Alessandra Introvaia, Sara Muccio, Andrea Bezze, Clara Mattu, Gabriella Balestra
Image segmentation is an important topic in medical image processing. Multicellular tumour spheroids (MTS) are currently one of the most widely employed in vitro model for pre-clinical drug screening in cancer research. Assessing their growing requires the segmentation of images acquired at several time points. This paper presents the preliminary results of an approach for the automatic segmentation of multicellular tumour spheroids. The obtained segmentation accuracy is reasonable demonstrating that the approach proved adequate.
{"title":"Automatic Segmentation of Multicellular Tumour Spheroids Images During Growing.","authors":"Alessandra Introvaia, Sara Muccio, Andrea Bezze, Clara Mattu, Gabriella Balestra","doi":"10.3233/SHTI241098","DOIUrl":"https://doi.org/10.3233/SHTI241098","url":null,"abstract":"<p><p>Image segmentation is an important topic in medical image processing. Multicellular tumour spheroids (MTS) are currently one of the most widely employed in vitro model for pre-clinical drug screening in cancer research. Assessing their growing requires the segmentation of images acquired at several time points. This paper presents the preliminary results of an approach for the automatic segmentation of multicellular tumour spheroids. The obtained segmentation accuracy is reasonable demonstrating that the approach proved adequate.</p>","PeriodicalId":94357,"journal":{"name":"Studies in health technology and informatics","volume":"321 ","pages":"230-234"},"PeriodicalIF":0.0,"publicationDate":"2024-11-22","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142690248","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Elena Usova, Alexey Yakovlev, Georgy Kopanitsa, Oleg Metsker, Madina Alieva, Tatiana Makarova, Lev Malishevskii, Ekaterina Murashko, Elizaveta Kessenikh, Sergey Trusov, Asiiat Alieva, Alexandra Konradi
A dynamic study of ceramide concentrations and their association with recurrent event risk could enhance our understanding of cardiovascular complications. To assess the prognostic value of ceramide concentrations (Cer(d18:1/16:0), Cer(d18:1/18:0), Cer(d18:1/24:1), Cer(d18:1/24:0)) and their dynamics in combination with standard clinical and laboratory parameters and therapeutic interventions in ACS patients. Among 110 ACS patients, triple blood sampling was performed for targeted lipidomic analysis using high-performance liquid chromatography-tandem mass spectrometry. All ceramide concentrations peaked at admission and decreased by the 3rd day of hospitalization and at the 3-month follow-up. The difference between Cer(d18:1/18:0) concentration 3 months after hospital discharge and its baseline value on admission was strongly associated with recurrent events, independent of prior statin treatment. The association of the Cer(d18:1/18:0) change from 3rd day of hospitalization and its baseline concentration on admission with prognosis varied depending on the glycemic profile.
