Shawn N. Murphy

ORCID

Publication Activity (10 Years)

Years Active: 1997-2023
Publications (10 Years): 106

Top Venues

AMIA

J. Am. Medical Informatics Assoc.

CRI

npj Digit. Medicine

Publications

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, Lorenzo Chiudinelli, Priam Das, Harrison G. Zhang, Bruce J. Aronow, Paul Avillach, Gabriel A. Brat, Tianxi Cai, Chuan Hong, William G. La Cava, He Hooi Will Loh, Yuan Luo, Shawn N. Murphy, Kee Yuan Hgiam, Gilbert S. Omenn, Lav P. Patel, Malarkodi J. Samayamuthu, Emily R. Shriver, Zahra Shakeri Hossein Abad, Byorn W. L. Tan, Shyam Visweswaran, Xuan Wang, Griffin M. Weber, Zongqi Xia, Bertrand Verdy, Qi Long, Danielle L. Mowery, John H. Holmes
Informative missingness: What can we learn from patterns in missing laboratory data in the electronic health record? J. Biomed. Informatics 139 (2023)
Jonas Hügel, Ulrich Sax, Shawn N. Murphy, Hossein Estiri
tSPM+; a high-performance algorithm for mining transitive sequential patterns from clinical data. CoRR (2023)
Liqin Wang, Heekyong Park, Sachin Vallamkonda, Diane L. Seger, Suzanne V. Blackley, Pamela M. Garabedian, Foster R. Goss, Kimberly G. Blumenthal, David W. Bates, Shawn N. Murphy, Li Zhou
Dynamic reaction picklist for improving allergy reaction documentation: A usability study. Int. J. Medical Informatics 170 (2023)
Jeffrey G. Klann, Darren W. Henderson, Michele Morris, Hossein Estiri, Griffin M. Weber, Shyam Visweswaran, Shawn N. Murphy
A broadly applicable approach to enrich electronic-health-record cohorts by identifying patients with complete data: a multisite evaluation. J. Am. Medical Informatics Assoc. 30 (12) (2023)
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, Lav P. Patel, Alba Gutiérrez-Sacristán, David A. Hanauer, John H. Holmes, Malarkodi Jebathilagam Samayamuthu, Florence T. Bourgeois, Sehi L'Yi, Sarah E. Maidlow, Bertrand Moal, Shawn N. Murphy, Zachary H. Strasser, Antoine Neuraz, Kee Yuan Ngiam, Ne-Hooi Will Loh, Gilbert S. Omenn, Andrea Prunotto, Lauren A. Dalvin, Jeffrey G. Klann, Petra Schubert, Fernando J. Sanz Vidorreta, Vincent Benoit, Guillaume Verdy, Ramakanth Kavuluru, Hossein Estiri, Yuan Luo, Alberto Malovini, Valentina Tibollo, Riccardo Bellazzi, Kelly Cho, Yuk-Lam Ho, Amelia L. M. Tan, Byorn W. L. Tan, Nils Gehlenborg, Sara Lozano-Zahonero, Vianney Jouhet, Luca Chiovato, Bruce J. Aronow, Emma M. S. Toh, Wei Gen Scott Wong, Sara Pizzimenti, Kavishwar B. Wagholikar, Mauro Bucalo, Tianxi Cai, Andrew M. South, Isaac S. Kohane, Griffin M. Weber
International electronic health record-derived post-acute sequelae profiles of COVID-19 patients. npj Digit. Medicine 5 (2022)
Jeffrey G. Klann, Zachary H. Strasser, Chris J. Kennedy, Meghan Hutch, John H. Holmes, Gabriel A. Brat, Shawn N. Murphy
Distinguishing Admissions Specifically for COVID-19 from Incidental SARS-CoV-2 Admissions. AMIA (2022)
Arianna Dagliati, Zachary H. Strasser, Rebecca Mesa, Zahra Shakeri, Alaleh Azhir, Riccardo Bellazzi, Shawn N. Murphy, Hossein Estiri
A Deductive Data-Driven Pipeline Powered by MLHO for Post-Acute Sequelae of COVID-19 (PASC) Phenotyping. AMIA (2022)
Genevieve Melton-Meaux, Leslie Lenert, Michael J. Becich, Shawn N. Murphy, Thomas R. Campion Jr.
