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ORCIDNicholas P. Tatonetti
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2020 – today
- 2024
[j32]Jason Patterson, Nicholas P. Tatonetti:
KG-LIME: predicting individualized risk of adverse drug events for multiple sclerosis disease-modifying therapy. J. Am. Medical Informatics Assoc. 31(8): 1693-1703 (2024)- [j31]Jenna Kefeli, Nicholas P. Tatonetti:
TCGA-Reports: A machine-readable pathology report resource for benchmarking text-based AI models. Patterns 5(3): 100933 (2024) - [j30]Emily Wong, Ryan J. Urbanowicz
, Tiffani J. Bright, Nicholas P. Tatonetti, Yi-Wen Hsiao, Xiuzhen Huang, Jason H. Moore, Pei-Chen Peng:
Advancing LGBTQ+ inclusion in STEM education and AI research. Patterns 5(6): 101010 (2024) - [i3]Seyed Amir Ahmad Safavi-Naini, Shuhaib Ali, Omer Shahab, Zahra Shahhoseini, Thomas Savage, Sara Rafiee, Jamil S. Samaan, Reem Al Shabeeb, Farah Ladak, Jamie O. Yang, Juan Echavarria, Sumbal Babar, Aasma Shaukat, Samuel Margolis, Nicholas P. Tatonetti, Girish N. Nadkarni, Bara El Kurdi, Ali Soroush:
Vision-Language and Large Language Model Performance in Gastroenterology: GPT, Claude, Llama, Phi, Mistral, Gemma, and Quantized Models. CoRR abs/2409.00084 (2024) - 2023
- [j29]Jesse G. Meyer, Ryan J. Urbanowicz, Patrick C. N. Martin, Karen O'Connor, Ruowang Li, Pei-Chen Peng, Tiffani J. Bright, Nicholas P. Tatonetti, Kyoung-Jae Won, Graciela Gonzalez-Hernandez, Jason H. Moore:
ChatGPT and large language models in academia: opportunities and challenges. BioData Min. 16(1) (2023) - [j28]Jiheum Park, Michael G. Artin, Kate E. Lee, Benjamin L. May, Michael Park, Chin Hur, Nicholas P. Tatonetti:
Structured deep embedding model to generate composite clinical indices from electronic health records for early detection of pancreatic cancer. Patterns 4(1): 100636 (2023) - [j27]Vijendra Ramlall, Undina Gisladottir, Jenna Kefeli, Yutaro Tanaka, Benjamin L. May, Nicholas P. Tatonetti:
Using machine learning probabilities to identify effects of COVID-19. Patterns 4(12): 100889 (2023) - [i2]Jenna Kefeli, Ali Soroush, Courtney J. Diamond, Haley M. Zylberberg, Benjamin L. May, Julian A. Abrams, Chunhua Weng, Nicholas P. Tatonetti:
Large Language Models for Granularized Barrett's Esophagus Diagnosis Classification. CoRR abs/2308.08660 (2023) - 2022
- [j26]Jiheum Park, Michael G. Artin, Kate E. Lee, Yoanna S. Pumpalova, Myles A. Ingram, Benjamin L. May, Michael Park, Chin Hur, Nicholas P. Tatonetti:
Deep learning on time series laboratory test results from electronic health records for early detection of pancreatic cancer. J. Biomed. Informatics 131: 104095 (2022) - [c21]Amanda J. Moy, Kenrick Cato, Jennifer Withall, Nicholas P. Tatonetti, Eugene Y. Kim, Sarah Collins Rossetti:
Using Time Series Clustering to Segment and Infer Emergency Department Nursing Shifts from Electronic Health Record Log Files. AMIA 2022 - 2021
- [j25]Nicholas Giangreco, Nicholas P. Tatonetti:
Evaluating risk detection methods to uncover ontogenic-mediated adverse drug effect mechanisms in children. BioData Min. 14(1) (2021) - [j24]Xiayuan Huang, Nicholas P. Tatonetti, Katie Larow, Brooke Delgoffee, John Mayer, David Page, Scott J. Hebbring:
E-Pedigrees: a large-scale automatic family pedigree prediction application. Bioinform. 37(21): 3966-3968 (2021) - [j23]Ning Shang, Atlas Khan, Fernanda Polubriaginof, Francesca Zanoni, Karla Mehl, David Fasel, Paul E. Drawz, Robert J. Carroll, Joshua C. Denny, Matthew A. Hathcock, Adelaide M. Arruda-Olson, Peggy L. Peissig, Richard A. Dart, Murray H. Brilliant, Eric B. Larson, David S. Carrell, Sarah A. Pendergrass, Shefali Setia Verma, Marylyn D. Ritchie, Barbara Benoit, Vivian S. Gainer, Elizabeth W. Karlson, Adam S. Gordon, Gail P. Jarvik, Ian B. Stanaway, David R. Crosslin, Sumit Mohan, Iuliana Ionita-Laza, Nicholas P. Tatonetti, Ali G. Gharavi, George Hripcsak, Chunhua Weng, Krzysztof Kiryluk:
