Jiyoun Song

dblp:263/0553 · DBLP profile ↗
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14ranked-venue papers
4as first author
14since 2021 · last 2026
0000-0003-0362-0670ORCID · corroborated

Domains — the database's venue-derived domains; a paper can count in several

Applied, interdisciplinary, general and emerging computing · 14 · 4 first-author · 14 since 2021
YearPublicationVenuePosition
2026 Automating infection indicator extraction in home healthcare through instruction-tuned large language models
abstract
OBJECTIVE: Home healthcare (HHC) clinical notes contain critical infection indicators that clinicians need in structured "indicator + context" pairs. Data sparsity and limited computing resources hinder automated extraction in decentralized HHC settings. This study developed and evaluated a resource-efficient pipeline using instruction-tuned, moderate-sized large language models (LLMs) to address these barriers. To address the data sparsity challenge, we also assessed the impact of a targeted LLM-based data augmentation strategy. MATERIALS AND METHODS: An expert-defined schema of 26 infection indicator categories was developed. We expanded the training set using a 3-stage workflow: targeted annotation, context mutation, and synthetic generation. We adapted 2 moderate-sized models (Gemma-12B and Qwen-14B) via Quantized Low-Rank Adaptation (QLoRA). We compared them to a larger-sized, prompted model and a smaller-sized, fully fine-tuned LLM. We evaluated all models on a held-out test set using partial micro-averaged F1 score, output reliability metrics, and qualitative error analysis. RESULTS: Instruction-tuned moderate-sized LLMs outperformed both baselines. The top-performing model, augmented Gemma-12B, achieved a partial micro-averaged F1 score of 0.879. LLM-based data augmentation enhanced overall performance, improving the identification of rare indicators and the interpretation of negations. The best model maintained a partial F1 score above 0.750 across all indicator categories. It also showed high format adherence, confirming its ability to generate reliable structured outputs. DISCUSSION: Instruction-tuning moderate-sized LLMs with QLoRA and targeted data augmentation enables high-accuracy extraction of infection indicators from HHC notes. CONCLUSION: This resource-efficient pipeline provides a scalable foundation for automated infection surveillance in healthcare settings with limited resources.
Zidu Xu, Jiyoun Song, Shuang Zhou 0012, Danielle Scharp, Mollie Hobensack, Jingjing Shang, Maxim Topaz
J. Am. Medical Informatics Assoc.2
2024 Exploring home healthcare clinicians' needs for using clinical decision support systems for early risk warning
abstract
OBJECTIVES: To explore home healthcare (HHC) clinicians' needs for Clinical Decision Support Systems (CDSS) information delivery for early risk warning within HHC workflows. METHODS: Guided by the CDS "Five-Rights" framework, we conducted semi-structured interviews with multidisciplinary HHC clinicians from April 2023 to August 2023. We used deductive and inductive content analysis to investigate informants' responses regarding CDSS information delivery. RESULTS: Interviews with thirteen HHC clinicians yielded 16 codes mapping to the CDS "Five-Rights" framework (right information, right person, right format, right channel, right time) and 11 codes for unintended consequences and training needs. Clinicians favored risk levels displayed in color-coded horizontal bars, concrete risk indicators in bullet points, and actionable instructions in the existing EHR system. They preferred non-intrusive risk alerts requiring mandatory confirmation. Clinicians anticipated risk information updates aligned with patient's condition severity and their visit pace. Additionally, they requested training to understand the CDSS's underlying logic, and raised concerns about information accuracy and data privacy. DISCUSSION: While recognizing CDSS's value in enhancing early risk warning, clinicians highlighted concerns about increased workload, alert fatigue, and CDSS misuse. The top risk factors identified by machine learning algorithms, especially text features, can be ambiguous due to a lack of context. Future research should ensure that CDSS outputs align with clinical evidence and are explainable. CONCLUSION: This study identified HHC clinicians' expectations, preferences, adaptations, and unintended uses of CDSS for early risk warning. Our findings endorse operationalizing the CDS "Five-Rights" framework to optimize CDSS information delivery and integration into HHC workflows.
