Works by Payne, Philip R. O.

Results: 54

Master of Digital Health Degree.

Published in:

2025

By:

Embí, Peter J.;
Melton, Genevieve B.;
Payne, Philip R. O.

Publication type:

Letter

PathFinder: a novel graph transformer model to infer multi-cell intra- and inter-cellular signaling pathways and communications.

Published in:

Frontiers in Cellular Neuroscience, 2024, p. 1, doi. 10.3389/fncel.2024.1369242

By:

Jiarui Feng;
Haoran Song;
Province, Michael;
Guangfu Li;
Payne, Philip R. O.;
Yixin Chen;
Fuhai Li

Publication type:

Article

Validation of an LC-MS based approach for profiling histones in chronic lymphocytic leukemia.

Published in:

Proteomics, 2009, v. 9, n. 5, p. 1197, doi. 10.1002/pmic.200800333

By:

Su, Xiaodan;
Lucas, David M.;
Zhang, Liwen;
Xu, Hua;
Zabrouskov, Vlad;
Davis, Melanie E.;
Knapp, Amy R.;
Young, Donn C.;
Payne, Philip R. O.;
Parthun, Mark R.;
Marcucci, Guido;
Grever, Michael R.;
Byrd, John C.;
Freitas, Michael A.

Publication type:

Article

Synergy from gene expression and network mining (SynGeNet) method predicts synergistic drug combinations for diverse melanoma genomic subtypes.

Published in:

NPJ Systems Biology & Applications, 2019, v. 5, n. 1, p. N.PAG, doi. 10.1038/s41540-019-0085-4

By:

Regan-Fendt, Kelly E.;
Xu, Jielin;
DiVincenzo, Mallory;
Duggan, Megan C.;
Shakya, Reena;
Na, Ryejung;
Carson III, William E.;
Payne, Philip R. O.;
Li, Fuhai

Publication type:

Article

A protocol to evaluate RNA sequencing normalization methods.

Published in:

BMC Bioinformatics, 2019, v. 20, p. 1, doi. 10.1186/s12859-019-3247-x

By:

Abrams, Zachary B.;
Johnson, Travis S.;
Huang, Kun;
Payne, Philip R. O.;
Coombes, Kevin

Publication type:

Article

Rethinking the role and impact of health information technology: informatics as an interventional discipline.

Published in:

2016

By:

Payne, Philip R. O.;
Lussier, Yves;
Foraker, Randi E.;
Embi, Peter J.

Publication type:

journal article

CytoGPS: a web-enabled karyotype analysis tool for cytogenetics.

Published in:

Bioinformatics, 2019, v. 35, n. 24, p. 5365, doi. 10.1093/bioinformatics/btz520

By:

Abrams, Zachary B;
Zhang, Lin;
Abruzzo, Lynne V;
Heerema, Nyla A;
Li, Suli;
Dillon, Tom;
Rodriguez, Ricky;
Coombes, Kevin R;
Payne, Philip R O

Publication type:

Article

Toward an artificial intelligence code of conduct for health and healthcare: implications for the biomedical informatics community.

Published in:

Journal of the American Medical Informatics Association, 2025, v. 32, n. 2, p. 408, doi. 10.1093/jamia/ocae306

By:

Payne, Philip R O;
Johnson, Kevin B;
Maddox, Thomas M;
Embi, Peter J;
Mandl, Kenneth D;
McGraw, Deven;
Saria, Suchi;
Adams, Laura

Publication type:

Article

Cumulus: a federated electronic health record-based learning system powered by Fast Healthcare Interoperability Resources and artificial intelligence.

Published in:

Journal of the American Medical Informatics Association, 2024, v. 31, n. 8, p. 1638, doi. 10.1093/jamia/ocae130

By:

McMurry, Andrew J;
Gottlieb, Daniel I;
Miller, Timothy A;
Jones, James R;
Atreja, Ashish;
Crago, Jennifer;
Desai, Pankaja M;
Dixon, Brian E;
Garber, Matthew;
Ignatov, Vladimir;
Kirchner, Lyndsey A;
Payne, Philip R O;
Saldanha, Anil J;
Shankar, Prabhu R V;
Solad, Yauheni V;
Sprouse, Elizabeth A;
Terry, Michael;
Wilcox, Adam B;
Mandl, Kenneth D

Publication type:

Article

Real world performance of the 21st Century Cures Act population-level application programming interface.

