Discovering Risk of Disease with a Learning Classifier System. - John H. Holmes (ICGA, 1997)

The Partners for Child Passenger Safety Project: An Information Infrastructure for Injury Surveillance. - John H. Holmes; Flaura K. Winston; Dennis R. Durbin; Esha Bhatia; Kristy Arbogast; John Werner (AMIA, 1998)

The Study Design Consultant: A CLIPS/CGI-Mediated Approach to Deploying Expert Systems on the World Wide Web. - John H. Holmes; Andrew Batshaw; Scott Jaspan; Gregory Jaspan; Juan Gabriel Ruiz; Harold I. Feldman (AMIA, 1999)

Learning Classifier Systems Applied to Knowledge Discovery in Clinical Research Databases. - John H. Holmes (Learning Classifier Systems, 1999)

Discovery of predictive models in an injury surveillance database: an application of data mining in clinical research. - John H. Holmes; Dennis R. Durbin; Flaura K. Winston (AMIA, 2000)

HEART SENSE: A Game-based Approach to Reducing Delay in Seeking Care for Acute Coronary Syndrome. - John H. Holmes; Barry G. Silverman; Yi Chen; Ransom Weaver; Stephen Kimmel; Charles Branas; Douglas Ivins (AMIA, 2000)

Applying a Learning Classifier System to Mining Explanatory and Predictive Models from a Large Clinical Database. - John H. Holmes (IWLCS, 2000)

A New Bootstrapping Method to Improve Classification Performance in Learning Classifier Systems. - John H. Holmes; Dennis R. Durbin; Flaura K. Winston (PPSN, 2000)

The learning classifier system: an evolutionary computation approach to knowledge discovery in epidemiologic surveillance. - John H. Holmes; Dennis R. Durbin; Flaura K. Winston (Artif. Intell. Medicine, 2000)

Physician and Patient: Communication Modeling in a Medical Environment. - Lewis Hassell; John H. Holmes (AMIA, 2001)

A Representation for Accuracy-Based Assessment of Classifier System Prediction Performance. - John H. Holmes (IWLCS, 2001)

The Effect of Missing Data on Learning Classifier System Learning Rate and Classification Performance. - John H. Holmes; Warren B. Bilker (IWLCS, 2002)

Learning classifier systems: New models, successful applications. - John H. Holmes; Pier Luca Lanzi; Wolfgang Stolzmann; Stewart W. Wilson (Inf. Process. Lett., 2002)

A Guide for Developing Patient Safety Curricula for Undergraduate Medical Education. - John H. Holmes; E. Andrew Balas; Suzanne Austin Boren (J. Am. Medical Informatics Assoc., 2002)

Expert Consensus for Discharge Referral Decisions Using Online Delphi. - Kathryn H. Bowles; John H. Holmes; Mary D. Naylor; Matthew J. Liberatore; Robert L. Nydick (AMIA, 2003)

Developing a Patient Intervention to Reduce Antibiotic Overuse. - John H. Holmes; Joshua P. Metlay; William C. Holmes; Nkuchia M'ikanatha (AMIA, 2003)

Residents' Perspectives on the Use of the Internet to Improve Infectious Disease Reporting. - Nkuchia M'ikanatha; John H. Holmes; Marian Michaels; Robert Aber; Richard Simons; Eugene Lengrich; Allen Kunselman; Brian Southwell; Kirsten Waller; James Rankin; Adrianne Farley; Ebbing Lautenbach (AMIA, 2003)

Computer Games May Be Good For Your Health: Shifting Healthcare Behavior Via Interactive Drama Videogames. - Barry G. Silverman; Joshua Mosley; Michael Johns; Ransom Weaver; Melanie Green; John H. Holmes; Stephen Kimmel; William C. Holmes (AMIA, 2003)

Modeling the Workflow of Prescription Writing. - Lewis Hassell; John H. Holmes (SAC, 2003)

