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Articles 13681 - 13710 of 13839
Full-Text Articles in Life Sciences
Potential Effects Of Road Proximity On Zooplankton Communities And Water Quality In Lakes In The Northwest Territories, Marie N. Hannan
Potential Effects Of Road Proximity On Zooplankton Communities And Water Quality In Lakes In The Northwest Territories, Marie N. Hannan
Theses and Dissertations (Comprehensive)
Studies conducted along Canada’s Dempster Highway in the Northwest Territories have shown that road dust can affect water quality in roadside lakes, leading to higher calcium, conductivity, and pH levels. These water quality changes have the potential to affect important members of the lower aquatic food web, such as zooplankton.
For my thesis research, I had two main objectives: 1) To determine if changes in water chemistry caused by deposition of road dust affects zooplankton communities; and 2) To examine if the type of roadside vegetation influences the effects of road dust on aquatic habitats. To achieve these objectives, I …
The Effect Of Alkalinity On Lampricide Effectiveness And Gill Physiology In Invasive Sea Lamprey (Petromyzon Marinus), Alexandre J. Walsh
The Effect Of Alkalinity On Lampricide Effectiveness And Gill Physiology In Invasive Sea Lamprey (Petromyzon Marinus), Alexandre J. Walsh
Theses and Dissertations (Comprehensive)
The pesticides, 3-trifluoromethyl-4-nitrophenol (TFM) and niclosamide are used to control populations of invasive sea lamprey (Petromyzon marinus) in the Laurentian Great Lakes of North America. Added to streams infested with larval sea lamprey, the effectiveness of these pesticides, commonly called lampricides, are strongly influenced by water pH, with greater toxicity for both TFM and niclosamide in lower pH than higher pH water. However, the TFM and niclosamide sensitivity of sea lamprey are also greater in poorly buffered, low alkalinity water than in high alkalinity water but it is unclear why. One goal of my thesis was to propose …
Repeated Social Defeat Stress Induces An Inflammatory Gut Milieu By Altering The Mucosal Barrier Integrity And Gut Microbiota Homeostasis, Santosh K. Yadav, Rizwan Ahmad, Cassandra M. Moshfegh, Jagadesan Sankarasubramanian, Vineet A. Joshi, Safwan K. Elkhatib, Yashpal S. Chhonker, Goeffrey A. Talmon, Chittibabu Guda, Adam Case, Amar B. Singh
Repeated Social Defeat Stress Induces An Inflammatory Gut Milieu By Altering The Mucosal Barrier Integrity And Gut Microbiota Homeostasis, Santosh K. Yadav, Rizwan Ahmad, Cassandra M. Moshfegh, Jagadesan Sankarasubramanian, Vineet A. Joshi, Safwan K. Elkhatib, Yashpal S. Chhonker, Goeffrey A. Talmon, Chittibabu Guda, Adam Case, Amar B. Singh
Journal Articles: Cellular & Integrative Physiology
Background
Posttraumatic stress disorder (PTSD) is a mental health condition triggered by exposure to traumatic events in an individual’s life. Patients with PTSD are also at a higher risk for comorbidities. However, it is not well understood how PTSD affects human health and/or promotes the risk for comorbidities. Nevertheless, patients with PTSD harbor a proinflammatory milieu and dysbiotic gut microbiota. Gut barrier integrity helps to maintain normal gut homeostasis and its dysregulation promotes gut dysbiosis and inflammation.