Research Patient Data Repositories: Perspectives from JAMIA Special Issue Editors on the Next Generation of Multi-Institutional Data Sharing. AMIA (2022)
Mark G. Weiner, Charles Bailey, Richard R. Moffitt, Shawn N. Murphy
The Informatics of RECOVER: Understanding the Post Acute Sequelae of SARS-CoV-2 Infection. AMIA (2022)
Liqin Wang, Heekyong Park, Sachin Vallamkonda, Diane L. Seger, Suzanne V. Blackley, Pamela M. Garabedian, Foster R. Goss, Kimberly G. Blumenthal, David W. Bates, Shawn N. Murphy, Li Zhou
Dynamic Reaction Picklist for Improving Allergy Reaction Documentation: A Usability Study. AMIA (2022)
Doudou Zhou, Ziming Gan, Xu Shi, Alina Patwari, Everett Neil Rush, Clara-Lea Bonzel, Vidul Ayakulangara Panickan, Chuan Hong, Yuk-Lam Ho, Tianrun Cai, Lauren Costa, Xiaoou Li, Victor M. Castro, Shawn N. Murphy, Gabriel A. Brat, Griffin M. Weber, Paul Avillach, J. Michael Gaziano, Kelly Cho, Katherine P. Liao, Junwei Lu, Tianxi Cai
Multiview Incomplete Knowledge Graph Integration with application to cross-institutional EHR data harmonization. J. Biomed. Informatics 133 (2022)
Hossein Estiri, Zachary H. Strasser, Sina Rashidian, Jeffrey G. Klann, Kavishwar B. Wagholikar, Thomas H. McCoy Jr., Shawn N. Murphy
An objective framework for evaluating unrecognized bias in medical AI models predicting COVID-19 outcomes. J. Am. Medical Informatics Assoc. 29 (8) (2022)
Vladimir I. Valtchinov, Shawn N. Murphy, Ronilda Lacson, Nikolay Ikonomov, Bingxue K. Zhai, Katherine P. Andriole, Justin F. Rousseau, Dick Hanson, Isaac S. Kohane, Ramin Khorasani
Analytics to monitor local impact of the Protecting Access to Medicare Act's imaging clinical decision support requirements. J. Am. Medical Informatics Assoc. 29 (11) (2022)
Xuan Wang, Harrison G. Zhang, Xin Xiong, Chuan Hong, Griffin M. Weber, Gabriel A. Brat, Clara-Lea Bonzel, Yuan Luo, Rui Duan, Nathan P. Palmer, Meghan R. Hutch, Alba Gutiérrez-Sacristán, Riccardo Bellazzi, Luca Chiovato, Kelly Cho, Arianna Dagliati, Hossein Estiri, Noelia García-Barrio, Romain Griffier, David A. Hanauer, Yuk-Lam Ho, John H. Holmes, Mark S. Keller, Jeffrey G. Klann, Sehi L'Yi, Sara Lozano-Zahonero, Sarah Maidlow, Adeline Makoudjou, Alberto Malovini, Bertrand Moal, Jason H. Moore, Michele Morris, Danielle L. Mowery, Shawn N. Murphy, Antoine Neuraz, Kee Yuan Ngiam, Gilbert S. Omenn, Lav P. Patel, Miguel Pedrera-Jiménez, Andrea Prunotto, Malarkodi J. Samayamuthu, Fernando J. Sanz Vidorreta, Emily Schriver, Petra Schubert, Pablo Serrano-Balazote, Andrew M. South, Amelia L. M. Tan, Byorn W. L. Tan, Valentina Tibollo, Patric Tippmann, Shyam Visweswaran, Zongqi Xia, William Yuan, Daniela Zöller, Isaac S. Kohane, Paul Avillach, Zijian Guo, Tianxi Cai
SurvMaximin: Robust federated approach to transporting survival risk prediction models. J. Biomed. Informatics 134 (2022)
Kavishwar B. Wagholikar, Layne Ainsworth, David Zelle, Kira Chaney, Michael Mendis, Jeffery G. Klann, Alexander J. Blood, Angela Miller, Rupendra Chulyadyo, Michael Oates, William J. Gordon, Samuel J. Aronson, Benjamin M. Scirica, Shawn N. Murphy
I2b2-etl: Python application for importing electronic health data into the informatics for integrating biology and the bedside platform. Bioinform. 38 (20) (2022)
Victor M. Castro, Vivian S. Gainer, Nich Wattanasin, Barbara Benoit, Andrew Cagan, Bhaswati Ghosh, Sergey Goryachev, Reeta Metta, Heekyong Park, Taowei David Wang, Michael Mendis, Martin Rees, Christopher Herrick, Shawn N. Murphy
The Mass General Brigham Biobank Portal: an i2b2-based data repository linking disparate and high-dimensional patient data to support multimodal analytics. J. Am. Medical Informatics Assoc. 29 (4) (2022)
Marc P. Maurits, Ilya Korsunsky, Soumya Raychaudhuri, Shawn N. Murphy, Jordan W. Smoller, Scott T. Weiss, Thomas W. J. Huizinga, Marcel J. T. Reinders, Elizabeth W. Karlson, Erik van den Akker, Rachel Knevel
A framework for employing longitudinally collected multicenter electronic health records to stratify heterogeneous patient populations on disease history. J. Am. Medical Informatics Assoc. 29 (5) (2022)
Jingzhi Yu, Jennifer A. Pacheco, Anika S. Ghosh, Yuan Luo, Chunhua Weng, Ning Shang, Barbara Benoit, David S. Carrell, Robert J. Carroll, Ozan Dikilitas, Robert R. Freimuth, Vivian S. Gainer, Hakon Hakonarson, George Hripcsak, Iftikhar J. Kullo, Frank D. Mentch, Shawn N. Murphy, Peggy L. Peissig, Andrea H. Ramirez, Nephi Walton, Wei-Qi Wei, Luke V. Rasmussen
Under-specification as the source of ambiguity and vagueness in narrative phenotype algorithm definitions. BMC Medical Informatics Decis. Mak. 22 (1) (2022)
