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213 citation(s) found for "Cui, Ji".

Teleportation: Defense Against Stealing Attacks of Data-Driven Healthcare APIs
Wang, Zhenyi , Shen, Li , Luan, Siyu , Li, Fang , Doretto, Gianfranco , Adjeroh, Donald , Niu, Shuteng , Li, Jianfu , Tao, Cui , Tao, Cui , Niu, Shuteng , Li, Jianfu , Li, Fang , Duan, Tiehang , Shen, Li , Luan, Siyu

IEEE Transactions on Artificial Intelligence | July 29, 2025 | Volume: 7 | Issue: 3 | Pages: 1273-1289

10.1109/tai.2025.3593470 Get It

Synthetic Patient–Physician Conversations Simulated by Large Language Models: A Multi-Dimensional Evaluation
Haider, Syed Ali , Trabilsy, Maissa , Collaço, Bernardo Gabriele , Wood, Nadia , Tao, Cui , Forte, Antonio J. , Gomez-Cabello, Cesar Abraham, Collaco, Bernardo G , Wood, Nadia , Tao, Cui , Forte, Antonio Jorge , Haider, Syed A , Prabha, Srinivasagam , Gomez-Cabello, Cesar A. , Borna, Sahar , Genovese, Ariana , Bagaria, Sanjay P.

Sensors | July 11, 2025 | Volume: 25 | Issue: 14 | Pages: 4305

10.3390/s25144305 | PMID 40732431 Get It

Background: Data accessibility remains a significant barrier in healthcare AI due to privacy constraints and logistical challenges. Synthetic data, which mimics real patient information while remaining both realistic and non-identifiable, offers a promising solution. Large Language Models (LLMs) create new opportunities to generate high-fidelity clinical conversations between patients and physicians. However, the value of this synthetic data depends on careful evaluation of its realism, accuracy, and practical relevance. Objective: To assess the performance of four leading LLMs: ChatGPT 4.5, ChatGPT 4o, Claude 3.7 Sonnet, and Gemini Pro 2.5 in generating synthetic transcripts of patient–physician interactions in plastic surgery scenarios. Methods: Each model generated transcripts for ten plastic surgery scenarios. Transcripts were independently evaluated by three clinically trained raters using a seven-criterion rubric: Medical Accuracy, Realism, Persona Consistency, Fidelity, Empathy, Relevancy, and Usability. Raters were blinded to the model identity to reduce bias. Each was rated on a 5-point Likert scale, yielding 840 total evaluations. Descriptive statistics were computed, and a two-way repeated measures ANOVA was used to test for differences across models and metrics. In addition, transcripts were analyzed using automated linguistic and content-based metrics. Results: All models achieved strong performance, with mean ratings exceeding 4.5 across all criteria. Gemini 2.5 Pro received mean scores (5.00 ± 0.00) in Medical Accuracy, Realism, Persona Consistency, Relevancy, and Usability. Claude 3.7 Sonnet matched the scores in Persona Consistency and Relevancy and led in Empathy (4.96 ± 0.18). ChatGPT 4.5 also achieved perfect scores in Relevancy, with high scores in Empathy (4.93 ± 0.25) and Usability (4.96 ± 0.18). ChatGPT 4o demonstrated consistently strong but slightly lower performance across most dimensions. ANOVA revealed no statistically significant differences across models (F(3, 6) = 0.85, p = 0.52). Automated analysis showed substantial variation in transcript length, style, and content richness: Gemini 2.5 Pro generated the longest and most emotionally expressive dialogues, while ChatGPT 4o produced the shortest and most concise outputs. Conclusions: Leading LLMs can generate medically accurate, emotionally appropriate synthetic dialogues suitable for educational and research use. Despite high performance, demographic homogeneity in generated patients highlights the need for improved diversity and bias mitigation in model outputs. These findings support the cautious, context-aware integration of LLM-generated dialogues into medical training, simulation, and research.
Diet, Microbiome, and Health from Adolescence to Aging: Knowledge Discovery Using Artificial Intelligence and Development of a Chatbot Nutrition Pilot
Bu, Ellen, Li, Jianfu , Tao, Cui

