Jonathan H. Chen

Publication Activity (10 Years)

Years Active: 2005-2024
Publications (10 Years): 57

Top Topics

Dynamically Evolving

Electronic Medical Record

Decision Support

Partially Observed

Top Venues

J. Am. Medical Informatics Assoc.

Publications

Alison Callahan, Duncan C. McElfresh, Juan M. Banda, Gabrielle Bunney, Danton Char, Jonathan H. Chen, Conor K. Corbin, Debadutta Dash, Norman L. Downing, Sneha S. Jain, Nikesh Kotecha, Jonathan Masterson, Michelle M. Mello, Keith E. Morse, Srikar Nallan, Abby Pandya, Anurang Revri, Aditya Sharma, Christopher D. Sharp, Rahul Thapa, Michael Wornow, Alaa Youssef, Michael A. Pfeffer, Nigam H. Shah
Standing on FURM ground - A framework for evaluating Fair, Useful, and Reliable AI Models in healthcare systems. CoRR (2024)
Yixing Jiang, Jeremy Irvin, Ji Hun Wang, Muhammad Ahmed Chaudhry, Jonathan H. Chen, Andrew Y. Ng
Many-Shot In-Context Learning in Multimodal Foundation Models. CoRR (2024)
Scott L. Fleming, Alejandro Lozano, William J. Haberkorn, Jenelle A. Jindal, Eduardo Pontes Reis, Rahul Thapa, Louis Blankemeier, Julian Z. Genkins, Ethan Steinberg, Ashwin Nayak, Birju S. Patel, Chia-Chun Chiang, Alison Callahan, Zepeng Huo, Sergios Gatidis, Scott J. Adams, Oluseyi Fayanju, Shreya J. Shah, Thomas Savage, Ethan Goh, Akshay S. Chaudhari, Nima Aghaeepour, Christopher D. Sharp, Michael A. Pfeffer, Percy Liang, Jonathan H. Chen, Keith E. Morse, Emma P. Brunskill, Jason A. Fries, Nigam H. Shah
MedAlign: A Clinician-Generated Dataset for Instruction Following with Electronic Medical Records. AAAI (2024)
Thomas Savage, Ashwin Nayak, Robert Gallo, Ekanath Rangan, Jonathan H. Chen
Diagnostic reasoning prompts reveal the potential for large language model interpretability in medicine. npj Digit. Medicine 7 (1) (2024)
Sajjad Fouladvand, Federico Reyes Gomez, Hamed Nilforoshan, Matthew Schwede, Morteza Noshad, Olivia Jee, Jiaxuan You, Rok Sosic, Jure Leskovec, Jonathan H. Chen
Graph-based clinical recommender: Predicting specialists procedure orders using graph representation learning. J. Biomed. Informatics 143 (2023)
Thomas Savage, Ashwin Nayak, Robert Gallo, Ekanath Rangan, Jonathan H. Chen
Diagnostic Reasoning Prompts Reveal the Potential for Large Language Model Interpretability in Medicine. CoRR (2023)
Akshay Swaminathan, Iván López, Rafael Antonio Garcia Mar, Tyler Heist, Tom McClintock, Kaitlin Caoili, Madeline Grace, Matthew Rubashkin, Michael N. Boggs, Jonathan H. Chen, Olivier Gevaert, David Mou, Matthew K. Nock
Natural language processing system for rapid detection and intervention of mental health crisis chat messages. npj Digit. Medicine 6 (2023)
Akshay Swaminathan, Iván López, William Wang, Ujwal Srivastava, Edward Tran, Aarohi Bhargava-Shah, Janet Y. Wu, Alexander L. Ren, Kaitlin Caoili, Brandon Bui, Layth Alkhani, Susan Lee, Nathan Mohit, Noel Seo, Nicholas Macedo, Winson Cheng, Charles Liu, Reena Thomas, Jonathan H. Chen, Olivier Gevaert
Selective prediction for extracting unstructured clinical data. J. Am. Medical Informatics Assoc. 31 (1) (2023)
Debadutta Dash, Rahul Thapa, Juan M. Banda, Akshay Swaminathan, Morgan Cheatham, Mehr Kashyap, Nikesh Kotecha, Jonathan H. Chen, Saurabh Gombar, Lance Downing, Rachel Pedreira, Ethan Goh, Angel Arnaout, Garret Kenn Morris, Honor Magon, Matthew P. Lungren, Eric Horvitz, Nigam H. Shah