Methods
We used a mouse model of repeated social defeat stress (RSDS), a preclinical model of PTSD. Behavioral studies, metagenomics analysis of the …
Elevated Crp And Tnf-Α Levels Are Associated With Blunted Neural Oscillations Serving Fluid Intelligence, Sarah M. Dietz, Mikki Schantell, Rachel K. Spooner, Megan E. Sandal, Amirsalar Mansouri, Yasra Arif, Hannah J. Okelberry, Jason A. John, Ryan Glesinger, Pamela E. May, Elizabeth Heinrichs-Graham, Adam J. Case, Matthew C. Zimmerman, Tony W. Wilson
Elevated Crp And Tnf-Α Levels Are Associated With Blunted Neural Oscillations Serving Fluid Intelligence, Sarah M. Dietz, Mikki Schantell, Rachel K. Spooner, Megan E. Sandal, Amirsalar Mansouri, Yasra Arif, Hannah J. Okelberry, Jason A. John, Ryan Glesinger, Pamela E. May, Elizabeth Heinrichs-Graham, Adam J. Case, Matthew C. Zimmerman, Tony W. Wilson
Journal Articles: Cellular & Integrative Physiology
INTRODUCTION: Inflammatory processes help protect the body from potential threats such as bacterial or viral invasions. However, when such inflammatory processes become chronically engaged, synaptic impairments and neuronal cell death may occur. In particular, persistently high levels of C-reactive protein (CRP) and tumor necrosis factor-alpha (TNF-α) have been linked to deficits in cognition and several psychiatric disorders. Higher-order cognitive processes such as fluid intelligence (Gf) are thought to be particularly vulnerable to persistent inflammation. Herein, we investigated the relationship between elevated CRP and TNF-α and the neural oscillatory dynamics serving Gf.
METHODS: Seventy adults between the ages of 20-66 years …
Commonalities And Differences In Carotid Body Dysfunction In Hypertension And Heart Failure, Igor S. A. Felippe, Rodrigo Del Río, Harold D. Schultz, Benedito H. Machado, Julian F R Paton
Commonalities And Differences In Carotid Body Dysfunction In Hypertension And Heart Failure, Igor S. A. Felippe, Rodrigo Del Río, Harold D. Schultz, Benedito H. Machado, Julian F R Paton
Journal Articles: Cellular & Integrative Physiology
Carotid body pathophysiology is associated with many cardiovascular-respiratory-metabolic diseases. This pathophysiology reflects both hyper-sensitivity and hyper-tonicity. From both animal models and human patients, evidence indicates that amelioration of this pathophysiological signalling improves disease states such as a lowering of blood pressure in hypertension, a reduction of breathing disturbances with improved cardiac function in heart failure (HF) and a re-balancing of autonomic activity with lowered sympathetic discharge. Given this, we have reviewed the mechanisms of carotid body hyper-sensitivity and hyper-tonicity across disease models asking whether there is uniqueness related to specific disease states. Our analysis indicates some commonalities and some potential …
Repeated Social Defeat Stress Leads To Immunometabolic Shifts In Innate Immune Cells Of The Spleen, Mandakh Bekhbat, John Drake, Emily C. Reed, Tatlock H. Lauten, Tamara Natour, Vladimir I. Vladimirov, Adam J. Case
Repeated Social Defeat Stress Leads To Immunometabolic Shifts In Innate Immune Cells Of The Spleen, Mandakh Bekhbat, John Drake, Emily C. Reed, Tatlock H. Lauten, Tamara Natour, Vladimir I. Vladimirov, Adam J. Case
Journal Articles: Cellular & Integrative Physiology
Psychosocial stress has been shown to prime peripheral innate immune cells, which take on hyper-inflammatory phenotypes and are implicated in depressive-like behavior in mouse models. However, the impact of stress on cellular metabolic states that are thought to fuel inflammatory phenotypes in immune cells are unknown. Using single cell RNA-sequencing, we investigated mRNA enrichment of immunometabolic pathways in innate immune cells of the spleen in mice subjected to repeated social defeat stress (RSDS) or no stress (NS). RSDS mice displayed a significant increase in the number of splenic macrophages and granulocytes (p < 0.05) compared to NS littermates. RSDS-upregulated genes in macrophages, monocytes, and granulocytes significantly enriched immunometabolic pathways thought to play a role in myeloid-driven inflammation (glycolysis, HIF-1 signaling, MTORC1 signaling) as well as pathways related to oxidative phosphorylation (OXPHOS) and oxidative stress (p < 0.05 and FDR<0.1). These results suggest that the metabolic enhancement reflected by upregulation of glycolytic and OXPHOS pathways may be important for cellular proliferation of splenic macrophages and granulocytes following repeated stress exposure. A better understanding of these intracellular metabolic mechanisms may ultimately help develop novel strategies to reverse the impact of stress and associated peripheral immune changes on the brain and behavior.