{"title":"Prognostic Value of Ceramide Dynamics in Patients with Acute Coronary Syndrome.","authors":"Elena Usova, Alexey Yakovlev, Georgy Kopanitsa, Oleg Metsker, Madina Alieva, Tatiana Makarova, Lev Malishevskii, Ekaterina Murashko, Elizaveta Kessenikh, Sergey Trusov, Asiiat Alieva, Alexandra Konradi","doi":"10.3233/SHTI241087","DOIUrl":"https://doi.org/10.3233/SHTI241087","url":null,"abstract":"<p><p>A dynamic study of ceramide concentrations and their association with recurrent event risk could enhance our understanding of cardiovascular complications. To assess the prognostic value of ceramide concentrations (Cer(d18:1/16:0), Cer(d18:1/18:0), Cer(d18:1/24:1), Cer(d18:1/24:0)) and their dynamics in combination with standard clinical and laboratory parameters and therapeutic interventions in ACS patients. Among 110 ACS patients, triple blood sampling was performed for targeted lipidomic analysis using high-performance liquid chromatography-tandem mass spectrometry. All ceramide concentrations peaked at admission and decreased by the 3rd day of hospitalization and at the 3-month follow-up. The difference between Cer(d18:1/18:0) concentration 3 months after hospital discharge and its baseline value on admission was strongly associated with recurrent events, independent of prior statin treatment. The association of the Cer(d18:1/18:0) change from 3rd day of hospitalization and its baseline concentration on admission with prognosis varied depending on the glycemic profile.</p>","PeriodicalId":94357,"journal":{"name":"Studies in health technology and informatics","volume":"321 ","pages":"175-179"},"PeriodicalIF":0.0,"publicationDate":"2024-11-22","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142690311","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Konrad Höffner, Hannes Raphael Brunsch, Franziska Jahn, Alfred Winter
Due to a lack of systematisation and unbiased information, finding the optimal combination of software products for health information systems is a challenging endeavour. We present a novel approach to visually explore the domain of application systems and software products for health care along the paths of the Health IT ontology (HITO). We present an algorithm and implementation in a web application that is freely available at the HITO website and licensed under the open source MIT licence. In comparison to other approaches of path-based exploration of knowledge graphs, the novelty of our approach is the use of path finding on the ontology level and combining this both with the instances of the classes along the chosen path as well as search filters to limit the search space. Our approach can be adapted to other domains where users with complex information needs interact with ontologies and knowledge graphs and can be supported by generative artificial intelligence in the future.
由于缺乏系统化和无偏见的信息,寻找医疗信息系统软件产品的最佳组合是一项具有挑战性的工作。我们提出了一种新颖的方法,沿着医疗信息技术本体(HITO)的路径,以可视化的方式探索医疗领域的应用系统和软件产品。我们在一个网络应用程序中介绍了一种算法和实现方法,该网络应用程序可在 HITO 网站上免费获取,并根据开源 MIT 许可授权。与其他基于路径的知识图谱探索方法相比,我们的方法的新颖之处在于使用本体层面的路径查找,并将其与所选路沿线的类实例以及搜索过滤器相结合,以限制搜索空间。我们的方法可适用于具有复杂信息需求的用户与本体和知识图谱交互的其他领域,并可在未来得到生成式人工智能的支持。
{"title":"Visualising Paths for Exploratory Search in the Health IT Ontology.","authors":"Konrad Höffner, Hannes Raphael Brunsch, Franziska Jahn, Alfred Winter","doi":"10.3233/SHTI241075","DOIUrl":"https://doi.org/10.3233/SHTI241075","url":null,"abstract":"<p><p>Due to a lack of systematisation and unbiased information, finding the optimal combination of software products for health information systems is a challenging endeavour. We present a novel approach to visually explore the domain of application systems and software products for health care along the paths of the Health IT ontology (HITO). We present an algorithm and implementation in a web application that is freely available at the HITO website and licensed under the open source MIT licence. In comparison to other approaches of path-based exploration of knowledge graphs, the novelty of our approach is the use of path finding on the ontology level and combining this both with the instances of the classes along the chosen path as well as search filters to limit the search space. Our approach can be adapted to other domains where users with complex information needs interact with ontologies and knowledge graphs and can be supported by generative artificial intelligence in the future.</p>","PeriodicalId":94357,"journal":{"name":"Studies in health technology and informatics","volume":"321 ","pages":"119-123"},"PeriodicalIF":0.0,"publicationDate":"2024-11-22","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142690257","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Gavin Jamie, Rachel Byford, Rashmi Wimalaratna, Simon de Lusignan
The identification of medications prescribed to patients in routinely collected health records is an important part of the identification of cohorts for surveillance and research. Preparations available for prescription can change frequently and this presents challenges to the maintenance of extensional or "flat lists" of medications, particularly in ongoing studies such as disease surveillance. The NHS publishes a Dictionary of Medicines and Devices weekly, listing almost all the medications available in the UK as an extension to the UK edition of SNOMED CT. We developed a method of creating intensional specifications of medications using specified active ingredients and the form of the medication. The specifications can be expressed using the SNOMED CT Expression Constraint Language, and can be used to form a library which may be used across multiple projects. We have developed intensional definitions of medication groups for all drugs likely to be used in primary care. We have shown that these can be shared as FHIR valuesets using the NHS Terminology Server. Here we show examples of expressions about medications used for neuropathic pain. We have created expressions which improve the specificity of the extraction by filtering on the form and number of ingredients.