Published in:

Journal of the American Medical Informatics Association, 2024, v. 31, n. 5, p. 1144, doi. 10.1093/jamia/ocae040

By:

Jones, James R;
Gottlieb, Daniel;
McMurry, Andrew J;
Atreja, Ashish;
Desai, Pankaja M;
Dixon, Brian E;
Payne, Philip R O;
Saldanha, Anil J;
Shankar, Prabhu;
Solad, Yauheni;
Wilcox, Adam B;
Ali, Momeena S;
Kang, Eugene;
Martin, Andrew M;
Sprouse, Elizabeth;
Taylor, David E;
Terry, Michael;
Ignatov, Vladimir;
Mandl, Kenneth D

Publication type:

Article

Electronic health record data quality assessment and tools: a systematic review.

Published in:

Journal of the American Medical Informatics Association, 2023, v. 30, n. 10, p. 1730, doi. 10.1093/jamia/ocad120

By:

Lewis, Abigail E;
Weiskopf, Nicole;
Abrams, Zachary B;
Foraker, Randi;
Lai, Albert M;
Payne, Philip R O;
Gupta, Aditi

Publication type:

Article

Demonstrating an approach for evaluating synthetic geospatial and temporal epidemiologic data utility: results from analyzing >1.8 million SARS-CoV-2 tests in the United States National COVID Cohort Collaborative (N3C).

Published in:

Journal of the American Medical Informatics Association, 2022, v. 29, n. 8, p. 1350, doi. 10.1093/jamia/ocac045

By:

Thomas, Jason A;
Foraker, Randi E;
Zamstein, Noa;
Morrow, Jon D;
Payne, Philip R O;
Wilcox, Adam B;
Consortium, the N3C

Publication type:

Article

Respiratory support status from EHR data for adult population: classification, heuristics, and usage in predictive modeling.

Published in:

Journal of the American Medical Informatics Association, 2022, v. 29, n. 5, p. 813, doi. 10.1093/jamia/ocac005

By:

Yu, Sean C;
Hofford, Mackenzie R;
Lai, Albert M;
Kollef, Marin H;
Payne, Philip R O;
Michelson, Andrew P

Publication type:

Article

Ten principles for data sharing and commercialization.

Published in:

2021

By:

Cole, Curtis L;
Sengupta, Soumitra;
Collins), Sarah Rossetti (née;
Vawdrey, David K;
Halaas, Michael;
Maddox, Thomas M;
Gordon, Geoff;
Dave, Trushna;
Payne, Philip R O;
Williams, Andrew E;
Estrin, Deborah;
Rossetti Née Collins, Sarah

Publication type:

journal article

The National COVID Cohort Collaborative (N3C): Rationale, design, infrastructure, and deployment.

Published in:

2021

By:

Haendel, Melissa A;
Chute, Christopher G;
Bennett, Tellen D;
Eichmann, David A;
Guinney, Justin;
Kibbe, Warren A;
Payne, Philip R O;
Pfaff, Emily R;
Robinson, Peter N;
Saltz, Joel H;
Spratt, Heidi;
Suver, Christine;
Wilbanks, John;
Wilcox, Adam B;
Williams, Andrew E;
Wu, Chunlei;
Blacketer, Clair;
Bradford, Robert L;
Cimino, James J;
Clark, Marshall

Publication type:

journal article

Use of electronic health records to support a public health response to the COVID-19 pandemic in the United States: a perspective from 15 academic medical centers.

Published in:

2021

By:

Madhavan, Subha;
Bastarache, Lisa;
Brown, Jeffrey S;
Butte, Atul J;
Dorr, David A;
Embi, Peter J;
Friedman, Charles P;
Johnson, Kevin B;
Moore, Jason H;
Kohane, Isaac S;
Payne, Philip R O;
Tenenbaum, Jessica D;
Weiner, Mark G;
Wilcox, Adam B;
Ohno-Machado, Lucila

Publication type:

journal article

When past is not a prologue: Adapting informatics practice during a pandemic.

Published in:

2020

By:

Kannampallil, Thomas G;
Foraker, Randi E;
Lai, Albert M;
Woeltje, Keith F;
Payne, Philip R O

Publication type:

journal article

Language matters: precision health as a cross-cutting care, research and policy agenda.