Evaluation of GPT-3.5 and GPT-4 for supporting real-world information needs in healthcare delivery. CoRR (2023)
Scott L. Fleming, Alejandro Lozano, William J. Haberkorn, Jenelle A. Jindal, Eduardo P. Reis, Rahul Thapa, Louis Blankemeier, Julian Z. Genkins, Ethan Steinberg, Ashwin Nayak, Birju S. Patel, Chia-Chun Chiang, Alison Callahan, Zepeng Huo, Sergios Gatidis, Scott J. Adams, Oluseyi Fayanju, Shreya J. Shah, Thomas Savage, Ethan Goh, Akshay S. Chaudhari, Nima Aghaeepour, Christopher D. Sharp, Michael A. Pfeffer, Percy Liang, Jonathan H. Chen, Keith E. Morse, Emma P. Brunskill, Jason A. Fries, Nigam H. Shah
MedAlign: A Clinician-Generated Dataset for Instruction Following with Electronic Medical Records. CoRR (2023)
Conor K. Corbin, Rob Maclay, Aakash Acharya, Sreedevi Mony, Soumya Punnathanam, Rahul Thapa, Nikesh Kotecha, Nigam H. Shah, Jonathan H. Chen
DEPLOYR: a technical framework for deploying custom real-time machine learning models into the electronic medical record. J. Am. Medical Informatics Assoc. 30 (9) (2023)
Conor K. Corbin, Rob Maclay, Aakash Acharya, Sreedevi Mony, Soumya Punnathanam, Rahul Thapa, Nikesh Kotecha, Nigam H. Shah, Jonathan H. Chen
DEPLOYR: A technical framework for deploying custom real-time machine learning models into the electronic medical record. CoRR (2023)
Nandita Bhaskhar, Wui Ip, Jonathan H. Chen, Daniel L. Rubin
Clinical outcome prediction using observational supervision with electronic health records and audit logs. J. Biomed. Informatics 147 (2023)
Conor K. Corbin, Michael Baiocchi, Jonathan H. Chen
Avoiding Biased Clinical Machine Learning Model Performance Estimates in the Presence of Label Selection. CoRR (2022)
Vy T. Ho, Rachael C. Aikens, Geoffrey J. Tso, Paul A. Heidenreich, Christopher Sharp, Steven M. Asch, Jonathan H. Chen, Neil K. Shah
Interruptive Electronic Alerts for Choosing Wisely Recommendations: A Cluster Randomized Controlled Trial. J. Am. Medical Informatics Assoc. 29 (11) (2022)
Conor K. Corbin, Michael Baiocchi, Jonathan H. Chen
How to Avoid Incorrect Clinical Machine Learning Model Performance Estimates When Class Labels Are Only Partially Observed. AMIA (2022)
David Ouyang, John Theurer, Nathan R. Stein, J. Weston Hughes, Pierre Elias, Bryan He, Neal Yuan, Grant Duffy, Roopinder K. Sandhu, Joseph Ebinger, Patrick Botting, Melvin Jujjavarapu, Brian Claggett, James E. Tooley, Tim Poterucha, Jonathan H. Chen, Michael Nurok, Marco Perez, Adler J. Perotte, James Y. Zou, Nancy R. Cook, Sumeet S. Chugh, Susan Cheng, Christine M. Albert
Electrocardiographic Deep Learning for Predicting Post-Procedural Mortality. CoRR (2022)
Christian Rose, Robert Thombley, Morteza Noshad, Yun Lu, Heather A Clancy, David Schlessinger, Ron C. Li, Vincent X. Liu, Jonathan H. Chen, Julia Adler-Milstein
Team is brain: leveraging EHR audit log data for new insights into acute care processes. J. Am. Medical Informatics Assoc. 30 (1) (2022)
Christian Rose, Robert Thombley, Morteza Noshad, Ron Li, Wendy Lu, Heather A Clancy, David Schlessinger, Vincent X. Liu, Jonathan H. Chen, Julia Adler-Milstein
Leveraging EHR Audit Log Data to Unlock New Insights into Care Processes and Outcomes. AMIA (2022)
Morteza Noshad, Christian Rose, Jonathan H. Chen