{"title":"The Creation of Intensional Medication Lists Using the NHS Dictionary of Medicines and Devices.","authors":"Gavin Jamie, Rachel Byford, Rashmi Wimalaratna, Simon de Lusignan","doi":"10.3233/SHTI241097","DOIUrl":"https://doi.org/10.3233/SHTI241097","url":null,"abstract":"<p><p>The identification of medications prescribed to patients in routinely collected health records is an important part of the identification of cohorts for surveillance and research. Preparations available for prescription can change frequently and this presents challenges to the maintenance of extensional or \"flat lists\" of medications, particularly in ongoing studies such as disease surveillance. The NHS publishes a Dictionary of Medicines and Devices weekly, listing almost all the medications available in the UK as an extension to the UK edition of SNOMED CT. We developed a method of creating intensional specifications of medications using specified active ingredients and the form of the medication. The specifications can be expressed using the SNOMED CT Expression Constraint Language, and can be used to form a library which may be used across multiple projects. We have developed intensional definitions of medication groups for all drugs likely to be used in primary care. We have shown that these can be shared as FHIR valuesets using the NHS Terminology Server. Here we show examples of expressions about medications used for neuropathic pain. We have created expressions which improve the specificity of the extraction by filtering on the form and number of ingredients.</p>","PeriodicalId":94357,"journal":{"name":"Studies in health technology and informatics","volume":"321 ","pages":"225-229"},"PeriodicalIF":0.0,"publicationDate":"2024-11-22","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142689986","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Mohammadreza Azarpira, Ihssen Belhadj, Mohammed Khodja
Proximal humeral fractures are among the most common fractures seen in emergency departments. Accurately diagnosing and selecting the most appropriate treatment for these fractures can be challenging, and consultation with a senior orthopedic surgeon can be time-consuming for both the patient and the emergency unit. We developed a machine learning model for predicting the type of treatment based on injury radiographic images. The model distinguishes between nonoperative and operative treatment options, achieving an accuracy of 86% and an interobserver reliability (kappa) of 0.722 for test-dataset, which is more than the interobserver agreement between shoulder surgeons. This model has the potential to serve as a therapeutic decision support system for the practitioners in the emergency departments to expedite treatment decisions and to reduce patients' waiting time.
{"title":"Using Deep Learning to Suggest Treatment for Proximal Humerus Fractures.","authors":"Mohammadreza Azarpira, Ihssen Belhadj, Mohammed Khodja","doi":"10.3233/SHTI241080","DOIUrl":"https://doi.org/10.3233/SHTI241080","url":null,"abstract":"<p><p>Proximal humeral fractures are among the most common fractures seen in emergency departments. Accurately diagnosing and selecting the most appropriate treatment for these fractures can be challenging, and consultation with a senior orthopedic surgeon can be time-consuming for both the patient and the emergency unit. We developed a machine learning model for predicting the type of treatment based on injury radiographic images. The model distinguishes between nonoperative and operative treatment options, achieving an accuracy of 86% and an interobserver reliability (kappa) of 0.722 for test-dataset, which is more than the interobserver agreement between shoulder surgeons. This model has the potential to serve as a therapeutic decision support system for the practitioners in the emergency departments to expedite treatment decisions and to reduce patients' waiting time.</p>","PeriodicalId":94357,"journal":{"name":"Studies in health technology and informatics","volume":"321 ","pages":"140-144"},"PeriodicalIF":0.0,"publicationDate":"2024-11-22","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142690239","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Lisa A Stojmanovski Mercieca, Cynthia Formosa, Nachiappan Chockalingam, Vincent Cassar
The COVID-19 pandemic has accelerated the adoption of telemedicine in healthcare. This study explores the feasibility of telemedicine for foot and ankle care in primary settings, using a mixed-methods approach with online questionnaires, focus groups, and interviews. Stakeholders, including patients, podiatrists, and senior healthcare managers, agreed on the need for a telemedicine service. Recommendations include creating evidence-based guidelines, providing professional training, and enhancing community education. The research highlights the necessity for structured telemedicine services, identifying gaps in existing pandemic responses and the need for further guidelines and training.