Effects Of Salinity Changes On Osmotic Properties And Oxidative Stresses In Razor Clam Solen Sp. In Don Hoi Lot Tidal Flat, Sappasith Dechkittithum
Effects Of Salinity Changes On Osmotic Properties And Oxidative Stresses In Razor Clam Solen Sp. In Don Hoi Lot Tidal Flat, Sappasith Dechkittithum
Chulalongkorn University Theses and Dissertations (Chula ETD)
Estuaries are important coastal ecosystems that serve as transition zones between freshwater and seawater. The Don Hoi Lot tidal flat, located in the upper Gulf of Thailand, is a crucial estuarine ecosystem in the country. However, this area faces increasing environmental challenges from both human activities and natural changes. The razor clam, Solen regularis, is a notable species in this region. This study examined how salinity variations impact the osmotic properties and antioxidant enzyme activities in five tissues (foot, mantle, adductor muscle, gill, and digestive gland) of the razor clam S. regularis collected from Don Hoi Lot. Razor clams were …
Coevolution Combined With Molecular Dynamics Simulations Provides Structural And Mechanistic Insights Into The Interactions Between The Integrator Complex Subunits, Bernard Fongang, Yannick N Wadop, Yingjie Zhu, Eric J Wagner, Andrzej Kudlicki, Maga Rowicka
Coevolution Combined With Molecular Dynamics Simulations Provides Structural And Mechanistic Insights Into The Interactions Between The Integrator Complex Subunits, Bernard Fongang, Yannick N Wadop, Yingjie Zhu, Eric J Wagner, Andrzej Kudlicki, Maga Rowicka
Faculty, Staff and Student Publications
Finding the 3D structure of large, multi-subunit complexes is difficult, despite recent advances in cryo-EM technology, due to remaining challenges to expressing and purifying subunits. Computational approaches that predict protein-protein interactions, including Direct Coupling Analysis (DCA), represent an attractive alternative for dissecting interactions within protein complexes. However, they are readily applicable only to small proteins due to high computational complexity and a high number of false positives. To solve this problem, we proposed a modified DCA approach, a powerful tool to predict the most likely interfaces of protein complexes. Since our modified approach cannot provide structural and mechanistic details of …
A Query Engine For Self-Controlled Case Series, With An Application To Covid-19 Ehr Data, Xiaojin Li, Yan Huang, Licong Cui, Guo-Qiang Zhang
A Query Engine For Self-Controlled Case Series, With An Application To Covid-19 Ehr Data, Xiaojin Li, Yan Huang, Licong Cui, Guo-Qiang Zhang
Faculty, Staff and Student Publications
Self-controlled case series (SCCS) is a statistical method in epidemiological study design that uses individuals as their own controls, with comparisons made within the same individuals at different time points of observation. SCCS has been applied in settings where it is difficult to identify comparison or control groups. To provide computational support for SCCS, we introduce a query engine called Self-Controlled Case Query (SCCQ) and use it to extract cohorts of self-controlled case series from a large-scale COVID-19 Electronic Health Records (EHR) dataset. Visual summary of the queried population through the R-Shiny visualization framework offers SCCQ's query result dashboard to …
Gene Expression In Mice With Endothelium-Specific Telomerase Knockout, Zhanguo Gao, Yongmei Yu, Yulin Dai, Zhongming Zhao, Kristin Eckel-Mahan, Mikhail G Kolonin
Gene Expression In Mice With Endothelium-Specific Telomerase Knockout, Zhanguo Gao, Yongmei Yu, Yulin Dai, Zhongming Zhao, Kristin Eckel-Mahan, Mikhail G Kolonin
Faculty, Staff and Student Publications
No abstract provided.