Griffin M. Weber, Chuan Hong, Zongqi Xia, Nathan P. Palmer, Paul Avillach, Sehi L'Yi, Mark S. Keller, Shawn N. Murphy, Alba Gutiérrez-Sacristán, Clara-Lea Bonzel, Arnaud Serret-Larmande, Antoine Neuraz, Gilbert S. Omenn, Shyam Visweswaran, Jeffrey G. Klann, Andrew M. South, Ne-Hooi Will Loh, Mario Cannataro, Brett K. Beaulieu-Jones, Riccardo Bellazzi, Giuseppe Agapito, Mario Alessiani, Bruce J. Aronow, Douglas S. Bell, Vincent Benoit, Florence T. Bourgeois, Luca Chiovato, Kelly Cho, Arianna Dagliati, Scott L. DuVall, Noelia García-Barrio, David A. Hanauer, Yuk-Lam Ho, John H. Holmes, Richard W. Issitt, Molei Liu, Yuan Luo, Kristine E. Lynch, Sarah Maidlow, Alberto Malovini, Kenneth D. Mandl, Chengsheng Mao, Michael E. Matheny, Jason H. Moore, Jeffrey S. Morris, Michele Morris, Danielle L. Mowery, Kee Yuan Ngiam, Lav P. Patel, Miguel Pedrera-Jiménez, Rachel B. Ramoni, Emily Schriver, Petra Schubert, Pablo Serrano-Balazote, Anastasia Spiridou, Amelia L. M. Tan, Byorn W. L. Tan, Valentina Tibollo, Carlo Torti, Enrico M. Trecarichi, Xuan Wang, James R. Aaron, Adem Albayrak, Giuseppe Albi, Anna Alloni, Danilo F. Amendola, François Angoulvant, Anthony L. L. J. Li, Fatima Ashraf, Andrew Atz, Paul Avillach, Paula S. Azevedo, James Balshi, Brett K. Beaulieu-Jones, Antonio Bellasi, Vincent Benoit, Michele Beraghi, José Luis Bernal-Sobrino, Mélodie Bernaux, Romain Bey, Surbhi Bhatnagar, Alvar Javier Blanco-Martínez, Martin Boeker, John Booth, Silvano Bosari, Robert L. Bradford, Gabriel A. Brat, Stéphane Bréant, Nicholas W. Brown, Raffaele Bruno, William A. Bryant, Mauro Bucalo, Emily Bucholz, Anita Burgun, Tianxi Cai, Aldo Carmona, Charlotte Caucheteux, Julien Champ, Krista Y. Chen, Jin Chen, Lorenzo Chiudinelli, Kelly Cho, James J. Cimino, Tiago K. Colicchio, Sylvie Cormont, Sébastien Cossin, Jean B. Craig, Juan Luis Cruz-Bermúdez, Jaime Cruz-Rojo, Mohamad Daniar, Christel Daniel, Priyam Das, Batsal Devkota, Audrey Dionne, Rui Duan, Julien Dubiel, Loic Esteve, Hossein Estiri, Shirley Fan, Robert W. Follett, Thomas Ganslandt, Noelia García-Barrio, Lana X. Garmire, Nils Gehlenborg, Emily J. Getzen, Alon Geva, Tobias Gradinger, Alexandre Gramfort, Romain Griffier, Nicolas Griffon, Olivier Grisel, Alba Gutiérrez-Sacristán, Larry Han, David A. Hanauer, Christian Haverkamp, Derek Y. Hazard, Bing He, Darren W. Henderson, Martin Hilka, Kenneth M. Huling, Meghan R. Hutch, Richard W. Issitt, Anne-Sophie Jannot, Vianney Jouhet, Ramakanth Kavuluru, Chris J. Kennedy, Kate F. Kernan, Daniel A. Key, Katie Kirchoff, Jeffrey G. Klann, Isaac S. Kohane, Ian D. Krantz, Detlef Kraska, Ashok K. Krishnamurthy, Trang T. Le, Judith Leblanc, Guillaume Lemaitre, Leslie Lenert, Damien Leprovost, Molei Liu, Qi Long, Sara Lozano-Zahonero, Sadiqa Mahmood, Sarah Maidlow, Adeline Makoudjou, Anupama Maram, Patricia Martel, Marcelo R. Martins, Jayson S. Marwaha, Aaron J. Masino, Maria Mazzitelli, Arthur Mensch, Marianna Milano, Marcos F. Minicucci, Bertrand Moal, Taha Mohseni Ahooyi, Jason H. Moore, Cinta Moraleda, Jeffrey S. Morris, Karyn L. Moshal, Sajad Mousavi, Douglas A. Murad, Shawn N. Murphy, Thomas Naughton, Carlos Tadeu Breda Neto, Jane Newburger, Kee Yuan Ngiam, Wanjiku F. M. Njoroge, James B. Norman, Jihad Obeid, Marina P. Okoshi, Karen L. Olson, Gilbert S. Omenn, Nina Orlova, Brian Ostasiewski, Nathan P. Palmer, Nicolas Paris, Lav P. Patel, Miguel Pedrera-Jiménez, Ashley C. Pfaff, Emily R. Pfaff, Danielle Pillion, Sara Pizzimenti, Hans-Ulrich Prokosch, Robson A. Prudente, Andrea Prunotto, Víctor Quirós-González, Rachel B. Ramoni, Maryna Raskin, Siegbert Rieg, Gustavo Roig-Domínguez, Pablo Rojo, Paula Rubio-Mayo, Paolo Sacchi, Carlos Sáez, Elisa Salamanca, Malarkodi Jebathilagam Samayamuthu, L. Nelson Sanchez-Pinto, Arnaud Sandrin, Nandhini Santhanam, Janaina C. C. Santos, Fernando J. Sanz Vidorreta, Maria Savino, Jürgen Schüttler, Luigia Scudeller, Neil J. Sebire, Pablo Serrano-Balazote, Patricia Serre, Arnaud Serret-Larmande, Mohsin Shah, Zahra Shakeri Hossein Abad, Domenick Silvio, Piotr Sliz, Jiyeon Son, Charles Sonday, Andrew M. South, Francesca Sperotto, Zachary H. Strasser, Amelia L. M. Tan, Bryce W. Q. Tan, Suzana E. Tanni, Deanne M. Taylor, Ana I. Terriza-Torres, Patric Tippmann, Emma M. S. Toh, Yi-Ju Tseng, Andrew K. Vallejos, Gaël Varoquaux, Margaret E. Vella, Guillaume Verdy, Jill-Jênn Vie, Shyam Visweswaran, Michele Vitacca, Kavishwar B. Wagholikar, Lemuel R. Waitman, Demian Wassermann, Griffin M. Weber, Martin Wolkewitz, Scott Wong, Zongqi Xia, Xin Xiong, Ye Ye, Nadir Yehya, William Yuan, Alberto Zambelli, Harrison G. Zhang, Daniela Zöller, Valentina Zuccaro, Chiara Zucco, Isaac S. Kohane, Tianxi Cai, Gabriel A. Brat