Physiology | July 1, 2025 | Volume: 40 | Issue: S1 | Pages: No page available

10.1152/physiol.2025.40.s1.0782 Get It

Objective: Our project aims to use Artificial Intelligent (AI)-based methods to address overlooked issues in adolescent nutrition/diet and microbiome, and to identify biomarkers and risk factors that affect long-term health outcomes. Hypothesis: Many diseases, including diabetes, dementia, and Alzheimer’s disease, are linked to microbiome dysbiosis and diet-related risk factors, which can develop during adolescence and influence health outcomes throughout adulthood. Methods and Data: We conducted a systematic literature review on observational, clinical, and laboratory data to examine the relationships among diet quality, nutrition component, microbiome profiles, and energy expenditure, and their effects on behavior and health outcomes/diseases across adolescence, adulthood, and elderly populations (65+ yrs). We designed an analysis workflow to systematically extract and categorize data. Using AI-based methods we constructed knowledge models to uncover the relationships among key concepts on nutrition, diet, microbiome, genetic factors, age, sex, socioeconomic factors, and disease outcomes. Using the citations from PubMed literature, the Dietary Guidelines for Americans, and recommendations from authoritative health organizations, we developed a novel ChatGPT-based chatbot platform, Teen Fuel Up, designed to provide teens with real-time assistance to published knowledge about diet and nutrition. Conclusions: AI-based methods are highly effective in knowledge discovery and health promotion, identifying connections between adolescent nutrition, the microbiome, and chronic diseases later in life, as well as their differences using sex as a biological variable to increase scientific understanding of conditions that are specific to women. We will continue developing the ChatGPT-based chatbot to provide real-time cited knowledge that adapts to the evolving dietary needs of individuals. National Institute of Allergy And Infectious Diseases of the National Institutes of Health, grant number R01AI130460 and U24AI171008, and CPRIT award RP220244. This abstract was presented at the American Physiology Summit 2025 and is only available in HTML format. There is no downloadable file or PDF version. The Physiology editorial board was not involved in the peer review process.
The PIEE Cycle: A Structured Framework for Red Teaming Large Language Models in Clinical Decision-Making
Trabilsy, Maissa , Prabha, Srinivasagam , Haider, Syed Ali , Genovese, Ariana , Wood, Nadia , Gopala, Narayanan, Tao, Cui , Forte, Antonio J. , Haider, Syed A , Genovese, Ariana , Wood, Nadia , Tao, Cui , Forte, Antonio Jorge , Prabha, Srinivagasam , Gomez-Cabello, Cesar A. , Borna, Sahar

Bioengineering | July 1, 2025 | Volume: 12 | Issue: 7 | Pages: 706

10.3390/bioengineering12070706 | PMID 40722398 Get It

The increasing integration of large language models (LLMs) into healthcare presents significant opportunities, but also critical risks related to patient safety, accuracy, and ethical alignment. Despite these concerns, no standardized framework exists for systematically evaluating and stress testing LLM behavior in clinical decision-making. The PIEE cycle—Planning and Preparation, Information Gathering and Prompt Generation, Execution, and Evaluation—is a structured red-teaming framework developed specifically to address artificial intelligence (AI) safety risks in healthcare decision-making. PIEE enables clinicians and informatics teams to simulate adversarial prompts, including jailbreaking, social engineering, and distractor attacks, to stress-test language models in real-world clinical scenarios. Model performance is evaluated using specific metrics such as true positive and false positive rates for detecting harmful content, hallucination rates measured through adapted TruthfulQA scoring, safety and reliability assessments, bias detection via adapted BBQ benchmarks, and ethical evaluation using structured Likert-based scoring rubrics. The framework is illustrated using examples from plastic surgery, but is adaptable across specialties, and is intended for use by all medical providers, regardless of their backgrounds or familiarity with artificial intelligence. While the framework is currently conceptual and validation is ongoing, PIEE provides a practical foundation for assessing the clinical reliability and ethical robustness of LLMs in medicine.
Developing a High-Performing Network Computation of Big Bipartite Network Data Toward Alcohol Use Disorder Treatment Referrals
Amith, Muhammad , Kluwe‐Schiavon, Bruno , Choday, Atchyutha Veni, Poonam, Ramya, Ballem, Sai Venkat, Hamilton, Jane , Amith, Muhammad F , Andrews, Sharon, Heads, Angela M. Bowman , Tao, Cui

2025 19th International Conference on Semantic Computing (ICSC) | June 19, 2025 | Volume: No volume available | Issue: No issue available | Pages: 253-258