Rule Discovery in Epidemiologic Surveillance Data Using EpiXCS: An Evolutionary Computation Approach. - John H. Holmes; Jennifer A. Sager (AIME, 2005)

Patient Preferences for Behavioral Intervention Format: The Case for (and Against) Computerization. - John H. Holmes; Elizabeth Ellis Ohr; Judy A. Shea (AMIA, 2005)

CiteSpace II: Visualization and Knowledge Discovery in Bibliographic Databases. - Marie Synnestvedt; Chaomei Chen; John H. Holmes (AMIA, 2005)

Visual Exploration of Landmarks and Trends In the Medical Informatics Literature. - Marie Synnestvedt; Chaomei Chen; John H. Holmes (AMIA, 2005)

Detection of Sentinel Predictor-Class Associations with XCS: A Sensitivity Analysis. - John H. Holmes (IWLCS, 2005)

The EpiXCS Workbench: A Tool for Experimentation and Visualization. - John H. Holmes; Jennifer A. Sager (IWLCS, 2005)

Three Methods for Covering Missing Input Data in XCS. - John H. Holmes; Jennifer A. Sager; Warren B. Bilker (IWLCS, 2005)

Knowledge-based data analysis and interpretation. - Blaz Zupan; John H. Holmes; Riccardo Bellazzi (Artif. Intell. Medicine, 2006)

Intelligent data analysis in biomedicine. - John H. Holmes; Niels Peek (J. Biomed. Informatics, 2007)

Learning Classifier Systems in Data Mining: An Introduction. - Larry Bull; Ester Bernadó-Mansilla; John H. Holmes (Learning Classifier Systems in Data Mining, 2008)

AMIA Board White Paper: Core Content for the Subspecialty of Clinical Informatics. - Reed M. Gardner; J. Marc Overhage; Elaine B. Steen; Benson S. Munger; John H. Holmes; Jeffrey J. Williamson; Don E. Detmer (J. Am. Medical Informatics Assoc., 2009)

AMIA Board White Paper: Program Requirements for Fellowship Education in the Subspecialty of Clinical Informatics. - Charles Safran; M. Michael Shabot; Benson S. Munger; John H. Holmes; Elaine B. Steen; John R. Lumpkin; Don E. Detmer (J. Am. Medical Informatics Assoc., 2009)

A system for de-identifying medical message board text. - Adrian Benton; Shawndra Hill; Lyle H. Ungar; Annie Chung; Charles E. Leonard; Cristin Freeman; John H. Holmes (BMC Bioinform., 2011)

Identifying potential adverse effects using the web: A new approach to medical hypothesis generation. - Adrian Benton; Lyle H. Ungar; Shawndra Hill; Sean Hennessy; Jun Mao; Annie Chung; Charles E. Leonard; John H. Holmes (J. Biomed. Informatics, 2011)

HDD Terminology and Information Model Browsing Tools. - Senthil K. Nachimuthu; Susan Matney; Mark G. Weiner; John H. Holmes; Stanley M. Huff; Lee Min Lau (AMIA, 2012)

medpie: an information extraction package for medical message board posts. - Adrian Benton; John H. Holmes; Shawndra Hill; Annie Chung; Lyle H. Ungar (Bioinform., 2012)

An informatics agenda for public health: summarized recommendations from the 2011 AMIA PHI Conference. - Barbara L. Massoudi; Kenneth W. Goodman; Ivan J. Gotham; John H. Holmes; Lisa Lang; Kathleen Miner; David D. Potenziani; Janise Richards; Anne M. Turner; Paul C. Fu Jr. (J. Am. Medical Informatics Assoc., 2012)

Biomedical and Healthcare Analytics on Big Data. - Niels Peek; Jimeng Sun 001; John H. Holmes; Fernando Martín-Sánchez; Riccardo Bellazzi (AMIA, 2013)