International comparisons of laboratory values from the 4CE collaborative to predict COVID-19 mortality. npj Digit. Medicine 5 (2022)
Shawn N. Murphy, Shyam Visweswaran, Michael J. Becich, Thomas R. Campion Jr., Boyd M. Knosp, Genevieve Melton-Meaux, Leslie A. Lenert
Research data warehouse best practices: catalyzing national data sharing through informatics innovation. J. Am. Medical Informatics Assoc. 29 (4) (2022)
Jeffrey G. Klann, Michael Mendis, Kevin Bui, Griffin M. Weber, Diane Keogh, Shawn N. Murphy
Informatics for Integrating Biology and the Bedside (i2b2) in 2022: Single Sign On and Synthetic Data. AMIA (2022)
Chuan Hong, Everett Neil Rush, Molei Liu, Doudou Zhou, Jiehuan Sun, Aaron Sonabend W., Victor M. Castro, Petra Schubert, Vidul Ayakulangara Panickan, Tianrun Cai, Lauren Costa, Zeling He, Nicholas B. Link, Ronald G. Hauser, J. Michael Gaziano, Shawn N. Murphy, George Ostrouchov, Yuk-Lam Ho, Edmon Begoli, Junwei Lu, Kelly Cho, Katherine P. Liao, Tianxi Cai
Clinical knowledge extraction via sparse embedding regression (KESER) with multi-center large scale electronic health record data. npj Digit. Medicine 4 (2021)
Shawn N. Murphy, Hossein Estiri, Arianna Dagliati, Riccardo Bellazzi, John H. Holmes
Temporal Phenotypic Pathways of Post-Acute Sequelae of SARS-CoV-2 by an International Consortium for Clinical Characterization of COVID-19 (4CE). AMIA (2021)
Jeffrey G. Klann, Hossein Estiri, Griffin M. Weber, Bertrand Moal, Paul Avillach, Chuan Hong, Amelia L. M. Tan, Brett K. Beaulieu-Jones, Victor M. Castro, Thomas Maulhardt, Alon Geva, Alberto Malovini, Andrew M. South, Shyam Visweswaran, Michele Morris, Malarkodi J. Samayamuthu, Gilbert S. Omenn, Kee Yuan Ngiam, Kenneth D. Mandl, Martin Boeker, Karen L. Olson, Danielle L. Mowery, Robert W. Follett, David A. Hanauer, Riccardo Bellazzi, Jason H. Moore, Ne-Hooi Will Loh, Douglas S. Bell, Kavishwar B. Wagholikar, Luca Chiovato, Valentina Tibollo, Siegbert Rieg, Anthony L. L. J. Li, Vianney Jouhet, Emily Schriver, Zongqi Xia, Meghan Hutch, Yuan Luo, Isaac S. Kohane, Gabriel A. Brat, Shawn N. Murphy
Validation of an internationally derived patient severity phenotype to support COVID-19 analytics from electronic health record data. J. Am. Medical Informatics Assoc. 28 (7) (2021)
Hossein Estiri, Zachary H. Strasser, Shawn N. Murphy
High-throughput phenotyping with temporal sequences. J. Am. Medical Informatics Assoc. 28 (4) (2021)
Harrison G. Zhang, Boris P. Hejblum, Griffin M. Weber, Nathan P. Palmer, Susanne E. Churchill, Peter Szolovits, Shawn N. Murphy, Katherine P. Liao, Isaac S. Kohane, Tianxi Cai
ATLAS: an automated association test using probabilistically linked health records with application to genetic studies. J. Am. Medical Informatics Assoc. 28 (12) (2021)
Hossein Estiri, Sebastien Vasey, Shawn N. Murphy
Generative transfer learning for measuring plausibility of EHR diagnosis records. J. Am. Medical Informatics Assoc. 28 (3) (2021)
Zachary H. Strasser, Hossein Estiri, Shawn N. Murphy
A Machine Learning Approach for Identifying Emergent Phenotypes Associated with a Previous COVID Infection. AMIA (2021)
Melissa A. Haendel, Christopher G. Chute, Tellen D. Bennett, David A. Eichmann, Justin Guinney, Warren A. Kibbe, Philip R. O. Payne, Emily R. Pfaff, Peter N. Robinson, Joel H. Saltz, Heidi Spratt, Christine Suver, John Wilbanks, Adam B. Wilcox, Andrew E. Williams, Chunlei Wu, Clair Blacketer, Robert L. Bradford, James J. Cimino, Marshall Clark, Evan W. Colmenares, Patricia A. Francis, Davera Gabriel, Alexis Graves, Raju Hemadri, Stephanie S. Hong, George Hripcsak, Dazhi Jiao, Jeffrey G. Klann, Kristin Kostka, Adam M. Lee, Harold P. Lehmann, Lora Lingrey, Robert T. Miller, Michele Morris, Shawn N. Murphy, Karthik Natarajan, Matvey B. Palchuk, Usman Sheikh, Harold Solbrig, Shyam Visweswaran, Anita Walden, Kellie M. Walters, Griffin M. Weber, Xiaohan Tanner Zhang, Richard L. Zhu, Benjamin Amor, Andrew T. Girvin, Amin Manna, Nabeel Qureshi, Michael G. Kurilla, Sam G. Michael, Lili M. Portilla, Joni L. Rutter, Christopher P. Austin, Ken R. Gersing
The National COVID Cohort Collaborative (N3C): Rationale, design, infrastructure, and deployment. J. Am. Medical Informatics Assoc. 28 (3) (2021)
Jeffrey G. Klann, Michael Mendis, Peter Rice, Rudy Potenzone, Louisa May Klann, Griffin M. Weber, Diane Keogh, Shawn N. Murphy
Integrating Informatics for Integrating Biology and the Bedside with tranSMART: Flexible Data Warehousing with Complex Analytics. AMIA (2021)