{"title":"Extending the Scope of Telemedicine to Podiatric Medicine.","authors":"Lisa A Stojmanovski Mercieca, Cynthia Formosa, Nachiappan Chockalingam, Vincent Cassar","doi":"10.3233/SHTI241069","DOIUrl":"https://doi.org/10.3233/SHTI241069","url":null,"abstract":"<p><p>The COVID-19 pandemic has accelerated the adoption of telemedicine in healthcare. This study explores the feasibility of telemedicine for foot and ankle care in primary settings, using a mixed-methods approach with online questionnaires, focus groups, and interviews. Stakeholders, including patients, podiatrists, and senior healthcare managers, agreed on the need for a telemedicine service. Recommendations include creating evidence-based guidelines, providing professional training, and enhancing community education. The research highlights the necessity for structured telemedicine services, identifying gaps in existing pandemic responses and the need for further guidelines and training.</p>","PeriodicalId":94357,"journal":{"name":"Studies in health technology and informatics","volume":"321 ","pages":"89-93"},"PeriodicalIF":0.0,"publicationDate":"2024-11-22","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142690278","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Dominic Aeschbacher, Jessica Meisner, Marko Miletic, Murat Sariyar
Pharmacogenetics (PGx) explores the influence of genetic variability on drug efficacy and tolerability. Synthetic Data Generation (SDG) has emerged as a promising alternative to the labor-intensive process of collecting real-world PGx data, which is required for high-qualitative prediction models. This study investigates the performance of two Generative Adversarial Network (GAN) models, CTGAN and CTAB-GAN+, in generating synthetic PGx data. The benchmarking is based on utility metrics (Hellinger distance and Random Forest accuracy) and ϵ-identifiability. Results demonstrate that synthetic data generated by CTAB-GAN+ can surpass the original dataset in terms of utility. For instance, CTAB-GAN+ achieves higher Random Forest accuracy compared to the original data, indicating better predictive performance. These improvements suggest that synthetic data not only capture the essential patterns of the original data but also enhance model generalization and prediction capabilities, providing a more robust training ground for machine learning models. Consequently, SDG offers a promising solution to address data scarcity and imbalance in pharmacogenetic research.