Experts Speak: Advice from Key Informants to Small, Rural Hospitals on Implementing the Electronic Health Record System. - Catherine K. Craven; MaryEllen C. Sievert; Lanis L. Hicks; Gregory L. Alexander; Leonard B. Hearne; John H. Holmes (MedInfo, 2013)

A Mobile Health Approach to Tuberculosis Contact Tracing in Resource-Limited Settings. - Yoonhee P. Ha; Ryan Littman-Quinn; Cynthia Antwi; Gorewang Seropola; Rebecca S. Green; Martha A. Tesfalul; Ari Ho-Foster; Anthony A. Luberti; John H. Holmes; Andrew P. Steenhoff; Carrie L. Kovarik (MedInfo, 2013)

Informatics Capacity Building in the Developing World - Working Towards an International Educational Model and Curriculum. - Maurice Mars; John H. Holmes; Janise Richards; Paula Otero; Alvin B. Marcelo; Anthony A. Luberti (MedInfo, 2013)

Big Data Analytics in Biomedicine and Health: Trends and Challenges. - Niels Peek; John H. Holmes; Fernando Martín-Sánchez; Jimeng Sun 001 (MedInfo, 2013)

Use of Patient Generated Data from Social Media and Collaborative Filtering for Preferences Elicitation in Shared Decision Making. - Enea Parimbelli; Silvana Quaglini; Carlo Napolitano; Silvia G. Priori; Riccardo Bellazzi; John H. Holmes (AAAI Fall Symposia, 2014)

Temporal data mining and process mining techniques to identify cardiovascular risk-associated clinical pathways in Type 2 diabetes patients. - Arianna Dagliati; Lucia Sacchi; Carlo Cerra; Paola Leporati; Pasquale De Cata; Luca Chiovato; John H. Holmes; Riccardo Bellazzi (BHI, 2014)

Clinical research data warehouse governance for distributed research networks in the USA: a systematic review of the literature. - John H. Holmes; Thomas E. Elliott; Jeffrey S. Brown; Marsha A. Raebel; Arthur J. Davidson; Andrew F. Nelson; Annie Chung; Pierre La Chance; John F. Steiner (J. Am. Medical Informatics Assoc., 2014)

Methods and applications of evolutionary computation in biomedicine. - John H. Holmes (J. Biomed. Informatics, 2014)

Collaborative Filtering for Estimating Health Related Utilities in Decision Support Systems. - Enea Parimbelli; Silvana Quaglini; Riccardo Bellazzi; John H. Holmes (AIME, 2015)

Using Electronic Case Summaries to Elicit Multi-Disciplinary Expert Knowledge about Referrals to Post-Acute Care. - Sarah J. Ratcliffe; Sheryl Potashnik; Maxim Topaz; John H. Holmes; Nai-Wei Shih; Mary D. Naylor; Kathryn H. Bowles (Appl. Clin. Inform., 2016)

The golden era of biomedical informatics has begun. - Jason H. Moore; John H. Holmes (BioData Min., 2016)

The role of tablets in accessing information throughout undergraduate medical education in Botswana. - Rachel E. Witt; Masego B. Kebaetse; John H. Holmes; Ryan Littman-Quinn; Dineo Ketshogileng; Cynthia Antwi; Carrie L. Kovarik; Oathokwa Nkomazana (Int. J. Medical Informatics, 2016)

Participatory design of ehealth solutions for women from vulnerable populations with perinatal depression. - Mara Gordon; Rebecca Henderson; John H. Holmes; Maria K. Wolters; Ian M. Bennett (J. Am. Medical Informatics Assoc., 2016)

Nurse Generated EHR Data Supports Post-Acute Care Referral Decision Making: Development and Validation of a Two-step Algorithm. - Kathryn H. Bowles; Sarah J. Ratcliffe; Mary D. Naylor; John H. Holmes; Susan K. Keim; Emilia Flores (AMIA, 2017)