Sheng He, Diana Pereira, Juan David Perez, Randy L. Gollub, Shawn N. Murphy, Sanjay Prabhu, Rudolph Pienaar, Richard L. Robertson, Patricia Ellen Grant, Yangming Ou
Multi-channel attention-fusion neural network for brain age estimation: Accuracy, generality, and interpretation with 16, 705 healthy MRIs across lifespan. Medical Image Anal. 72 (2021)
Nich Wattanasin, Victor M. Castro, Vivian S. Gainer, Barbara Benoit, Andrew Cagan, Reeta Metta, Shawn N. Murphy
A Novel Data Portal to Enable COVID-19 Data Integration and Analysis. AMIA (2021)
Jeffrey G. Klann, Griffin M. Weber, Emma Perez, William Yuan, Gabriel A. Brat, Shawn N. Murphy
Combining Chart Review and Hospital System Dynamics for Electronic Health Record Phenotyping in an International COVID-19 Research Network. AMIA (2021)
Danqing Xu, Chen Wang, Atlas Khan, Ning Shang, Zihuai He, Adam Gordon, Iftikhar J. Kullo, Shawn N. Murphy, Yizhao Ni, Wei-Qi Wei, Ali Gharavi, Krzysztof Kiryluk, Chunhua Weng, Iuliana Ionita-Laza
Quantitative disease risk scores from EHR with applications to clinical risk stratification and genetic studies. npj Digit. Medicine 4 (2021)
Jennifer A. Pacheco, Luke V. Rasmussen, Ken Wiley, Thomas N. Person, David J. Cronkite, Sunghwan Sohn, Shawn N. Murphy, Justin H. Gundelach, Vivian S. Gainer, Victor M. Castro, Cong Liu, Todd Lingren, Frank D. Mentch, Agnes S. Sundaresan, Garrett Eickelberg, Valerie Willis, Al'ona Furmanchuk, Roshan Patel, David S. Carrell, Marc S. Williams, Elizabeth W. Karlson, Jodell E. Linder, Yuan Luo, Chunhua Weng, Wei-Qi Wei
Evaluation of the Portability of Natural Language Processing-based Computable Phenotypes in the eMERGE Network. AMIA (2021)
Hossein Estiri, Zachary H. Strasser, Jeffrey G. Klann, Pourandokht Naseri, Kavishwar B. Wagholikar, Shawn N. Murphy
Predicting COVID-19 mortality with electronic medical records. npj Digit. Medicine 4 (2021)
Heekyong Park, Taowei David Wang, Vivian S. Gainer, Victor M. Castro, Nich Wattanasin, Shawn N. Murphy
HistoriView: An Interactive and Scalable Visual Exploratory Plugin for Longitudinal Patient Data Review. AMIA (2020)
Hossein Estiri, Zachary H. Strasser, Jeffery G. Klann, Thomas H. McCoy Jr., Kavishwar B. Wagholikar, Sebastien Vasey, Victor M. Castro, Marykate Murphy, Shawn N. Murphy
Transitive Sequencing Medical Records for Mining Predictive and Interpretable Temporal Representations. Patterns 1 (4) (2020)
Gabriel A. Brat, Griffin M. Weber, Nils Gehlenborg, Paul Avillach, Nathan P. Palmer, Luca Chiovato, James J. Cimino, Lemuel R. Waitman, Gilbert S. Omenn, Alberto Malovini, Jason H. Moore, Brett K. Beaulieu-Jones, Valentina Tibollo, Shawn N. Murphy, Sehi L'Yi, Mark S. Keller, Riccardo Bellazzi, David A. Hanauer, Arnaud Serret-Larmande, Alba Gutiérrez-Sacristán, John J. Holmes, Douglas S. Bell, Kenneth D. Mandl, Robert W. Follett, Jeffrey G. Klann, Douglas A. Murad, Luigia Scudeller, Mauro Bucalo, Katie Kirchoff, Jean B. Craig, Jihad Obeid, Vianney Jouhet, Romain Griffier, Sébastien Cossin, Bertrand Moal, Lav P. Patel, Antonio Bellasi, Hans-Ulrich Prokosch, Detlef Kraska, Piotr Sliz, Amelia L. M. Tan, Kee Yuan Ngiam, Alberto Zambelli, Danielle L. Mowery, Emily Schiver, Batsal Devkota, Robert L. Bradford, Mohamad Daniar, Christel Daniel, Vincent Benoit, Romain Bey, Nicolas Paris, Patricia Serre, Nina Orlova, Julien Dubiel, Martin Hilka, Anne-Sophie Jannot, Stéphane Bréant, Judith Leblanc, Nicolas Griffon, Anita Burgun, Mélodie Bernaux, Arnaud Sandrin, Elisa Salamanca, Sylvie Cormont, Thomas Ganslandt, Tobias Gradinger, Julien Champ, Martin Boeker, Patricia Martel, Loic Esteve, Alexandre Gramfort, Olivier Grisel, Damien Leprovost, Thomas Moreau, Gaël Varoquaux, Jill-Jênn Vie, Demian Wassermann, Arthur Mensch, Charlotte Caucheteux, Christian Haverkamp, Guillaume Lemaitre, Silvano Bosari, Ian D. Krantz, Andrew M. South, Tianxi Cai, Isaac S. Kohane
International electronic health record-derived COVID-19 clinical course profiles: the 4CE consortium. npj Digit. Medicine 3 (2020)
Douglas MacFadden, Shawn N. Murphy, Griffin M. Weber, Anupama Maram
National Informatics Infrastructure Responding to the COVID-19 Pandemic. AMIA (2020)
Shawn N. Murphy, Hossein Estiri, Zachary H. Strasser, Kavishwar B. Wagholikar, Victor M. Castro
High-throughput Phenotyping with EHR Sequences. AMIA (2020)
Hossein Estiri, Sebastien Vasey, Jeffrey G. Klann, Victor M. Castro, Shawn N. Murphy
Generative Transfer Learning for Measuring Plausibility of EHR Diagnosis Records Over Time. AMIA (2020)
Kavishwar B. Wagholikar, Hossein Estiri, Marykate Murphy, Shawn N. Murphy