Signal from the noise: A mixed graphical and quantitative process mining approach to evaluate care pathways applied to emergency stroke care. J. Biomed. Informatics 127 (2022)
Minh Nguyen, Conor K. Corbin, Tiffany Eulalio, Nicolai P. Ostberg, Gautam Machiraju, Ben J. Marafino, Michael Baiocchi, Christian Rose, Jonathan H. Chen
Developing machine learning models to personalize care levels among emergency room patients for hospital admission. J. Am. Medical Informatics Assoc. 28 (11) (2021)
Jared A. Shenson, Ivana Jankovic, Hyo Jung Hong, Benjamin Weia, Lee White, Jonathan H. Chen, Matthew Eisenberg
Engaging Housestaff as Informatics Collaborators: Educational and Operational Opportunities. Appl. Clin. Inform. 12 (5) (2021)
Grace Y. E. Kim, Morteza Noshad, Henning Stehr, Rebecca Rojansky, Dita Gratzinger, Jean Oak, Rondeep Brar, David Iberri, Christina Kong, James L. Zehnder, Jonathan H. Chen
Machine Learning Predictability of Clinical Next Generation Sequencing for Hematologic Malignancies to Guide High-Value Precision Medicine. AMIA (2021)
Minh Nguyen, Nicolai P. Ostberg, Conor K. Corbin, Tiffany Eulalio, Gautam Machiraju, Ben J. Marafino, Michael Baiocchi, Christian Rose, Jonathan H. Chen
Predicting Level of Care for Emergency Hospital Admissions to Optimize Triage. AMIA (2021)
Christian Rose, Morteza Noshad, Jonathan H. Chen
Signal from the Noise: Quantitative Measures of Conformity and Variability From Process Mining Maps. AMIA (2021)
Wui Ip, Priya Prahalad, Jonathan Palma, Jonathan H. Chen
A Data-Driven Algorithm to Recommend Initial Clinical Workup for Outpatient Specialty Referral. AMIA (2021)
Andre Kumar, Rachael C. Aikens, Jason Horn, Lisa Shieh, Mark A. Musen, Michael Baiocchi, Russ B. Altman, Mary K. Goldstein, Steven M. Asch, Jonathan H. Chen
Randomized user testing of recommender system clinical decision support. AMIA (2021)
Rachael C. Aikens, Joseph Rigdon, Justin Lee, Michael T. M. Baiocchi, Andrew B. Goldstone, Peter Chiu, Y. Joseph Woo, Jonathan H. Chen
stratamatch: Prognostic Score Stratification Using a Pilot Design. R J. 13 (1) (2021)
Conor K. Corbin, Arhana Chattopadhyah, Lillian Sung, Amy Chang, Stan Deresinski, Jonathan H. Chen
A Retrospective Analysis of Machine Learning Driven Antibiotic Selection in the Emergency Department. AMIA (2021)
Olga Afanasiev, Joanne Berghout, Steven E. Brenner, Martha L. Bulyk, Dana C. Crawford, Jonathan H. Chen, Roxana Daneshjou, Lukasz Kidzinski
Computational Challenges and Artificial Intelligence in Precision Medicine. PSB (2021)
Minh Nguyen, Ivana Jankovic, Laurynas Kalesinskas, Michael T. M. Baiocchi, Jonathan H. Chen
Machine learning for initial insulin estimation in hospitalized patients. J. Am. Medical Informatics Assoc. 28 (10) (2021)
Seyedeh Neelufar Payrovnaziri, Zhaoyi Chen, Pablo Rengifo-Moreno, Tim Miller, Jiang Bian, Jonathan H. Chen, Xiuwen Liu, Zhe He
Explainable artificial intelligence models using real-world electronic health record data: a systematic scoping review. J. Am. Medical Informatics Assoc. 27 (7) (2020)
Andre Kumar, Rachael C. Aikens, Jason Hom, Lisa Shieh, Jonathan Chiang, David Morales, Divya Saini, Mark A. Musen, Michael T. M. Baiocchi, Russ B. Altman, Mary K. Goldstein, Steven M. Asch, Jonathan H. Chen
OrderRex clinical user testing: a randomized trial of recommender system decision support on simulated cases. J. Am. Medical Informatics Assoc. 27 (12) (2020)
