in in Biomedical Engineering)
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