Investigating Cellular Heterogeneity At The Single-Cell Level By The Flexible And Mobile Extrachromosomal Circular Dna, Jiajinlong Kang, Yulin Dai, Jinze Li, Huihui Fan, Zhongming Zhao
Investigating Cellular Heterogeneity At The Single-Cell Level By The Flexible And Mobile Extrachromosomal Circular Dna, Jiajinlong Kang, Yulin Dai, Jinze Li, Huihui Fan, Zhongming Zhao
Faculty, Staff and Student Publications
Extrachromosomal circular DNA (eccDNA) is a special class of DNA derived from linear chromosomes. It coexists independently with linear chromosomes in the nucleus. eccDNA has been identified in multiple organisms, including Homo sapiens, and has been shown to play important roles relevant to tumor progression and drug resistance. To date, computational tools developed for eccDNA detection are only applicable to bulk tissue. Investigating eccDNA at the single-cell level using a computational approach will elucidate the heterogeneous and cell-type-specific landscape of eccDNA within cellular context. Here, we performed the first eccDNA analysis at the single-cell level using data generated by single-cell …
Contextual Variation Of Clinical Notes Induced By Ehr Migration, Kurt Miller, Sungrim Moon, Sunyang Fu, Hongfang Liu
Contextual Variation Of Clinical Notes Induced By Ehr Migration, Kurt Miller, Sungrim Moon, Sunyang Fu, Hongfang Liu
Faculty, Staff and Student Publications
The structure and semantics of clinical notes vary considerably across different Electronic Health Record (EHR) systems, sites, and institutions. Such heterogeneity hampers the portability of natural language processing (NLP) models in extracting information from the text for clinical research or practice. In this study, we evaluate the contextual variation of clinical notes by measuring the semantic and syntactic similarity of the notes of two sets of physicians comprising four medical specialties across EHR migrations at two Mayo Clinic sites. We find significant semantic and syntactic variation imposed by the context of the EHR system and between medical specialties whereas only …
Digital Solutions Observed In Clinical Trials: A Formative Feasibility Scoping Review, Taylor M Harrison, Sungrim Moon, Liwei Wang, Sunyang Fu, Hongfang Liu
Digital Solutions Observed In Clinical Trials: A Formative Feasibility Scoping Review, Taylor M Harrison, Sungrim Moon, Liwei Wang, Sunyang Fu, Hongfang Liu
Faculty, Staff and Student Publications
Growing digital access accelerates digital transformation of clinical trials where digital solutions (DSs) are increasingly and widely leveraged for improving trial efficiency, effectiveness, and accessibility. Many factors impact DS success including technology barriers, privacy concerns, or user engagement activities. It is unclear how those factors are considered or reported in the literature. Here, we perform a formative feasibility scoping review to identify gaps impacting DS quality and reproducibility in trials. Articles containing digital terms published in English from 2009 to 2022 were collected (n=4,167). 130 articles published between 2016 and 2022 were randomly selected for full-text review. Eligible articles (n=100) …
Segmentation Of Acute Stroke Infarct Core Using Image-Level Labels On Ct-Angiography, Luca Giancardo, Arash Niktabe, Laura Ocasio, Rania Abdelkhaleq, Sergio Salazar-Marioni, Sunil A Sheth
Segmentation Of Acute Stroke Infarct Core Using Image-Level Labels On Ct-Angiography, Luca Giancardo, Arash Niktabe, Laura Ocasio, Rania Abdelkhaleq, Sergio Salazar-Marioni, Sunil A Sheth
Faculty, Staff and Student Publications
Acute ischemic stroke is a leading cause of death and disability in the world. Treatment decisions, especially around emergent revascularization procedures, rely heavily on size and location of the infarct core. Currently, accurate assessment of this measure is challenging. While MRI-DWI is considered the gold standard, its availability is limited for most patients suffering from stroke. Another well-studied imaging modality is CT-Perfusion (CTP) which is much more common than MRI-DWI in acute stroke care, but not as precise as MRI-DWI, and it is still unavailable in many stroke hospitals. A method to determine infarct core using CT-Angiography (CTA), a much …