{"title":"Use and Evaluation of GANs for Synthetic Data Generation in Pharmacogenetics.","authors":"Dominic Aeschbacher, Jessica Meisner, Marko Miletic, Murat Sariyar","doi":"10.3233/SHTI241100","DOIUrl":"https://doi.org/10.3233/SHTI241100","url":null,"abstract":"<p><p>Pharmacogenetics (PGx) explores the influence of genetic variability on drug efficacy and tolerability. Synthetic Data Generation (SDG) has emerged as a promising alternative to the labor-intensive process of collecting real-world PGx data, which is required for high-qualitative prediction models. This study investigates the performance of two Generative Adversarial Network (GAN) models, CTGAN and CTAB-GAN+, in generating synthetic PGx data. The benchmarking is based on utility metrics (Hellinger distance and Random Forest accuracy) and ϵ-identifiability. Results demonstrate that synthetic data generated by CTAB-GAN+ can surpass the original dataset in terms of utility. For instance, CTAB-GAN+ achieves higher Random Forest accuracy compared to the original data, indicating better predictive performance. These improvements suggest that synthetic data not only capture the essential patterns of the original data but also enhance model generalization and prediction capabilities, providing a more robust training ground for machine learning models. Consequently, SDG offers a promising solution to address data scarcity and imbalance in pharmacogenetic research.</p>","PeriodicalId":94357,"journal":{"name":"Studies in health technology and informatics","volume":"321 ","pages":"240-244"},"PeriodicalIF":0.0,"publicationDate":"2024-11-22","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142690234","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Abdel Rahman Alsaify, Tourjana Islam Supti, Mahmood Alzubaidi, Mowafa Househ
This scoping review explores mobile health (mHealth) technologies and their features affecting medication adherence in cancer patients. Among 11 selected studies, predominantly from the USA, mHealth tools, particularly smartphone apps, were examined for their features in managing cancer patient's medication adherence. The studies highlighted the importance of adherence in continuous cancer therapy, with mHealth tools offering reminders and interactive features, that aim to enhance patient engagement. However, the review identified research gaps, emphasizing the need for broader investigations into diverse mHealth tools beyond apps, including electronic capsules and smart pill dispensers. Additionally, it underscored the absence of information on costs, user input, integration with electronic health records, and data management. While acknowledging potential positive impacts on adherence, the review calls for more comprehensive research to substantiate these findings in clinical oncology.
{"title":"Mobile Health Technologies and Their Features Affecting Medication Adherence Among Cancer Patients: A Scoping Review.","authors":"Abdel Rahman Alsaify, Tourjana Islam Supti, Mahmood Alzubaidi, Mowafa Househ","doi":"10.3233/SHTI241064","DOIUrl":"https://doi.org/10.3233/SHTI241064","url":null,"abstract":"<p><p>This scoping review explores mobile health (mHealth) technologies and their features affecting medication adherence in cancer patients. Among 11 selected studies, predominantly from the USA, mHealth tools, particularly smartphone apps, were examined for their features in managing cancer patient's medication adherence. The studies highlighted the importance of adherence in continuous cancer therapy, with mHealth tools offering reminders and interactive features, that aim to enhance patient engagement. However, the review identified research gaps, emphasizing the need for broader investigations into diverse mHealth tools beyond apps, including electronic capsules and smart pill dispensers. Additionally, it underscored the absence of information on costs, user input, integration with electronic health records, and data management. While acknowledging potential positive impacts on adherence, the review calls for more comprehensive research to substantiate these findings in clinical oncology.</p>","PeriodicalId":94357,"journal":{"name":"Studies in health technology and informatics","volume":"321 ","pages":"64-68"},"PeriodicalIF":0.0,"publicationDate":"2024-11-22","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142690303","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Hospital at Home (HaH) is a model of care that provides hospital-level care in the patient's home, requiring a unique set of competencies and skills from both multidisciplinary care teams and informal caregivers. These skills are often different from those required in traditional hospital settings. The aim of this paper is to consolidate the information of HaH-related education and training to support the development of standardized curricula to ensure safe hospitalization at home. We compiled relevant information from the scientific literature on HaH approaches and studies and conducted a web search. Our results indicate that healthcare professionals are trained in short training sessions, covering specific skills needed in the HaH context. These skills comprise, among others, communication, medication safety, infection control, and wound care. Patients and their families receive training in recognizing symptoms of deterioration and self-care. Concrete guidelines or standardized training programs are still missing. Future research should thus focus on developing standardized HaH training protocols and programs for both staff and patients to ensure patient safety at home.