Zidu Xu, Lauren Evans, Jiyoun Song, Sena Chae, Anahita Davoudi, Kathryn H. Bowles, Margaret V. McDonald, Maxim Topaz
J. Am. Medical Informatics Assoc.3
2023 Predicting emergency department visits and hospitalizations for patients with heart failure in home healthcare using a time series risk model
abstract
OBJECTIVES: Little is known about proactive risk assessment concerning emergency department (ED) visits and hospitalizations in patients with heart failure (HF) who receive home healthcare (HHC) services. This study developed a time series risk model for predicting ED visits and hospitalizations in patients with HF using longitudinal electronic health record data. We also explored which data sources yield the best-performing models over various time windows. MATERIALS AND METHODS: We used data collected from 9362 patients from a large HHC agency. We iteratively developed risk models using both structured (eg, standard assessment tools, vital signs, visit characteristics) and unstructured data (eg, clinical notes). Seven specific sets of variables included: (1) the Outcome and Assessment Information Set, (2) vital signs, (3) visit characteristics, (4) rule-based natural language processing-derived variables, (5) term frequency-inverse document frequency variables, (6) Bio-Clinical Bidirectional Encoder Representations from Transformers variables, and (7) topic modeling. Risk models were developed for 18 time windows (1-15, 30, 45, and 60 days) before an ED visit or hospitalization. Risk prediction performances were compared using recall, precision, accuracy, F1, and area under the receiver operating curve (AUC). RESULTS: The best-performing model was built using a combination of all 7 sets of variables and the time window of 4 days before an ED visit or hospitalization (AUC = 0.89 and F1 = 0.69). DISCUSSION AND CONCLUSION: This prediction model suggests that HHC clinicians can identify patients with HF at risk for visiting the ED or hospitalization within 4 days before the event, allowing for earlier targeted interventions.
Sena Chae, Anahita Davoudi, Jiyoun Song, Lauren Evans, Mollie Hobensack, Kathryn H. Bowles, Margaret V. McDonald, Yolanda Barrón, Sarah Collins Rossetti, Kenrick Cato, Sridevi Sridharan, Maxim Topaz
J. Am. Medical Informatics Assoc.3
2023 Uncovering hidden trends: identifying time trajectories in risk factors documented in clinical notes and predicting hospitalizations and emergency department visits during home health care
abstract
OBJECTIVE: This study aimed to identify temporal risk factor patterns documented in home health care (HHC) clinical notes and examine their association with hospitalizations or emergency department (ED) visits. MATERIALS AND METHODS: Data for 73 350 episodes of care from one large HHC organization were analyzed using dynamic time warping and hierarchical clustering analysis to identify the temporal patterns of risk factors documented in clinical notes. The Omaha System nursing terminology represented risk factors. First, clinical characteristics were compared between clusters. Next, multivariate logistic regression was used to examine the association between clusters and risk for hospitalizations or ED visits. Omaha System domains corresponding to risk factors were analyzed and described in each cluster. RESULTS: Six temporal clusters emerged, showing different patterns in how risk factors were documented over time. Patients with a steep increase in documented risk factors over time had a 3 times higher likelihood of hospitalization or ED visit than patients with no documented risk factors. Most risk factors belonged to the physiological domain, and only a few were in the environmental domain. DISCUSSION: An analysis of risk factor trajectories reflects a patient's evolving health status during a HHC episode. Using standardized nursing terminology, this study provided new insights into the complex temporal dynamics of HHC, which may lead to improved patient outcomes through better treatment and management plans. CONCLUSION: Incorporating temporal patterns in documented risk factors and their clusters into early warning systems may activate interventions to prevent hospitalizations or ED visits in HHC.