Polar labeling: silver standard algorithm for training disease classifiers. Bioinform. 36 (10) (2020)
Jeffrey G. Klann, Michael Mendis, Diane Keogh, Shawn N. Murphy
Informatics for Integrating Biology and the Bedside (i2b2) in 2020: Supporting Large Ontologies and REDcap Surveys. AMIA (2020)
Sheng He, Randy L. Gollub, Shawn N. Murphy, Juan David Perez, Sanjay Prabhu, Rudolph Pienaar, Richard L. Robertson, Patricia Ellen Grant, Yangming Ou
Brain Age Estimation Using LSTM on Children's Brain MRI. CoRR (2020)
Hossein Estiri, Sebastien Vasey, Shawn N. Murphy
Transitive Sequential Pattern Mining for Discrete Clinical Data. AIME (2020)
Sheng He, Randy L. Gollub, Shawn N. Murphy, Juan David Perez, Sanjay Prabhu, Rudolph Pienaar, Richard L. Robertson, Patricia Ellen Grant, Yangming Ou
Brain Age Estimation Using LSTM on Children's Brain MRI. ISBI (2020)
Hossein Estiri, Zachary H. Strasser, Shawn N. Murphy
Individualized Prediction of COVID-19 Adverse outcomes with MLHO. CoRR (2020)
Yuri Ahuja, Doudou Zhou, Zeling He, Jiehuan Sun, Victor M. Castro, Vivian S. Gainer, Shawn N. Murphy, Chuan Hong, Tianxi Cai
sureLDA: A multidisease automated phenotyping method for the electronic health record. J. Am. Medical Informatics Assoc. 27 (8) (2020)
Jeffrey G. Klann, Nich Wattanasin, Michael Mendis, Matthew A. Joss, Hossein Estiri, Kavishwar B. Wagholikar, Shawn N. Murphy
Ontologies Enabling Computable Tables. AMIA (2019)
George Hripcsak, Ning Shang, Peggy L. Peissig, Luke V. Rasmussen, Cong Liu, Barbara Benoit, Robert J. Carroll, David S. Carrell, Joshua C. Denny, Ozan Dikilitas, Vivian S. Gainer, Kayla Marie Howell, Jeffrey G. Klann, Iftikhar J. Kullo, Todd Lingren, Frank D. Mentch, Shawn N. Murphy, Karthik Natarajan, Chunhua Weng
Facilitating phenotype transfer using a common data model. J. Biomed. Informatics 96 (2019)
Yuri Ahuja, Doudou Zhou, Zeling He, Jiehuan Sun, Victor M. Castro, Vivian S. Gainer, Shawn N. Murphy, Chuan Hong, Tianxi Cai
sureLDA: A Novel Multi-Disease Automated Phenotyping Method for the Electronic Health Record. AMIA (2019)
Kavishwar B. Wagholikar, Christina M. Fischer, Alyssa P. Goodson, Christopher Herrick, Taylor Maclean, Katelyn Smith, Liliana Fera, Thomas Gaziano, Jacqueline Dunning, Joshua Bosque-Hamilton, Lina Matta, Eloy Toscano, Brent Richter, Layne Ainsworth, Michael Oates, Samuel J. Aronson, Calum A. MacRae, Benjamin Morgan Scirica, Akshay S. Desai, Shawn N. Murphy
Dynamic Phenotyping to facilitate Accrual for Prospective Clinical studies: A Case Study in Heart Failure. AMIA (2019)
Akshay Zagade, Vishal Vernekar, Shek-Wayne Chan, Kavishwar B. Wagholikar, Rupendra Chulyadyo, Yuri Ostrovsky, Alyssa P. Goodson, Ameet Pathak, Christopher Herrick, Shawn N. Murphy
Plugin for importing spreadsheets into Informatics for Integrating Biology and the Bedside platform. AMIA (2019)
Hossein Estiri, Thomas H. McCoy, Shawn N. Murphy
EHR Sequencing: A Novel Approach for Constructing Predictive and Interpretable Data Representations from EHR Data. AMIA (2019)
Nich Wattanasin, Taowei David Wang, Vivian S. Gainer, Shawn N. Murphy
Scalable Process to Generate Aggregated Patient Data for Analysis. AMIA (2019)
Katherine P. Liao, Jiehuan Sun, Tianrun A. Cai, Nicholas B. Link, Chuan Hong, Jie Huang, Jennifer E. Huffman, Jessica L. Gronsbell, Yichi Zhang, Yuk-Lam Ho, Victor M. Castro, Vivian S. Gainer, Shawn N. Murphy, Christopher J. O'Donnell, J. Michael Gaziano, Kelly Cho, Peter Szolovits, Isaac S. Kohane, Sheng Yu
High-throughput multimodal automated phenotyping (MAP) with application to PheWAS. J. Am. Medical Informatics Assoc. 26 (11) (2019)
Kavishwar B. Wagholikar, Samuel J. Aronson, Benjamin Morgan Scirica, Akshay S. Desai, Shawn N. Murphy
Patient Stratification Process for enabling Clinical Interventions. AMIA (2019)
Hossein Estiri, Shawn N. Murphy
Semi-supervised encoding for outlier detection in clinical observation data. Comput. Methods Programs Biomed. 181 (2019)
Hossein Estiri, Jeffrey G. Klann, Shawn N. Murphy
A clustering approach for detecting implausible observation values in electronic health records data. BMC Medical Informatics Decis. Mak. 19 (1) (2019)
Kavishwar B. Wagholikar, Vishal Vernekar, Akshay Zagade, Yuri Ostrovsky, Shek-Wayne Chan, Alyssa P. Goodson, Ameet Pathak, corey Glynn, Christopher Herrick, Shawn N. Murphy
Stratification of Patient Population for enabling data-driven Clinical Interventions using I2b2. AMIA (2019)