{"title":"Preparing for Hospital at Home: A Review of the Current Landscape of Training Practices.","authors":"Kerstin Denecke, Daniel Reichenpfader","doi":"10.3233/SHTI241060","DOIUrl":"https://doi.org/10.3233/SHTI241060","url":null,"abstract":"<p><p>Hospital at Home (HaH) is a model of care that provides hospital-level care in the patient's home, requiring a unique set of competencies and skills from both multidisciplinary care teams and informal caregivers. These skills are often different from those required in traditional hospital settings. The aim of this paper is to consolidate the information of HaH-related education and training to support the development of standardized curricula to ensure safe hospitalization at home. We compiled relevant information from the scientific literature on HaH approaches and studies and conducted a web search. Our results indicate that healthcare professionals are trained in short training sessions, covering specific skills needed in the HaH context. These skills comprise, among others, communication, medication safety, infection control, and wound care. Patients and their families receive training in recognizing symptoms of deterioration and self-care. Concrete guidelines or standardized training programs are still missing. Future research should thus focus on developing standardized HaH training protocols and programs for both staff and patients to ensure patient safety at home.</p>","PeriodicalId":94357,"journal":{"name":"Studies in health technology and informatics","volume":"321 ","pages":"48-52"},"PeriodicalIF":0.0,"publicationDate":"2024-11-22","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142690309","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
This research investigates the application of a hybrid Retrieval-Augmented Generation (RAG) and Generative Pre-trained Transformer (GPT) pipeline for extracting and categorizing substance use information from unstructured clinical notes. The aim is to enhance the accuracy and efficiency of identifying substance use mentions and determining their status in patient documentation. By integrating RAG to pre-filter and focus the input for GPT, the pipeline strategically narrows the scope of analysis to the most relevant text segments, thereby improving the precision and recall of the extraction. Utilizing the Medical Information Mart for Intensive Care III dataset, the performance of the pipeline was evaluated through manual verification, assessing various metrics including recall, precision, F1-score, and accuracy. The results demonstrated high precision rates (up to 0.99 for drug and alcohol mentions), and substantial recall (0.88 across all substances for status of the usage).
本研究调查了混合检索-增强生成(RAG)和生成预训练转换器(GPT)管道在从非结构化临床笔记中提取和分类药物使用信息方面的应用。其目的是提高识别药物使用提及并确定其在患者文档中的状态的准确性和效率。通过整合 RAG 对 GPT 的输入进行预过滤和聚焦,该管道战略性地将分析范围缩小到最相关的文本片段,从而提高了提取的精确度和召回率。利用重症监护医疗信息市场 III 数据集,通过人工验证评估了该管道的性能,评估指标包括召回率、精确度、F1 分数和准确率。结果表明,精确率很高(药物和酒精提及率高达 0.99),召回率也很高(所有物质的使用状态召回率均为 0.88)。
{"title":"Utilizing RAG and GPT-4 for Extraction of Substance Use Information from Clinical Notes.","authors":"Fatemeh Shah-Mohammadi, Joseph Finkelstein","doi":"10.3233/SHTI241070","DOIUrl":"https://doi.org/10.3233/SHTI241070","url":null,"abstract":"<p><p>This research investigates the application of a hybrid Retrieval-Augmented Generation (RAG) and Generative Pre-trained Transformer (GPT) pipeline for extracting and categorizing substance use information from unstructured clinical notes. The aim is to enhance the accuracy and efficiency of identifying substance use mentions and determining their status in patient documentation. By integrating RAG to pre-filter and focus the input for GPT, the pipeline strategically narrows the scope of analysis to the most relevant text segments, thereby improving the precision and recall of the extraction. Utilizing the Medical Information Mart for Intensive Care III dataset, the performance of the pipeline was evaluated through manual verification, assessing various metrics including recall, precision, F1-score, and accuracy. The results demonstrated high precision rates (up to 0.99 for drug and alcohol mentions), and substantial recall (0.88 across all substances for status of the usage).</p>","PeriodicalId":94357,"journal":{"name":"Studies in health technology and informatics","volume":"321 ","pages":"94-98"},"PeriodicalIF":0.0,"publicationDate":"2024-11-22","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142690252","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}