Published in:

2020

By:

Payne, Philip R O;
Detmer, Don E

Publication type:

journal article

Using REDCap and Apple ResearchKit to integrate patient questionnaires and clinical decision support into the electronic health record to improve sexually transmitted infection testing in the emergency department.

Published in:

2020

By:

Ahmad, Fahd A;
Payne, Philip R O;
Lackey, Ian;
Komeshak, Rachel;
Kenney, Kenneth;
Magnusen, Brianna;
Metts, Christopher;
Bailey, Thomas

Publication type:

journal article

Examining heterogeneity in dementia using data-driven unsupervised clustering of cognitive profiles.

Published in:

PLoS ONE, 2024, v. 19, n. 11, p. 1, doi. 10.1371/journal.pone.0313425

By:

Kumar, Sayantan;
Oh, Inez Y.;
Schindler, Suzanne E.;
Ghoshal, Nupur;
Abrams, Zachary;
Payne, Philip R. O.

Publication type:

Article

MD-Miner: a network-based approach for personalized drug repositioning.

Published in:

BMC Systems Biology, 2017, v. 11, p. 5, doi. 10.1186/s12918-017-0462-9

By:

Haoyang Wu;
Miller, Elise;
Wijegunawardana, Denethi;
Regan, Kelly;
Payne, Philip R. O.;
Fuhai Li

Publication type:

Article

Community-level determinants of obesity: harnessing the power of electronic health records for retrospective data analysis.

Published in:

BMC Medical Informatics & Decision Making, 2014, v. 14, n. 1, p. 1, doi. 10.1186/1472-6947-14-36

By:

Roth, Caryn;
Foraker, Randi E.;
Payne, Philip R. O.;
Embi, Peter J.

Publication type:

Article

Community-level determinants of obesity: harnessing the power of electronic health records for retrospective data analysis.

Published in:

2014

By:

Roth, Caryn;
Foraker, Randi E;
Payne, Philip Ro;
Embi, Peter J;
Payne, Philip R O

Publication type:

journal article

People, organizational, and leadership factors impacting informatics support for clinical and translational research.

Published in:

BMC Medical Informatics & Decision Making, 2013, v. 13, n. 1, p. 1, doi. 10.1186/1472-6947-13-20

By:

Payne, Philip R. O.;
Pressler, Taylor R.;
Sarkar, Indra Neil;
Lussier, Yves

Publication type:

Article

Multi-dimensional discovery of biomarker and phenotype complexes.

Published in:

BMC Bioinformatics, 2010, v. 11, p. 1

By:

Payne, Philip R. O.;
Huang, Kun;
Keen-Circle, Kristin;
Kundu, Abhisek;
Zhang, Jie;
Borlawsky, Tara B.

Publication type:

Article

Chapter 1: Biomedical Knowledge Integration.

Published in:

PLoS Computational Biology, 2012, v. 8, n. 12, p. 1, doi. 10.1371/journal.pcbi.1002826

By:

Payne, Philip R. O.

Publication type:

Article

Learning from data: A recurring feature on the science and practice of data‐driven learning health systems.

Published in:

Learning Health Systems, 2022, v. 6, n. 1, p. 1, doi. 10.1002/lrh2.10302

By:

Embi, Peter J.;
Payne, Philip R. O.;
Friedman, Charles P.

Publication type:

Article

Transmission dynamics: Data sharing in the COVID‐19 era.

Published in:

Learning Health Systems, 2021, v. 5, n. 1, p. 1, doi. 10.1002/lrh2.10235

By:

Foraker, Randi E.;
Lai, Albert M.;
Kannampallil, Thomas G.;
Woeltje, Keith F.;
Trolard, Anne M.;
Payne, Philip R. O.

Publication type:

Article

Interpreting the Mechanism of Synergism for Drug Combinations Using Attention-Based Hierarchical Graph Pooling.

Published in:

Cancers, 2023, v. 15, n. 17, p. 4210, doi. 10.3390/cancers15174210

By:

Dong, Zehao;
Zhang, Heming;
Chen, Yixin;
Payne, Philip R. O.;
Li, Fuhai

Publication type:

Article

Questions for Artificial Intelligence in Health Care.