Morteza Noshad, Christian Rose, Robert Thombley, Jonathan Chiang, Conor K. Corbin, Minh Nguyen, Vincent X. Liu, Julia Adler-Milstein, Jonathan H. Chen
Context is Key: Using the Audit Log to Capture Contextual Factors Affecting Stroke Care Processes. AMIA (2020)
Roxana Daneshjou, Lukasz Kidzinski, Olga Afanasiev, Jonathan H. Chen
Session Introduction. PSB (2020)
Morteza Noshad, Ivana Jankovic, Jonathan H. Chen
Clinical Recommender System: Predicting Medical Specialty Diagnostic Choices with Neural Network Ensembles. CoRR (2020)
Ron C. Li, Naveen Muthu, Margaret Smith, Swaminathan Kandaswamy, Jonathan H. Chen
It's not just a last mile problem: Partnering with process improvement and human factors to integrate machine learning into healthcare delivery. AMIA (2020)
Yiye Zhang, Jonathan H. Chen, Adam Wright, Jessica S. Ancker, Marc Tobias
Data-Driven Clinical Decision Support for Computerized Physician Order Entry: Development, Evaluation, and Implementation. AMIA (2020)
Amirata Ghorbani, David Ouyang, Abubakar Abid, Bryan He, Jonathan H. Chen, Robert A. Harrington, David H. Liang, Euan A. Ashley, James Y. Zou
Deep learning interpretation of echocardiograms. npj Digit. Medicine 3 (2020)
Ron C. Li, Imon Banerjee, Daniel Rubin, Jonathan H. Chen
Detecting unanticipated actions downstream from clinical decision support: a data mining approach. AMIA (2019)
Song Xu, Jason Horn, Santhosh Balasubramanian, Lee F. Schroeder, Nader Najafi, Shivaal Roy, Jonathan H. Chen
Prevalence and Predictability of Low Yield Inpatient Laboratory Diagnostic Tests. AMIA (2019)
Alison E. Fohner, John D. Greene, Brian L. Lawson, Jonathan H. Chen, Patricia Kipnis, Gabriel J. Escobar, Vincent X. Liu
Assessing clinical heterogeneity in sepsis through treatment patterns and machine learning. J. Am. Medical Informatics Assoc. 26 (12) (2019)
Santhosh Balasubramanian, Jason Hom, Shivaal Roy, Jonathan H. Chen
Machine Learning Predictable Inpatient Lab Results for High-Value Care. AMIA (2018)
Ron C. Li, Jason K. Wang, Christopher Sharp, Jonathan H. Chen
A "bottom up" data driven approach to curating electronic order sets. AMIA (2018)
Ron C. Li, Trit Garg, Tony Cun, Lisa Shieh, Gomathi Krishnan, Daniel Z. Fang, Jonathan H. Chen
Impact of problem-based charting on the utilization and accuracy of the electronic problem list. J. Am. Medical Informatics Assoc. 25 (5) (2018)
Jason K. Wang, Jason Hom, Santhosh Balasubramanian, Alejandro Schuler, Nigam H. Shah, Mary K. Goldstein, Michael T. M. Baiocchi, Jonathan H. Chen
An evaluation of clinical order patterns machine-learned from clinician cohorts stratified by patient mortality outcomes. J. Biomed. Informatics 86 (2018)
Tiffany I. Leung, Mary K. Goldstein, Mark A. Musen, Ruth Cronkite, Jonathan H. Chen, Assaf Gottlieb, Eran Leitersdorf
The New HIT: Human Health Information Technology. MedInfo (2017)
Jason K. Wang, Alejandro Schuler, Nigam Shah, Jonathan H. Chen
Impact of Clinician Experience on Machine Learned Clinical Order Patterns. AMIA (2017)
Jonathan H. Chen, Mary K. Goldstein, Steven M. Asch, Lester W. Mackey, Russ B. Altman
Predicting inpatient clinical order patterns with probabilistic topic models vs conventional order sets. J. Am. Medical Informatics Assoc. 24 (3) (2017)