A System for Accessible Artificial Intelligence. - Randal S. Olson; Moshe Sipper; William G. La Cava; Sharon Tartarone; Steven Vitale; Weixuan Fu; Patryk Orzechowski; Ryan J. Urbanowicz; John H. Holmes; Jason H. Moore (GPTP, 2017)

Predicting clinical outcomes in patients with traumatic bleeding: A secondary analysis of the CRASH-2 dataset. - Gianluca Roveda; Moses A. Koledoye; Enea Parimbelli; John H. Holmes (RTSI, 2017)

Artificial Intelligence in Medicine AIME 2015. - John H. Holmes; Lucia Sacchi; Riccardo Bellazzi; Niels Peek (Artif. Intell. Medicine, 2017)

A System for Accessible Artificial Intelligence. - Randal S. Olson; Moshe Sipper; William G. La Cava; Sharon Tartarone; Steven Vitale; Weixuan Fu; John H. Holmes; Jason H. Moore (CoRR, 2017)

Temporal electronic phenotyping by mining careflows of breast cancer patients. - Arianna Dagliati; Lucia Sacchi; Alberto Zambelli; Valentina Tibollo; L. Pavesi; John H. Holmes; Riccardo Bellazzi (J. Biomed. Informatics, 2017)

Text mining applied to electronic cardiovascular procedure reports to identify patients with trileaflet aortic stenosis and coronary artery disease. - Aeron M. Small; Daniel H. Kiss; Yevgeny Zlatsin; David L. Birtwell; Heather Williams; Marie A. Guerraty; Yuchi Han; Saif Anwaruddin; John H. Holmes; Julio A. Chirinos; Robert L. Wilensky; Jay Giri; et al. (J. Biomed. Informatics, 2017)

Construction of PEPPER: Prenatal Exposure Pubmed ParsER. - Mary Regina Boland; Aditya Kashyap; Jiadi Xiong; John H. Holmes; Scott Lorch (AMIA, 2018)

Applying Predictive Analytics on Administrative and Perioperative Data to Assess Physician Decision Making and Post-Operative Testing for Acute Myocardial Infarction. - Victor J. Lei; Mark D. Neuman; Mark G. Weiner; ThaiBinh Luong; Alex M. Bain; Daniel E. Polsky; Kevin G. Volpp; John H. Holmes; Amol S. Navathe (AMIA, 2018)

Implementation Science for Global Health Informatics Projects. - Yuri Quintana; Paul G. Biondich; Hamish S. F. Fraser; Andrew S. Kanter; John H. Holmes (AMIA, 2018)

Attribute tracking: strategies towards improved detection and characterization of complex associations. - Ryan J. Urbanowicz; Christopher Lo; John H. Holmes; Jason H. Moore (GECCO, 2018)

Preface: AIME 2017. - Annette ten Teije; Christian Popow; John H. Holmes; Lucia Sacchi (Artif. Intell. Medicine, 2018)

Development and validation of the PEPPER framework (Prenatal Exposure PubMed ParsER) with applications to food additives. - Mary Regina Boland; Aditya Kashyap; Jiadi Xiong; John H. Holmes; Scott Lorch (J. Am. Medical Informatics Assoc., 2018)

Inferring Temporal Phenotypes with Topological Data Analysis and Pseudo Time-Series. - Arianna Dagliati; Nophar Geifman; Niels Peek; John H. Holmes; Lucia Sacchi; Seyed Erfan Sajjadi; Allan Tucker (AIME, 2019)

Agent-Based Models and Spatial Enablement: A Simulation Tool to Improve Health and Wellbeing in Big Cities. - Daniele Pala; John H. Holmes; José Pagán; Enea Parimbelli; Marica Teresa Rocca; Vittorio Casella; Riccardo Bellazzi (AIME, 2019)