Jiyoun Song, Se Hee Min, Sena Chae, Kathryn H. Bowles, Margaret V. McDonald, Mollie Hobensack, Yolanda Barrón, Sridevi Sridharan, Anahita Davoudi, Sungho Oh, Lauren Evans, Maxim Topaz
J. Am. Medical Informatics Assoc.1
2022 Heart Failure Patient Characteristics and Symptoms Documented in Home Health Care Clinical Notes are Associated with Emergency Department Visits and Hospitalizations
Sena Chae, Jiyoun Song, Yolanda Barrón, Kathryn H. Bowles, Margaret V. McDonald, Sarah Collins Rossetti, Kenrick Cato, Mollie Hobensack, Lauren Evans, Maxim Topaz
AMIA2
2022 Capturing Concerns about Patient Deterioration in Narrative Documentation in Home Healthcare
Mollie Hobensack, Jiyoun Song, Sena Chae, Erin E. Kennedy, Maryam Zolnoori, Kathryn H. Bowles, Margaret V. McDonald, Lauren Evans, Maxim Topaz
AMIA2
2022 A Full and Approximated Model for Predicting Infection-Related Adverse Events in a Home Health Care Population
Jingjing Shang, Carlin Brickner, Jiyoun Song, David Russell 0003, Margaret V. McDonald, Dawn Dowding
AMIA3
2022 Is Auto-generated Transcript of Patient-Nurse Communication Ready to Use for Identifying the Risk for Hospitalizations or Emergency Department Visits in Home Health Care? A Natural Language Processing Pilot Study
Jiyoun Song, Maryam Zolnoori, Danielle Scharp, Sasha Vergez, Margaret V. McDonald, Sridevi Sridharan, Zoran Kostic, Maxim Topaz
AMIA1
2022 Documentation of hospitalization risk factors in electronic health records (EHRs): a qualitative study with home healthcare clinicians
abstract
OBJECTIVE: To identify the risk factors home healthcare (HHC) clinicians associate with patient deterioration and understand how clinicians respond to and document these risk factors. METHODS: We interviewed multidisciplinary HHC clinicians from January to March of 2021. Risk factors were mapped to standardized terminologies (eg, Omaha System). We used directed content analysis to identify risk factors for deterioration. We used inductive thematic analysis to understand HHC clinicians' response to risk factors and documentation of risk factors. RESULTS: Fifteen HHC clinicians identified a total of 79 risk factors that were mapped to standardized terminologies. HHC clinicians most frequently responded to risk factors by communicating with the prescribing provider (86.7% of clinicians) or following up with patients and caregivers (86.7%). HHC clinicians stated that a majority of risk factors can be found in clinical notes (ie, care coordination (53.3%) or visit (46.7%)). DISCUSSION: Clinicians acknowledged that social factors play a role in deterioration risk; but these factors are infrequently studied in HHC. While a majority of risk factors were represented in the Omaha System, additional terminologies are needed to comprehensively capture risk. Since most risk factors are documented in clinical notes, methods such as natural language processing are needed to extract them. CONCLUSION: This study engaged clinicians to understand risk for deterioration during HHC. The results of our study support the development of an early warning system by providing a comprehensive list of risk factors grounded in clinician expertize and mapped to standardized terminologies.