Hossein Estiri, Jeffrey G. Klann, Sarah R. Weiler, Ernest Alema-Mensah, R. Joseph Applegate, Galina Lozinski, Nandan Patibandla, Kun Wei, William G. Adams, Marc D. Natter, Elizabeth O. Ofili, Brian Ostasiewski, Alexander Quarshie, Gary E. Rosenthal, Elmer V. Bernstam, Kenneth D. Mandl, Shawn N. Murphy
A federated EHR network data completeness tracking system. J. Am. Medical Informatics Assoc. 26 (7) (2019)
Kavishwar B. Wagholikar, Christina M. Fischer, Alyssa P. Goodson, Christopher D. Herrick, Martin Rees, Eloy Toscano, Calum A. MacRae, Benjamin M. Scirica, Akshay S. Desai, Shawn N. Murphy
Extraction of Ejection Fraction from Echocardiography Notes for Constructing a Cohort of Patients having Heart Failure with reduced Ejection Fraction (HFrEF). J. Medical Syst. 42 (11) (2018)
Hossein Estiri, Behzad Abounia Omran, Shawn N. Murphy
: An Efficient Scalable Procedure for Approximating the Number of Clusters in Unsupervised Learning. Big Data Res. 13 (2018)
Harold R. Solbrig, Na Hong, Shawn N. Murphy, Guoqian Jiang
Automated Population of an i2b2 Clinical Data Warehouse using FHIR. AMIA (2018)
Yangming Ou, Lilla Zöllei, Xiao Da, Kallirroi Retzepi, Shawn N. Murphy, Elizabeth R. Gerstner, Bruce R. Rosen, Patricia Ellen Grant, Jayashree Kalpathy-Cramer, Randy L. Gollub
Field of View Normalization in Multi-Site Brain MRI. Neuroinformatics 16 (3-4) (2018)
Guoqian Jiang, Jon D. Duke, Daniella Meeker, Mitra Rocca, Harold R. Solbrig, Shawn N. Murphy
Using HL7 FHIR to Improve Standardization and Interoperability of Common Data Models for Clinical and Translational Research. AMIA (2018)
Jeffrey G. Klann, Stanley Boykin, Marc D. Natter, Margaret Vella, Douglas MacFadden, Sarah R. Weiler, Sebastian Schneeweiss, Kenneth D. Mandl, Shawn N. Murphy
Accessible Research Commons for Health: Four Years Into the PCORnet Journey. AMIA (2018)
Kavishwar B. Wagholikar, Pralav P. Dessai, Javier Sanz, Michael Mendis, Douglas S. Bell, Shawn N. Murphy
Implementation of informatics for integrating biology and the bedside (i2b2) platform as Docker containers. BMC Medical Informatics Decis. Mak. 18 (1) (2018)
Katherine P. Liao, Jiehuan Sun, Tianrun A. Cai, Nicholas B. Link, Chuan Hong, Jie Huang, Jennifer E. Huffman, Jessica L. Gronsbell, Lauren Costa, Victor M. Castro, Vivian S. Gainer, Shawn N. Murphy, J. Michael Gaziano, Kelly Cho, Peter Szolovits, Isaac S. Kohane, Sheng Yu, Tianxi Cai
High-Throughput Multimodal Automated Phenotyping (MAP) Incorporating Natural Language Processing with Application to PheWAS. AMIA (2018)
Jeffrey G. Klann, Lori C. Phillips, Christopher Herrick, Matthew A. Joss, Kavishwar B. Wagholikar, Shawn N. Murphy
Web services for data warehouses: OMOP and PCORnet on i2b2. J. Am. Medical Informatics Assoc. 25 (10) (2018)
Sheng Yu, Yumeng Ma, Jessica L. Gronsbell, Tianrun A. Cai, Ashwin N. Ananthakrishnan, Vivian S. Gainer, Susanne E. Churchill, Peter Szolovits, Shawn N. Murphy, Isaac S. Kohane, Katherine P. Liao, Tianxi Cai
Enabling phenotypic big data with PheNorm. J. Am. Medical Informatics Assoc. 25 (1) (2018)
Samuel J. Aronson, Lawrence J. Babb, Darren C. Ames, Richard A. Gibbs, Eric Venner, John J. Connelly, Keith Marsolo, Chunhua Weng, Marc S. Williams, Andrea L. Hartzler, Wayne H. Liang, James D. Ralston, Emily Beth Devine, Shawn N. Murphy, Christopher G. Chute, Pedro J. Caraballo, Iftikhar J. Kullo, Robert R. Freimuth, Luke V. Rasmussen, Firas H. Wehbe, Josh F. Peterson, Jamie R. Robinson, Ken Wiley, Casey Overby Taylor, eMERGE Network EHRI Working Group
Empowering genomic medicine by establishing critical sequencing result data flows: the eMERGE example. J. Am. Medical Informatics Assoc. 25 (10) (2018)
Hossein Estiri, Kari A. Stephens, Jeffrey G. Klann, Shawn N. Murphy
Exploring completeness in clinical data research networks with DQe-c. J. Am. Medical Informatics Assoc. 25 (1) (2018)
Christopher Herrick, Alyssa P. Goodson, Wayne Chan, Lori C. Phillips, Michael Mendis, Shawn N. Murphy
Integrating Patient Registries into Enterprise wide Patient-Discovery Strategies. AMIA (2017)
Jeffrey G. Klann, Vijay A. Raghavan, Sarah Weiler, Kenneth D. Mandl, Shawn N. Murphy
Needs-Driven Data Completeness Dashboard in a Multi-Site Research Network. CRI (2017)
Ania Berchuck, Michael G. Kahn, Shelley A. Rusincovitch, Daniella Meeker, Shawn N. Murphy, Ravi Bhosale, Keith Marsolo, Michael E. Matheny, L. Russell Waitman, Rachel Hess
Strategic Assessment and Planning for the PCORnet Common Data Model. CRI (2017)
Lori C. Phillips, Christopher D. Herrick, Shawn N. Murphy
i2b2 on OMOP CDM. CRI (2017)
Sheng Yu, Abhishek Chakrabortty, Katherine P. Liao, Tianrun A. Cai, Ashwin N. Ananthakrishnan, Vivian S. Gainer, Susanne E. Churchill, Peter Szolovits, Shawn N. Murphy, Isaac S. Kohane, Tianxi Cai