Dental Claires: Contrastive Language Image Retrieval Search For Dental Research, Tanjida Kabir, Luyao Chen, Muhammad F Walji, Luca Giancardo, Xiaoqian Jiang, Shayan Shams
Dental Claires: Contrastive Language Image Retrieval Search For Dental Research, Tanjida Kabir, Luyao Chen, Muhammad F Walji, Luca Giancardo, Xiaoqian Jiang, Shayan Shams
Faculty, Staff and Student Publications
Learning about diagnostic features and related clinical information from dental radiographs is important for dental research. However, the lack of expert-annotated data and convenient search tools poses challenges. Our primary objective is to design a search tool that uses a user's query for oral-related research. The proposed framework,
Keystroke-Dynamics For Parkinson's Disease Signs Detection In An At-Home Uncontrolled Population: A New Benchmark And Method, Shikha Tripathi, Teresa Arroyo-Gallego, Luca Giancardo
Keystroke-Dynamics For Parkinson's Disease Signs Detection In An At-Home Uncontrolled Population: A New Benchmark And Method, Shikha Tripathi, Teresa Arroyo-Gallego, Luca Giancardo
Faculty, Staff and Student Publications
Parkinson's disease (PD) is the second most prevalent neurodegenerative disease disorder in the world. A prompt diagnosis would enable clinical trials for disease-modifying neuroprotective therapies. Recent research efforts have unveiled imaging and blood markers that have the potential to be used to identify PD patients promptly, however, the idiopathic nature of PD makes these tests very hard to scale to the general population. To this end, we need an easily deployable tool that would enable screening for PD signs in the general population. In this work, we propose a new set of features based on keystroke dynamics, i.e., the time …
The Health-Promoting Effects And The Mechanism Of Intermittent Fasting, Simin Liu, Min Zeng, Weixi Wan, Ming Huang, Xiang Li, Zixian Xie, Shang Wang, Yu Cai
The Health-Promoting Effects And The Mechanism Of Intermittent Fasting, Simin Liu, Min Zeng, Weixi Wan, Ming Huang, Xiang Li, Zixian Xie, Shang Wang, Yu Cai
Faculty, Staff and Student Publications
Intermittent fasting (IF) is an eating pattern in which individuals go extended periods with little or no energy intake after consuming regular food in intervening periods. IF has several health-promoting effects. It can effectively reduce weight, fasting insulin levels, and blood glucose levels. It can also increase the antitumor activity of medicines and cause improvement in the case of neurological diseases, such as memory deficit, to achieve enhanced metabolic function and prolonged longevity. Additionally, IF activates several biological pathways to induce autophagy, encourages cell renewal, prevents cancer cells from multiplying and spreading, and delays senescence. However, IF has specific adverse …
Emulate Randomized Clinical Trials Using Heterogeneous Treatment Effect Estimation For Personalized Treatments: Methodology Review And Benchmark, Yaobin Ling, Pulakesh Upadhyaya, Luyao Chen, Xiaoqian Jiang, Yejin Kim
Emulate Randomized Clinical Trials Using Heterogeneous Treatment Effect Estimation For Personalized Treatments: Methodology Review And Benchmark, Yaobin Ling, Pulakesh Upadhyaya, Luyao Chen, Xiaoqian Jiang, Yejin Kim
Faculty, Staff and Student Publications
Big data and (deep) machine learning have been ambitious tools in digital medicine, but these tools focus mainly on association. Intervention in medicine is about the causal effects. The average treatment effect has long been studied as a measure of causal effect, assuming that all populations have the same effect size. However, no "one-size-fits-all" treatment seems to work in some complex diseases. Treatment effects may vary by patient. Estimating heterogeneous treatment effects (HTE) may have a high impact on developing personalized treatment. Lots of advanced machine learning models for estimating HTE have emerged in recent years, but there has been …
Covidanno, Covid-19 Annotation In Human, Yuzhou Feng, Mengyuan Yang, Zhiwei Fan, Weiling Zhao, Pora Kim, Xiaobo Zhou
Covidanno, Covid-19 Annotation In Human, Yuzhou Feng, Mengyuan Yang, Zhiwei Fan, Weiling Zhao, Pora Kim, Xiaobo Zhou