Mollie Hobensack, Marietta Ojo, Yolanda Barrón, Kathryn H. Bowles, Kenrick Cato, Sena Chae, Erin E. Kennedy, Margaret V. McDonald, Sarah Collins Rossetti, Jiyoun Song, Sridevi Sridharan, Maxim Topaz
J. Am. Medical Informatics Assoc.10
2022 Clinical notes: An untapped opportunity for improving risk prediction for hospitalization and emergency department visit during home health care
Jiyoun Song, Mollie Hobensack, Kathryn H. Bowles, Margaret V. McDonald, Kenrick Cato, Sarah Collins Rossetti, Sena Chae, Erin E. Kennedy, Yolanda Barrón, Sridevi Sridharan, Maxim Topaz
J. Biomed. Informatics1
2021 Identifying Narrative Documentation of Clinician Concern about Patient Deterioration in Home Healthcare: A Text Mining Study
Mollie Hobensack, Jiyoun Song, Maryam Zolnoori, Marietta Ojo, Kathryn H. Bowles, Sena Chae, Erin E. Kennedy, Margaret V. McDonald, Maxim Topaz
AMIA2
2021 Natural Language Processing Algorithm to Detect Terms Representing Risk of Hospitalization or Emergency Department Visits during Home Health Care
Jiyoun Song, Marietta Ojo, Margaret V. McDonald, Kenrick Cato, Sarah Collins Rossetti, Yolanda Barrón, Sridevi Sridharan, Sena Chae, Mollie Hobensack, Kathryn H. Bowles, Maxim Topaz
AMIA1
2021 "A catalyst for action": Factors for implementing clinical risk prediction models of infection in home care settings
abstract
OBJECTIVE: The study sought to outline how a clinical risk prediction model for identifying patients at risk of infection is perceived by home care nurses, and to inform how the output of the model could be integrated into a clinical workflow. MATERIALS AND METHODS: This was a qualitative study using semi-structured interviews with 50 home care nurses. Interviews explored nurses' perceptions of clinical risk prediction models, their experiences using them in practice, and what elements are important for the implementation of a clinical risk prediction model focusing on infection. Interviews were audio-taped and transcribed, with data evaluated using thematic analysis. RESULTS: Two themes were derived from the data: (1) informing nursing practice, which outlined how a clinical risk prediction model could inform nurse clinical judgment and be used to modify their care plan interventions, and (2) operationalizing the score, which summarized how the clinical risk prediction model could be incorporated in home care settings. DISCUSSION: The findings indicate that home care nurses would find a clinical risk prediction model for infection useful, as long as it provided both context around the reasons why a patient was deemed to be at high risk and provided some guidance for action. CONCLUSIONS: It is important to evaluate the potential feasibility and acceptability of a clinical risk prediction model, to inform the intervention design and implementation strategy. The results of this study can provide guidance for the development of the clinical risk prediction tool as an intervention for integration in home care settings.
Dawn Dowding, David Russell 0003, Margaret V. McDonald, Marygrace Trifilio, Jiyoun Song, Carlin Brickner, Jingjing Shang
J. Am. Medical Informatics Assoc.5
2021 Predicting pressure injury using nursing assessment phenotypes and machine learning methods
abstract
OBJECTIVE: Pressure injuries are common and serious complications for hospitalized patients. The pressure injury rate is an important patient safety metric and an indicator of the quality of nursing care. Timely and accurate prediction of pressure injury risk can significantly facilitate early prevention and treatment and avoid adverse outcomes. While many pressure injury risk assessment tools exist, most were developed before there was access to large clinical datasets and advanced statistical methods, limiting their accuracy. In this paper, we describe the development of machine learning-based predictive models, using phenotypes derived from nurse-entered direct patient assessment data. METHODS: We utilized rich electronic health record data, including full assessment records entered by nurses, from 5 different hospitals affiliated with a large integrated healthcare organization to develop machine learning-based prediction models for pressure injury. Five-fold cross-validation was conducted to evaluate model performance. RESULTS: Two pressure injury phenotypes were defined for model development: nonhospital acquired pressure injury (N = 4398) and hospital acquired pressure injury (N = 1767), representing 2 distinct clinical scenarios. A total of 28 clinical features were extracted and multiple machine learning predictive models were developed for both pressure injury phenotypes. The random forest model performed best and achieved an AUC of 0.92 and 0.94 in 2 test sets, respectively. The Glasgow coma scale, a nurse-entered level of consciousness measurement, was the most important feature for both groups. CONCLUSIONS: This model accurately predicts pressure injury development and, if validated externally, may be helpful in widespread pressure injury prevention.
Wenyu Song, Min-Jeoung Kang, Linying Zhang, Wonkyung Jung, Jiyoun Song, David W. Bates, Patricia C. Dykes
J. Am. Medical Informatics Assoc.5