Surrogate-assisted feature extraction for high-throughput phenotyping. J. Am. Medical Informatics Assoc. 24 (e1) (2017)
Jeffrey G. Klann, Kavishwar B. Wagholikar, Lori C. Phillips, Matthew A. Joss, Shawn N. Murphy
Web-Service-Enabled Apps for Research: SMART-on-FHIR for OMOP and PCORNet. AMIA (2017)
Hossein Estiri, Jeffrey G. Klann, Kavishwar B. Wagholikar, Shawn N. Murphy
Applying unsupervised learning to characterize rare observations in clinical data: the DQe-p tool. AMIA (2017)
Jeffrey G. Klann, Matthew A. Joss, Kevin Embree, Shawn N. Murphy
Reuse of PCORnet Data to Support the Precision Medicine Initiative: Data Model Harmonization. AMIA (2017)
Kavishwar B. Wagholikar, Joshua C. Mandel, Jeffrey G. Klann, Nich Wattanasin, Michael Mendis, Christopher G. Chute, Kenneth D. Mandl, Shawn N. Murphy
SMART-on-FHIR implemented over i2b2. J. Am. Medical Informatics Assoc. 24 (2) (2017)
Jorge L. Bernal-Rusiel, Nicolas Rannou, Randy L. Gollub, Steve Pieper, Shawn N. Murphy, Richard Robertson, Patricia E. Grant, Rudolph Pienaar
Reusable Client-Side JavaScript Modules for Immersive Web-Based Real-Time Collaborative Neuroimage Visualization. Frontiers Neuroinformatics 11 (2017)
Shawn N. Murphy, Christopher D. Herrick, Michael Mendis, Lori C. Phillips, Wayne Chan, Alyssa J. Porter, Griffin M. Weber, Susanne E. Churchill, Isaac S. Kohane
Creating a Patient Information Commons from Multiple Research Informatics Platforms. CRI (2017)
Griffin M. Weber, William G. Adams, Elmer V. Bernstam, Jonathan P. Bickel, Kathe P. Fox, Keith Marsolo, Vijay A. Raghavan, Alexander Turchin, Xiaobo Zhou, Shawn N. Murphy, Kenneth D. Mandl
Biases introduced by filtering electronic health records for patients with "complete data". J. Am. Medical Informatics Assoc. 24 (6) (2017)
Kavishwar B. Wagholikar, Rahul Jain, Eliel Oliveira, Joshua C. Mandel, Jeffrey G. Klann, Ricardo Colas, Prasad Patil, Kuladip Yadav, Kenneth D. Mandl, Shawn N. Murphy
Evolving Research Data Sharing Networks to Clinical App Sharing Networks. CRI (2017)
Shawn N. Murphy
Instrumenting the Health Care Enterprise for Discovery in the Course of Clinical Care. BCB (2017)
Victor M. Castro, Nich Wattanasin, Vivian S. Gainer, Bhaswati Ghosh, Shawn N. Murphy
Applying Computed Phenotypes Derived from Electronic Health Records in the Partners HealthCare Biobank Using i2b2. CRI (2017)
Hossein Estiri, Kari A. Stephens, Jeffrey G. Klann, Shawn N. Murphy
Exploring Completeness in Clinical Data Research Networks with DQe-c. CRI (2017)
Jeffrey G. Klann, Daniella Meeker, Marc B. Rosenman, Shawn N. Murphy
Data Fitness-for-Use: A Method to Maximize Utility of Poor-Quality Data? CRI (2017)
Jeffrey G. Klann, Vijay A. Raghavan, Chunhua Weng, Sarah Weiler, Kenneth D. Mandl, Shawn N. Murphy
Needs-Driven Data Completeness Assessment for Clinical Research. CRI (2017)
Sheng Yu, Yumeng Ma, Jessica L. Gronsbell, Katherine P. Liao, Tianrun A. Cai, Ashwin N. Ananthakrishnan, Vivian S. Gainer, Susanne E. Churchill, Peter Szolovits, Shawn N. Murphy, Isaac S. Kohane, Tianxi Cai
High-throughput Phenotyping via Denoised Normal Mixture Transformation. AMIA (2017)
Heekyong Park, Taowei David Wang, Vivian S. Gainer, Victor M. Castro, Shawn N. Murphy
Building Better Timeline Interactions for Patient Chart Reviews. AMIA (2017)
Nich Wattanasin, Taowei David Wang, Bhaswati Ghosh, Reeta Metta, Vivian S. Gainer, Shawn N. Murphy
Export data from i2b2 using the new download data web client plugin. AMIA (2016)
Kavishwar B. Wagholikar, Joshua C. Mandel, Jeffrey G. Klann, Nich Wattanasin, Michael Mendis, Christopher G. Chute, Kenneth D. Mandl, Shawn N. Murphy
Read only SMART on FHIR Façade for I2b2. CRI (2016)
Jeffrey G. Klann, Vijay A. Raghavan, Douglas MacFadden, Sarah R. Weiler, Kenneth D. Mandl, Shawn N. Murphy
Data Topography of a Large Multi-Site Research Network. AMIA (2016)
Jeffrey G. Klann, Vijay A. Raghavan, Douglas MacFadden, Sarah Weiler, Kenneth D. Mandl, Shawn N. Murphy
Comparison of Two Distributed Data Network Approaches: Democratic and Self-Governed vs. Centrally Managed. CRI (2016)
Jeffrey G. Klann, Vijay A. Raghavan, Michael Mendis, Douglas MacFadden, Sarah R. Weiler, Kenneth D. Mandl, Shawn N. Murphy
Comparison of Data Models used in Research Data Repositories for Electronic Phenotyping. AMIA (2016)
Philip Trevvett, Shawn N. Murphy, Lori C. Phillips, Bhanu Bahl
Using Medication Terminologies NDF-RT and RxNorm for Implementing a Medications Ingredient Hierarchy in a SHRINE/i2b2 use case. CRI (2016)

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Shawn N. Murphy