Faculty, Staff and Student Publications
Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2), the etiologic agent of coronavirus disease 19 (COVID-19), has caused a global health crisis. Despite ongoing efforts to treat patients, there is no universal prevention or cure available. One of the feasible approaches will be identifying the key genes from SARS-CoV-2-infected cells. SARS-CoV-2-infected in vitro model, allows easy control of the experimental conditions, obtaining reproducible results, and monitoring of infection progression. Currently, accumulating RNA-seq data from SARS-CoV-2 in vitro models urgently needs systematic translation and interpretation. To fill this gap, we built COVIDanno, COVID-19 annotation in humans, available at http://biomedbdc.wchscu.cn/COVIDanno/. The aim …
Syllable-Pbwt For Space-Efficient Haplotype Long-Match Query, Victor Wang, Ardalan Naseri, Shaojie Zhang, Degui Zhi
Syllable-Pbwt For Space-Efficient Haplotype Long-Match Query, Victor Wang, Ardalan Naseri, Shaojie Zhang, Degui Zhi
Faculty, Staff and Student Publications
MOTIVATION: The positional Burrows-Wheeler transform (PBWT) has led to tremendous strides in haplotype matching on biobank-scale data. For genetic genealogical search, PBWT-based methods have optimized the asymptotic runtime of finding long matches between a query haplotype and a predefined panel of haplotypes. However, to enable fast query searches, the full-sized panel and PBWT data structures must be kept in memory, preventing existing algorithms from scaling up to modern biobank panels consisting of millions of haplotypes. In this work, we propose a space-efficient variation of PBWT named Syllable-PBWT, which divides every haplotype into syllables, builds the PBWT positional prefix arrays on …
Text Classification Of Cancer Clinical Trial Eligibility Criteria, Yumeng Yang, Soumya Jayaraj, Ethan Ludmir, Kirk Roberts
Text Classification Of Cancer Clinical Trial Eligibility Criteria, Yumeng Yang, Soumya Jayaraj, Ethan Ludmir, Kirk Roberts
Faculty, Staff and Student Publications
Automatic identification of clinical trials for which a patient is eligible is complicated by the fact that trial eligibility are stated in natural language. A potential solution to this problem is to employ text classification methods for common types of eligibility criteria. In this study, we focus on seven common exclusion criteria in cancer trials: prior malignancy, human immunodeficiency virus, hepatitis B, hepatitis C, psychiatric illness, drug/substance abuse, and autoimmune illness. Our dataset consists of 764 phase III cancer trials with these exclusions annotated at the trial level. We experiment with common transformer models as well as a new pre-trained …
Use Gpt-J Prompt Generation With Roberta For Ner Models On Diagnosis Extraction Of Periodontal Diagnosis From Electronic Dental Records, Yao-Shun Chuang, Xiaoqian Jiang, Chun-Teh Lee, Ryan Brandon, Duong Tran, Oluwabunmi Tokede, Muhammad F Walji
Use Gpt-J Prompt Generation With Roberta For Ner Models On Diagnosis Extraction Of Periodontal Diagnosis From Electronic Dental Records, Yao-Shun Chuang, Xiaoqian Jiang, Chun-Teh Lee, Ryan Brandon, Duong Tran, Oluwabunmi Tokede, Muhammad F Walji
Faculty, Staff and Student Publications
This study explored the usability of prompt generation on named entity recognition (NER) tasks and the performance in different settings of the prompt. The prompt generation by GPT-J models was utilized to directly test the gold standard as well as to generate the seed and further fed to the RoBERTa model with the spaCy package. In the direct test, a lower ratio of negative examples with higher numbers of examples in prompt achieved the best results with a F1 score of 0.72. The performance revealed consistency, 0.92-0.97 in the F1 score, in all settings after training with the RoBERTa model. …
A Novel Nih Research Grant Recommender Using Bert, Jie Zhu, Braja Gopal Patra, Hulin Wu, Ashraf Yaseen
A Novel Nih Research Grant Recommender Using Bert, Jie Zhu, Braja Gopal Patra, Hulin Wu, Ashraf Yaseen
Faculty, Staff and Student Publications