Ron C. Li, Lisa Shieh, Gomathi Krishnan, Daniel Z. Fang, Jonathan H. Chen
Problem based charting: a method for improving problem list utilization and completeness. CRI (2017)
Muthuraman Alagappan, Mary K. Goldstein, Steven M. Asch, Russ B. Altman, Jonathan H. Chen
Decaying Relevance of Clinical Data when Predicting Future Decisions. CRI (2017)
Jonathan H. Chen, Muthuraman Alagappan, Mary K. Goldstein, Steven M. Asch, Russ B. Altman
Decaying relevance of clinical data towards future decisions in data-driven inpatient clinical order sets. Int. J. Medical Informatics 102 (2017)
Lana X. Garmire, Stephen V. Gliske, Quynh C. Nguyen, Jonathan H. Chen, Shamim Nemati, John D. Van Horn, Jason H. Moore, Carol Shreffler, Michelle Dunn
The Training of Next Generation Data Scientists in Biomedicine. PSB (2017)
Jonathan H. Chen, Mary K. Goldstein, Steven M. Asch, Russ B. Altman
Usability of an Automated Recommender System for Clinical Order Entry. AMIA (2016)
Jonathan H. Chen, Mary K. Goldstein, Steven M. Asch, Lester W. Mackey, Russ B. Altman
Automated Organization of Electronic Health Record Data by Probabilistic Topic Modeling to Inform Clinical Decision Making. CRI (2016)
Jonathan H. Chen, Mary K. Goldstein, Steven M. Asch, Russ B. Altman
Dynamically Evolving Clinical Practices and Implications for Predicting Medical Decisions. PSB (2016)
Jonathan H. Chen, Tanya Podchiyska, Russ B. Altman
OrderRex: clinical order decision support and outcome predictions by data-mining electronic medical records. J. Am. Medical Informatics Assoc. 23 (2) (2016)
Jonathan H. Chen, Russ B. Altman
"Doctors who ordered this also ordered..." Automated physician order recommendations and outcome predictions by data-mining electronic medical records. AMIA (2014)
Matthew A. Kayala, Chloé-Agathe Azencott, Jonathan H. Chen, Pierre Baldi
Learning to Predict Chemical Reactions. J. Chem. Inf. Model. 51 (9) (2011)
Jonathan H. Chen, Pierre Baldi
No Electron Left Behind: A Rule-Based Expert System To Predict Chemical Reactions and Reaction Mechanisms. J. Chem. Inf. Model. 49 (9) (2009)
Jonathan H. Chen, Erik Linstead, Sanjay Joshua Swamidass, Dennis Wang, Pierre Baldi
ChemDB update - full-text search and virtual chemical space. Bioinform. 23 (17) (2007)
Chloé-Agathe Azencott, Alexandre Ksikes, S. Joshua Swamidass, Jonathan H. Chen, Liva Ralaivola, Pierre Baldi
One- to Four-Dimensional Kernels for Virtual Screening and the Prediction of Physical, Chemical, and Biological Properties. J. Chem. Inf. Model. 47 (3) (2007)
Samuel A. Danziger, Sanjay Joshua Swamidass, Jue Zeng, Lawrence R. Dearth, Qiang Lu, Jonathan H. Chen, Jianlin Cheng, Vinh P. Hoang, Hiroto Saigo, Ray Luo, Pierre Baldi, Rainer K. Brachmann, Richard H. Lathrop
Functional Census of Mutation Sequence Spaces: The Example of p53 Cancer Rescue Mutants. IEEE ACM Trans. Comput. Biol. Bioinform. 3 (2) (2006)
Jonathan H. Chen, Sanjay Joshua Swamidass, Yimeng Dou, Jocelyne Bruand, Pierre Baldi
ChemDB: a public database of small molecules and related chemoinformatics resources. Bioinform. 21 (22) (2005)
Sanjay Joshua Swamidass, Jonathan H. Chen, Jocelyne Bruand, Peter Phung, Liva Ralaivola, Pierre Baldi
Kernels for small molecules and the prediction of mutagenicity, toxicity and anti-cancer activity. ISMB (Supplement of Bioinformatics) (2005)