Model Performance Metrics in Assessing the Value of Adding Intraoperative Data for Death Prediction: Applications to Noncardiac Surgery. - Victor J. Lei; Edward H. Kennedy; ThaiBinh Luong; Xinwei Chen; Daniel E. Polsky; Kevin G. Volpp; Mark D. Neuman; John H. Holmes; Lee A. Fleisher; Amol S. Navathe (MedInfo, 2019)

Text Mining and Machine Learning for Precision Medicine. - Graciela Gonzalez 001; Zhiyong Lu; Robert Leaman; Davy Weissenbacher; Mary Regina Boland; Yong Chen 016; Jingcheng Du; Juliane Fluck; Casey S. Greene; John H. Holmes; Aditya Kashyap; Rikke Linnemann Nielsen; et al. (PSB, 2019)

Harnessing Electronic Health Records to Study Emerging Environmental Disasters: A Proof of Concept with PFAS. - Mary Regina Boland; Lena M. Davidson; Silvia P. Canelón; Jessica R. Meeker; Trevor M. Penning; John H. Holmes; Jason H. Moore (AMIA, 2020)

Explainable Artificial Intelligence (XAI): Current Approaches and Paths to the Future. - John H. Holmes; Riccardo Bellazzi; Carlo Combi; Jason H. Moore; Niels Peek (AMIA, 2020)

Building Trajectories Over Topology with TDA-PTS: An Application in Modelling Temporal Phenotypes of Disease. - Seyed Erfan Sajjadi; Barbara Draghi; Lucia Sacchi; Arianna Dagliati; John H. Holmes; Allan Tucker (PKDD/ECML Workshops, 2020)

Mining post-surgical care processes in breast cancer patients. - Lorenzo Chiudinelli; Arianna Dagliati; Valentina Tibollo; Sara Albasini; Nophar Geifman; Niels Peek; John H. Holmes; Fabio Corsi; Riccardo Bellazzi; Lucia Sacchi (Artif. Intell. Medicine, 2020)

Using topological data analysis and pseudo time series to infer temporal phenotypes from electronic health records. - Arianna Dagliati; Nophar Geifman; Niels Peek; John H. Holmes; Lucia Sacchi; Riccardo Bellazzi; Seyed Erfan Sajjadi; Allan Tucker (Artif. Intell. Medicine, 2020)

Ideas for how informaticians can get involved with COVID-19 research. - Jason H. Moore; Ian Barnett; Mary Regina Boland; Yong Chen 016; George Demiris; Graciela Gonzalez-Hernandez; Daniel S. Herman; Blanca E. Himes; Rebecca A. Hubbard; Dokyoon Kim; Jeffrey S. Morris; Danielle L. Mowery; et al. (BioData Min., 2020)

Learning from electronic health records across multiple sites: A communication-efficient and privacy-preserving distributed algorithm. - Rui Duan 004; Mary Regina Boland; Zixuan Liu; Yue Liu; Howard H. Chang; Hua Xu 001; Haitao Chu; Christopher H. Schmid; Christopher B. Forrest; John H. Holmes; Martijn J. Schuemie; Jesse A. Berlin; et al. (J. Am. Medical Informatics Assoc., 2020)

Learning from local to global: An efficient distributed algorithm for modeling time-to-event data. - Rui Duan 004; Chongliang Luo; Martijn J. Schuemie; Jiayi Tong; C. Jason Liang; Howard H. Chang; Mary Regina Boland; Jiang Bian 001; Hua Xu 001; John H. Holmes; Christopher B. Forrest; Sally C. Morton; et al. (J. Am. Medical Informatics Assoc., 2020)

Temporal Phenotypic Pathways of Post-Acute Sequelae of SARS-CoV-2 by an International Consortium for Clinical Characterization of COVID-19 (4CE). - Shawn N. Murphy; Hossein Estiri; Arianna Dagliati; Riccardo Bellazzi; John H. Holmes (AMIA, 2021)

A Reproducible ETL Approach for Window-based Prediction of Acute Kidney Injury in Critical Care Unit and Some Preliminary Results with Support Vector Machines. - Isabela A. Chiorean; Beatrice Amico; Carlo Combi; John H. Holmes (BIBM, 2021)