Research grants are important for researchers to sustain a good position in academia. There are many grant opportunities available from different funding agencies. However, finding relevant grant announcements is challenging and time-consuming for researchers. To resolve the problem, we proposed a grant announcements recommendation system for the National Institute of Health (NIH) grants using researchers' publications. We formulated the recommendation as a classification problem and proposed a recommender using state-of-the-art deep learning techniques: i.e. Bidirectional Encoder Representations from Transformers (BERT), to capture intrinsic, non-linear relationship between researchers' publications and grants announcements. Internal and external evaluations were conducted to assess the …
Data Mining Pipeline For Covid-19 Vaccine Safety Analysis Using A Large Electronic Health Record, Yan Huang, Xiaojin Li, Deepa Dongarwar, Hulin Wu, Guo-Qiang Zhang
Data Mining Pipeline For Covid-19 Vaccine Safety Analysis Using A Large Electronic Health Record, Yan Huang, Xiaojin Li, Deepa Dongarwar, Hulin Wu, Guo-Qiang Zhang
Faculty, Staff and Student Publications
We developed a novel data mining pipeline that automatically extracts potential COVID-19 vaccine-related adverse events from a large Electronic Health Record (EHR) dataset. We applied this pipeline to Optum® de-identified COVID-19 EHR dataset containing COVID-19 vaccine records between December 11, 2020 and January 20, 2022. We compared post-vaccination diagnoses between the COVID-19 vaccine group and the influenza vaccine group among 553,682 individuals without COVID-19 infection. We extracted 1,414 ICD-10 diagnosis categories (first three ICD10 digits) within 180 days after the first dose of the COVID-19 vaccine. We then ranked the diagnosis codes using the adverse event rates and adjusted odds …
Machine Learning-Based Prediction Of Acute Mortality In Emergency Department Patients Using Twelve-Lead Electrocardiogram, Po-Cheng Chang, Zhi-Yong Liu, Yu-Chang Huang, Yu-Chun Hsu, Jung-Sheng Chen, Ching-Heng Lin, Richard Tsai, Chung-Chuan Chou, Ming-Shien Wen, Hung-Ta Wo, Wen-Chen Lee, Hao-Tien Liu, Chun-Chieh Wang, Chang-Fu Kuo
Machine Learning-Based Prediction Of Acute Mortality In Emergency Department Patients Using Twelve-Lead Electrocardiogram, Po-Cheng Chang, Zhi-Yong Liu, Yu-Chang Huang, Yu-Chun Hsu, Jung-Sheng Chen, Ching-Heng Lin, Richard Tsai, Chung-Chuan Chou, Ming-Shien Wen, Hung-Ta Wo, Wen-Chen Lee, Hao-Tien Liu, Chun-Chieh Wang, Chang-Fu Kuo
Faculty, Staff and Student Publications
BACKGROUND: The risk of mortality is relatively high among patients who visit the emergency department (ED), and stratifying patients at high risk can help improve medical care. This study aimed to create a machine-learning model that utilizes the standard 12-lead ECG to forecast acute mortality risk in ED patients.
METHODS: The database included patients who visited the EDs and underwent standard 12-lead ECG between October 2007 and December 2017. A convolutional neural network (CNN) ECG model was developed to classify survival and mortality using 12-lead ECG tracings acquired from 345,593 ED patients. For machine learning model development, the patients were …
Artificial Intelligence-Enabled Electrocardiographic Screening For Left Ventricular Systolic Dysfunction And Mortality Risk Prediction, Yu-Chang Huang, Yu-Chun Hsu, Zhi-Yong Liu, Ching-Heng Lin, Richard Tsai, Jung-Sheng Chen, Po-Cheng Chang, Hao-Tien Liu, Wen-Chen Lee, Hung-Ta Wo, Chung-Chuan Chou, Chun-Chieh Wang, Ming-Shien Wen, Chang-Fu Kuo
Artificial Intelligence-Enabled Electrocardiographic Screening For Left Ventricular Systolic Dysfunction And Mortality Risk Prediction, Yu-Chang Huang, Yu-Chun Hsu, Zhi-Yong Liu, Ching-Heng Lin, Richard Tsai, Jung-Sheng Chen, Po-Cheng Chang, Hao-Tien Liu, Wen-Chen Lee, Hung-Ta Wo, Chung-Chuan Chou, Chun-Chieh Wang, Ming-Shien Wen, Chang-Fu Kuo
Faculty, Staff and Student Publications
BACKGROUND: Left ventricular systolic dysfunction (LVSD) characterized by a reduced left ventricular ejection fraction (LVEF) is associated with adverse patient outcomes. We aimed to build a deep neural network (DNN)-based model using standard 12-lead electrocardiogram (ECG) to screen for LVSD and stratify patient prognosis.