10.1109/icsc64641.2025.00044 | PMID 40600164 Get It

126 | THE EARLY‐STAGE CLASSIC HODGKIN LYMPHOMA INTERNATIONAL PROGNOSTICATION INDEX (E‐HIPI): AN INDIVIDUALIZED PREDICTION MODEL UTILIZING OBJECTIVE AND CONTINUOUS VARIABLES
Rodday, Angie May, Upshaw, Jenica , Counsell, Nicholas , Cui, Zhongguang, Xiang, Qiaojun , Mwangi, Raphael , Gallamini, Andrea , Hay, Alex E. , Raemaekers, John, Evens, Andrew M. , Rodday, Angie Mae , Maurer, Matthew J. , Rossetti, S., Chang, C., Xiang, Q., Advani, Ranjana H. , André, Marc , Hay, A. E., Hodgson, David , Hoppe, Richard T. , Hutchings, Martin , Johnson, Peter , Mou, Eric , Opat, Stephen , Savage, Kerry J. , Parsons, Susan K. , Radford, John

Hematological Oncology | June 16, 2025 | Volume: 43 | Issue: S3 | Pages: No page available

10.1002/hon.70093_126 Get It

From Data to Decisions: Leveraging Retrieval-Augmented Generation to Balance Citation Bias in Burn Management Literature
Genovese, Ariana , Prabha, Srinivasagam , Haider, Syed Ali , Trabilsy, Maissa , Tao, Cui , Forte, Antonio J. , Haider, Syed A , Tao, Cui , Forte, Antonio Jorge , Genovese, Ariana , Prabha, Srinivagasam , Borna, Sahar , Gomez-Cabello, Cesar A.

European Burn Journal | June 2, 2025 | Volume: 6 | Issue: 2 | Pages: 28

10.3390/ebj6020028 | PMID 40558623 Get It

(1) Burn injuries demand multidisciplinary, evidence-based care, yet the extensive literature complicates timely decision making. Retrieval-augmented generation (RAG) synthesizes research while addressing inaccuracies in pretrained models. However, citation bias in sourcing for RAG often prioritizes highly cited studies, overlooking less-cited but valuable research. This study examines RAG’s performance in burn management, comparing citation levels to enhance evidence synthesis, reduce selection bias, and guide decisions. (2) Two burn management datasets were assembled: 30 highly cited (mean: 303) and 30 less-cited (mean: 21). The Gemini-1.0-Pro-002 RAG model addressed 30 questions, ranging from foundational principles to advanced surgical approaches. Responses were evaluated for accuracy (5-point scale), readability (Flesch–Kincaid metrics), and response time with Wilcoxon rank sum tests (p < 0.05). (3) RAG achieved comparable accuracy (4.6 vs. 4.2, p = 0.49), readability (Flesch Reading Ease: 42.8 vs. 46.5, p = 0.26; Grade Level: 9.9 vs. 9.5, p = 0.29), and response time (2.8 vs. 2.5 s, p = 0.39) for the highly and less-cited datasets. (4) Less-cited research performed similarly to highly cited sources. This equivalence broadens clinicians’ access to novel, diverse insights without sacrificing quality. As plastic surgery evolves, RAG’s inclusive approach fosters innovation, improves patient care, and reduces cognitive burden by integrating underutilized studies. Embracing RAG could propel the field toward dynamic, forward-thinking care.
TDP-43 dysregulation of polyadenylation site selection is a defining feature of RNA misprocessing in amyotrophic lateral sclerosis and frontotemporal dementia
Arnold, Frederick J. , Cui, Ya , Colwin, Michael R., Stockford, Cameron , Jawahar, Vidhya Maheswari, Jansen‐West, Karen , Gulia, Ravinder , Gou, Yunzi , Tam, Oliver H. , Situ, W., Cazarez, Saira L, Zandi, Ali Shahidi , Ehsani, Kean C. K., Howard, Sierra, Prudencio, Mercedes , Petrucelli, Leonard , Spada, Albert R. La , Maheswari Jawahar, Vidhya, Jansen-West, Karen, Prudencio, Mercedes , Michels, Sebastian , Ye, Wenbin , Bharathi, Vidhya , Philippe, Julien, Menon, Sneha, Cazarez, Saira L., Zandi, Aryan, Dickson, Dennis W. , Hammell, Molly , Li, Wei

Journal of Clinical Investigation | June 1, 2025 | Volume: 135 | Issue: 11 | Pages: No page available