Leveraging data and information systems on the sustainable development goals. - David Novillo-Ortiz; Yuri Quintana; John H. Holmes; Damian Borbolla; Heimar de Fátima Marin (Int. J. Medical Informatics, 2021)

Harnessing electronic health records to study emerging environmental disasters: a proof of concept with perfluoroalkyl substances (PFAS). - Mary Regina Boland; Lena M. Davidson; Silvia P. Canelón; Jessica R. Meeker; Trevor M. Penning; John H. Holmes; Jason H. Moore (npj Digit. Medicine, 2021)

Distinguishing Admissions Specifically for COVID-19 from Incidental SARS-CoV-2 Admissions. - Jeffrey G. Klann; Zachary H. Strasser; Chris J. Kennedy; Meghan Hutch; John H. Holmes; Gabriel A. Brat; Shawn N. Murphy (AMIA, 2022)

Acute Kidney Injury Prediction with Gradient Boosting Decision Trees enriched with Temporal Features. - Stela Golovco; Matteo Mantovani 001; Carlo Combi; John H. Holmes (ICHI, 2022)

A manifesto on explainability for artificial intelligence in medicine. - Carlo Combi; Beatrice Amico; Riccardo Bellazzi; Andreas Holzinger; Jason H. Moore; Marinka Zitnik; John H. Holmes (Artif. Intell. Medicine, 2022)

SurvMaximin: Robust federated approach to transporting survival risk prediction models. - Xuan Wang; Harrison G. Zhang; Xin Xiong; Chuan Hong; Griffin M. Weber; Gabriel A. Brat; Clara-Lea Bonzel; Yuan Luo 001; Rui Duan 004; Nathan P. Palmer; Meghan R. Hutch; Alba Gutiérrez-Sacristán; et al. (J. Biomed. Informatics, 2022)

International electronic health record-derived post-acute sequelae profiles of COVID-19 patients. - Harrison G. Zhang; Arianna Dagliati; Zahra Shakeri Hossein Abad; Xin Xiong; Clara-Lea Bonzel; Zongqi Xia; Bryce W. Q. Tan; Paul Avillach; Gabriel A. Brat; Chuan Hong; Michele Morris; Shyam Visweswaran; et al. (npj Digit. Medicine, 2022)

Resuming HealthCare Informatics Research after CoViD-19: the HealthCare System Perspective. - Carlo Combi; Julio C. Facelli; Peter Haddawy; John H. Holmes; Sabine Koch; Hongfang Liu; Jochen Meyer 001; Mor Peleg; Giuseppe Pozzi; Gregor Stiglic; Pierangelo Veltri; Christopher C. Yang (ICHI, 2023)

Global Health Informatics: the state of research and lessons learned. - Yuri Quintana; Theresa A. Cullen; John H. Holmes; Ashish Joshi; David Novillo-Ortiz; Siaw-Teng Liaw (J. Am. Medical Informatics Assoc., 2023)

Informative missingness: What can we learn from patterns in missing laboratory data in the electronic health record? - Amelia L. M. Tan; Emily J. Getzen; Meghan R. Hutch; Zachary H. Strasser; Alba Gutiérrez-Sacristán; Trang T. Le; Arianna Dagliati; Michele Morris; David A. Hanauer; Bertrand Moal; Clara-Lea Bonzel; William Yuan; et al. (J. Biomed. Informatics, 2023)

The IHI Rochester Report 2022 on Healthcare Informatics Research: Resuming After the CoViD-19. - Carlo Combi; Julio C. Facelli; Peter Haddawy; John H. Holmes; Sabine Koch; Hongfang Liu; Jochen Meyer 001; Mor Peleg; Giuseppe Pozzi; Gregor Stiglic; Pierangelo Veltri; Christopher C. Yang (J. Heal. Informatics Res., 2023)