METHODS: This retrospective chart review study was conducted using data from consecutive adults who underwent ECG examinations at Chang Gung Memorial Hospital in Taiwan between October 2007 and December 2019. DNN models were developed to recognize LVSD, defined as LVEF
RESULTS: The mean age of patients in the testing dataset was 63.7 ± 16.3 years (46.3% …
Efficient Federated Kinship Relationship Identification, Xinyue Wang, Leonard Dervishi, Wentao Li, Xiaoqian Jiang, Erman Ayday, Jaideep Vaidya
Efficient Federated Kinship Relationship Identification, Xinyue Wang, Leonard Dervishi, Wentao Li, Xiaoqian Jiang, Erman Ayday, Jaideep Vaidya
Faculty, Staff and Student Publications
Kinship relationship estimation plays a significant role in today's genome studies. Since genetic data are mostly stored and protected in different silos, retrieving the desirable kinship relationships across federated data warehouses is a non-trivial problem. The ability to identify and connect related individuals is important for both research and clinical applications. In this work, we propose a new privacy-preserving kinship relationship estimation framework: Incremental Update Kinship Identification (INK). The proposed framework includes three key components that allow us to control the balance between privacy and accuracy (of kinship estimation): an incremental process coupled with the use of auxiliary information and …
Sensitive Data Detection With High-Throughput Machine Learning Models In Electrical Health Records, Kai Zhang, Xiaoqian Jiang
Sensitive Data Detection With High-Throughput Machine Learning Models In Electrical Health Records, Kai Zhang, Xiaoqian Jiang
Faculty, Staff and Student Publications
In the era of big data, there is an increasing need for healthcare providers, communities, and researchers to share data and collaborate to improve health outcomes, generate valuable insights, and advance research. The Health Insurance Portability and Accountability Act of 1996 (HIPAA) is a federal law designed to protect sensitive health information by defining regulations for protected health information (PHI). However, it does not provide efficient tools for detecting or removing PHI before data sharing. One of the challenges in this area of research is the heterogeneous nature of PHI fields in data across different parties. This variability makes rule-based …
Towards Fair Patient-Trial Matching Via Patient-Criterion Level Fairness Constraint, Chia-Yuan Chang, Jiayi Yuan, Sirui Ding, Qiaoyu Tan, Kai Zhang, Xiaoqian Jiang, Xia Hu, Na Zou
Towards Fair Patient-Trial Matching Via Patient-Criterion Level Fairness Constraint, Chia-Yuan Chang, Jiayi Yuan, Sirui Ding, Qiaoyu Tan, Kai Zhang, Xiaoqian Jiang, Xia Hu, Na Zou
Faculty, Staff and Student Publications
Clinical trials are indispensable in developing new treatments, but they face obstacles in patient recruitment and retention, hindering the enrollment of necessary participants. To tackle these challenges, deep learning frameworks have been created to match patients to trials. These frameworks calculate the similarity between patients and clinical trial eligibility criteria, considering the discrepancy between inclusion and exclusion criteria. Recent studies have shown that these frameworks outperform earlier approaches. However, deep learning models may raise fairness issues in patient-trial matching when certain sensitive groups of individuals are underrepresented in clinical trials, leading to incomplete or inaccurate data and potential harm. To …
Large Language Models For Healthcare Data Augmentation: An Example On Patient-Trial Matching, Jiayi Yuan, Ruixiang Tang, Xiaoqian Jiang, Xia Hu
Large Language Models For Healthcare Data Augmentation: An Example On Patient-Trial Matching, Jiayi Yuan, Ruixiang Tang, Xiaoqian Jiang, Xia Hu
Faculty, Staff and Student Publications
The process of matching patients with suitable clinical trials is essential for advancing medical research and providing optimal care. However, current approaches face challenges such as data standardization, ethical considerations, and a lack of interoperability between Electronic Health Records (EHRs) and clinical trial criteria. In this paper, we explore the potential of large language models (LLMs) to address these challenges by leveraging their advanced natural language generation capabilities to improve compatibility between EHRs and clinical trial descriptions. We propose an innovative privacy-aware data augmentation approach for LLM-based patient-trial matching (LLM-PTM), which balances the benefits of LLMs while ensuring the security …