10.1172/jci182088 | PMID 40454469 Get It

Nuclear clearance and cytoplasmic aggregation of TAR DNA-binding protein 43 (TDP-43) are observed in many neurodegenerative disorders, including amyotrophic lateral sclerosis (ALS) and frontotemporal dementia (FTD). Although TDP-43 dysregulation of splicing has emerged as a key event in these diseases, TDP-43 can also regulate polyadenylation; yet this has not been adequately studied. Here, we applied the dynamic analysis of polyadenylation from an RNA-Seq (DaPars) tool to ALS/FTD transcriptome datasets and report extensive alternative polyadenylation (APA) upon TDP-43 alteration in ALS/FTD cell models and postmortem ALS/FTD neuronal nuclei. Importantly, many identified APA genes highlight pathways implicated in ALS/FTD pathogenesis. To determine the functional relevance of APA elicited by TDP-43 nuclear depletion, we examined microtubule affinity regulating kinase 3 (MARK3). Nuclear loss of TDP-43 yielded increased expression of MARK3 transcripts with longer 3′ UTRs, corresponding with a change in the subcellular distribution of MARK3 and increased neuronal tau S262 phosphorylation. Our findings define changes in polyadenylation site selection as a previously understudied feature of TDP-43–driven disease pathology in ALS/FTD and highlight a potentially important mechanistic link between TDP-43 dysfunction and tau regulation.
Facial Analysis for Plastic Surgery in the Era of Artificial Intelligence: A Comparative Evaluation of Multimodal Large Language Models
Haider, Syed Ali , Genovese, Ariana , Trabilsy, Maissa , Yang, Jenny Fei, Galvao, Andrea , Tao, Cui , Forte, Antonio J. , Elegbede, Adekunle, Galvao, Andrea , Tao, Cui , Forte, Antonio Jorge , Haider, Syed A , Genovese, Ariana , Prabha, Srinivasagam , Gomez-Cabello, Cesar A. , Borna, Sahar , Elegbede, Adekunle I. , Yang, Jenny Fei

Journal of Clinical Medicine | May 16, 2025 | Volume: 14 | Issue: 10 | Pages: 3484

10.3390/jcm14103484 | PMID 40429479 Get It

Background/Objectives: Facial analysis is critical for preoperative planning in facial plastic surgery, but traditional methods can be time consuming and subjective. This study investigated the potential of Artificial Intelligence (AI) for objective and efficient facial analysis in plastic surgery, with a specific focus on Multimodal Large Language Models (MLLMs). We evaluated their ability to analyze facial skin quality, volume, symmetry, and adherence to aesthetic standards such as neoclassical facial canons and the golden ratio. Methods: We evaluated four MLLMs—ChatGPT-4o, ChatGPT-4, Gemini 1.5 Pro, and Claude 3.5 Sonnet—using two evaluation forms and 15 diverse facial images generated by a Generative Adversarial Network (GAN). The general analysis form evaluated qualitative skin features (texture, type, thickness, wrinkling, photoaging, and overall symmetry). The facial ratios form assessed quantitative structural proportions, including division into equal fifths, adherence to the rule of thirds, and compatibility with the golden ratio. MLLM assessments were compared with evaluations from a plastic surgeon and manual measurements of facial ratios. Results: The MLLMs showed promise in analyzing qualitative features, but they struggled with precise quantitative measurements of facial ratios. Mean accuracy for general analysis were ChatGPT-4o (0.61 ± 0.49), Gemini 1.5 Pro (0.60 ± 0.49), ChatGPT-4 (0.57 ± 0.50), and Claude 3.5 Sonnet (0.52 ± 0.50). In facial ratio assessments, scores were lower, with Gemini 1.5 Pro achieving the highest mean accuracy (0.39 ± 0.49). Inter-rater reliability, based on Cohen’s Kappa values, ranged from poor to high for qualitative assessments (κ > 0.7 for some questions) but was generally poor (near or below zero) for quantitative assessments. Conclusions: Current general purpose MLLMs are not yet ready to replace manual clinical assessments but may assist in general facial feature analysis. These findings are based on testing models not specifically trained for facial analysis and serve to raise awareness among clinicians regarding the current capabilities and inherent limitations of readily available MLLMs in this specialized domain. This limitation may stem from challenges with spatial reasoning and fine-grained detail extraction, which are inherent limitations of current MLLMs. Future research should focus on enhancing the numerical accuracy and reliability of MLLMs for broader application in plastic surgery, potentially through improved training methods and integration with other AI technologies such as specialized computer vision algorithms for precise landmark detection and measurement.