Published in:

2019

By:

Maddox, Thomas M.;
Rumsfeld, John S.;
Payne, Philip R. O.

Publication type:

journal article

Evaluating dimensionality reduction of comorbidities for predictive modeling in individuals with neurofibromatosis type 1.

Published in:

JAMIA Open, 2025, v. 8, n. 1, p. 1, doi. 10.1093/jamiaopen/ooae157

By:

Gupta, Aditi;
Hillis, Ethan;
Oh, Inez Y;
Morris, Stephanie M;
Abrams, Zach;
Foraker, Randi E;
Gutmann, David H;
Payne, Philip R O

Publication type:

Article

HiMAL: Multimodal Hierarchical Multi-task Auxiliary Learning framework for predicting Alzheimer's disease progression.

Published in:

JAMIA Open, 2024, v. 7, n. 3, p. 1, doi. 10.1093/jamiaopen/ooae087

By:

Kumar, Sayantan;
Yu, Sean C;
Michelson, Andrew;
Kannampallil, Thomas;
Payne, Philip R O

Publication type:

Article

Leveraging GPT-4 for identifying cancer phenotypes in electronic health records: a performance comparison between GPT-4, GPT-3.5-turbo, Flan-T5, Llama-3-8B, and spaCy's rule-based and machine learning-based methods.

Published in:

JAMIA Open, 2024, v. 7, n. 3, p. 1, doi. 10.1093/jamiaopen/ooae060

By:

Bhattarai, Kriti;
Oh, Inez Y;
Sierra, Jonathan Moran;
Tang, Jonathan;
Payne, Philip R O;
Abrams, Zach;
Lai, Albert M

Publication type:

Article

Extraction of clinical phenotypes for Alzheimer's disease dementia from clinical notes using natural language processing.

Published in:

JAMIA Open, 2023, v. 6, n. 1, p. 1, doi. 10.1093/jamiaopen/ooad014

By:

Oh, Inez Y.;
Schindler, Suzanne E.;
Ghoshal, Nupur;
Lai, Albert M.;
Payne, Philip R. O.;
Gupta, Aditi

Publication type:

Article

OpenSep: a generalizable open source pipeline for SOFA score calculation and Sepsis-3 classification.

Published in:

JAMIA Open, 2022, v. 5, n. 4, p. 1, doi. 10.1093/jamiaopen/ooac105

By:

Hofford, Mackenzie R.;
Yu, Sean C.;
Johnson, Alistair E. W.;
Lai, Albert M.;
Payne, Philip R. O.;
Michelson, Andrew P.

Publication type:

Article

Comparison of early warning scores for sepsis early identification and prediction in the general ward setting.

Published in:

JAMIA Open, 2021, v. 4, n. 3, p. 1, doi. 10.1093/jamiaopen/ooab062

By:

Yu, Sean C.;
Shivakumar, Nirmala;
Betthauser, Kevin;
Gupta, Aditi;
Lai, Albert M.;
Kollef, Marin H.;
Payne, Philip R. O.;
Michelson, Andrew P.

Publication type:

Article

Machine learning for modeling the progression of Alzheimer disease dementia using clinical data: a systematic literature review.

Published in:

JAMIA Open, 2021, v. 4, n. 3, p. 1, doi. 10.1093/jamiaopen/ooab052

By:

Kumar, Sayantan;
Oh, Inez;
Schindler, Suzanne;
Lai, Albert M.;
Payne, Philip R. O.;
Gupta, Aditi

Publication type:

Article

Applying knowledge-anchored hypothesis discovery methods to advance clinical and translational research: the OAMiner project.

Published in:

Journal of the American Medical Informatics Association, 2012, v. 19, n. 6, p. 1110, doi. 10.1136/amiajnl-2011-000736

By:

Payne, Philip R. O.;
Jackson, Rebecca D.;
Best, Thomas M.;
Borlawsky, Tara B.;
Lai, Albert M.;
James, Stephen;
Gurcan, Metin N.

Publication type:

Article

The TOKEn project: knowledge synthesis for in silico science.

Published in:

2011

By:

Payne, Philip R O;
Borlawsky, Tara B;
Lele, Omkar;
James, Stephen;
Greaves, Andrew W

Publication type:

journal article

The TOKEn project: knowledge synthesis for in silico science.

Published in:

Journal of the American Medical Informatics Association, 2011, v. 18, p. i125, doi. 10.1136/amiajnl-2011-000434

By:

Payne, Philip R. O.;
Borlawsky, Tara B.;
Lele, Omkar;
James, Stephen;
Greaves, Andrew W.

Publication type:

Article

Clinical research informatics: challenges, opportunities and definition for an emerging domain.

Published in:

2009

By:

Embi PJ;
Payne PR;
Embi, Peter J;
Payne, Philip R O

Publication type:

journal article

Clinical Research Informatics: Challenges., Opportunities and Definition for an Emerging Domain.

Published in:

Journal of the American Medical Informatics Association, 2009, v. 16, n. 3, p. 316, doi. 10.1197/jamia.M3005

By:

EMBI, PETER J.;
PAYNE, PHILIP R. O.

Publication type:

Article

Quantifying Visual Similarity in Clinical Iconic Graphics.

Published in:

Journal of the American Medical Informatics Association, 2005, v. 12, n. 3, p. 338, doi. 10.1197/jamia.M1628

By:

Payne, Philip R. O.;
Starren, Justin B.

Publication type:

Article

'RE:fine drugs': an interactive dashboard to access drug repurposing opportunities.

Published in:

Database: The Journal of Biological Databases & Curation, 2016, v. 2016, p. 1, doi. 10.1093/database/baw083

By:

Moosavinasa, Soheil;
Patterson, Jeremy;
Strouse, Robert;
Rastegar-Mojarad, Majid;
Regan, Kelly;
Payne, Philip R. O.;
Huang, Yungui;
Lin, Simon M.

Publication type:

Article

Impact of risk‐based sexually transmitted infection screening in the emergency department.

Published in:

Academic Emergency Medicine, 2022, v. 29, n. 7, p. 879, doi. 10.1111/acem.14465

By:

Ahmad, Fahd A.;
Fischer, Kayleigh;
Gu, Hongjie;
Bailey, Thomas C.;
Jeffe, Donna B.;
Carpenter, Christopher R.;
Payne, Philip R. O.

Publication type:

Article

Health-care hit or miss?

Published in:

2011

By:

HERSH, WILLIAM;
JACKO, JULIE A.;
GREENES, ROBERT;
TAN, JOSEPH;
JANIES, DANIEL;
EMBI, PETER J.;
PAYNE, PHILIP R. O.

Publication type:

Opinion

EHR-based Visualization Tool: Adoption Rates, Satisfaction, and Patient Outcomes.

Published in:

eGEMS (Generating Evidence & Methods to Improve Patient Outcomes), 2015, v. 3, n. 2, p. 1, doi. 10.13063/2327-9214.1159

By:

Foraker, Randi E.;
Kite, Bobbie;
Kelley, Marjorie M.;
Lai, Albert M.;
Roth, Caryn;
Lopetegui, Marcelo A.;
Shoben, Abigail B.;
Langan, Michael;
Rutledge, Nicole L.;
Payne, Philip R. O.

Publication type:

Article

Sustainability Through Technology Licensing and Commercialization: Lessons Learned from the TRIAD Project.

Published in:

eGEMS (Generating Evidence & Methods to Improve Patient Outcomes), 2014, v. 2, n. 2, p. 1, doi. 10.13063/2327-9214.1075

By:

Payne, Philip R. O.

Publication type:

Article

Factors Associated With Variability in the Performance of a Proprietary Sepsis Prediction Model Across 9 Networked Hospitals in the US.

Published in:

JAMA Internal Medicine, 2023, v. 183, n. 6, p. 611, doi. 10.1001/jamainternmed.2022.7182

By:

Lyons, Patrick G.;
Hofford, Mackenzie R.;
Yu, Sean C.;
Michelson, Andrew P.;
Payne, Philip R. O.;
Hough, Catherine L.;
Singh, Karandeep

Publication type:

Article

Estrogen hormone is an essential sex factor inhibiting inflammation and immune response in COVID-19.

Published in:

Scientific Reports, 2022, v. 12, n. 1, p. 1, doi. 10.1038/s41598-022-13585-4

By:

Li, Fuhai;
Boon, Adrianus C. M.;
Michelson, Andrew P.;
Foraker, Randi E.;
Zhan, Ming;
Payne, Philip R. O.

Publication type:

Article