Medical records-based chronic kidney disease phenotype for clinical care and "big data" observational and genetic studies. npj Digit. Medicine 4 (2021) - [c20]Peter Washington, Serena Yeung, Bethany Percha, Nicholas P. Tatonetti, Jan T. Liphardt, Dennis P. Wall:
Achieving Trustworthy Biomedical Data Solutions. PSB 2021 - 2020
- [j22]Phyllis M. Thangaraj, Benjamin Kummer, Tal Lorberbaum, Mitchell S. V. Elkind, Nicholas P. Tatonetti:
Comparative analysis, applications, and interpretation of electronic health record-based stroke phenotyping methods. BioData Min. 13(1): 21 (2020) - [j21]Payal Chandak, Nicholas P. Tatonetti:
Using Machine Learning to Identify Adverse Drug Effects Posing Increased Risk to Women. Patterns 1(7): 100108 (2020) - [c19]Steven E. Brenner, Martha L. Bulyk, Dana C. Crawford, Alexander A. Morgan, Predrag Radivojac, Nicholas P. Tatonetti:
Session Introduction. PSB 2020: 547-550
2010 – 2019
- 2019
- [j20]Nicholas P. Tatonetti:
Translational medicine in the Age of Big Data. Briefings Bioinform. 20(2): 457-462 (2019) - [j19]Benjamin S. Glicksberg, Boris Oskotsky, Phyllis M. Thangaraj, Nicholas Giangreco, Marcus A. Badgeley, Kipp W. Johnson, Debajyoti Datta, Vivek A. Rudrapatna, Nadav Rappoport, Mark M. Shervey, Riccardo Miotto, Theodore C. Goldstein, Eugenia Rutenberg, Remi Frazier, Nelson Lee, Sharat Israni, Rick Larsen, Bethany Percha, Li Li, Joel T. Dudley, Nicholas P. Tatonetti, Atul J. Butte:
PatientExploreR: an extensible application for dynamic visualization of patient clinical history from electronic health records in the OMOP common data model. Bioinform. 35(21): 4515-4518 (2019) - [j18]Fernanda C. Polubriaginof, Patrick B. Ryan, Hojjat Salmasian, Andrea W. Shapiro, Adler J. Perotte, Monika M. Safford, George Hripcsak, Shaun Smith, Nicholas P. Tatonetti, David K. Vawdrey:
Challenges with quality of race and ethnicity data in observational databases. J. Am. Medical Informatics Assoc. 26(8-9): 730-736 (2019) - [j17]Olga Lyudovyk, Yufeng Shen, Nicholas P. Tatonetti, Susan J. Hsiao, Mahesh M. Mansukhani, Chunhua Weng:
Pathway analysis of genomic pathology tests for prognostic cancer subtyping. J. Biomed. Informatics 98 (2019) - [c18]Theresa A. Koleck, Suzanne R. Bakken, Nicholas P. Tatonetti:
Chronic Condition Symptom Enrichment from Electronic Health Records. AMIA 2019 - [c17]Fernanda C. Polubriaginof, Silis Y. Jiang, Nicholas P. Tatonetti, David K. Vawdrey:
Breast Cancer Screening Rates Among Family Members of Affected Relatives. AMIA 2019 - 2018
- [j16]Mary Regina Boland, Pradipta Parhi, Li Li, Riccardo Miotto, Robert J. Carroll, Usman Iqbal, Phung-Anh (Alex) Nguyen, Martijn J. Schuemie, Seng Chan You, Donahue Smith, Sean D. Mooney, Patrick B. Ryan, Yu-Chuan (Jack) Li, Rae Woong Park, Joshua C. Denny, Joel T. Dudley, George Hripcsak, Pierre Gentine, Nicholas P. Tatonetti:
Uncovering exposures responsible for birth season - disease effects: a global study. J. Am. Medical Informatics Assoc. 25(3): 275-288 (2018) - [j15]Khader Shameer, M. Mercedes Perez-Rodriguez, Roy Bachar, Li Li, Amy Johnson, Kipp W. Johnson, Benjamin S. Glicksberg, Milo R. Smith, Ben Readhead, Joseph Scarpa, Jebakumar Jebakaran, Patricia H. Kovatch, Sabina Lim, Wayne K. Goodman, David L. Reich, Andrew Kasarskis, Nicholas P. Tatonetti, Joel T. Dudley:
Pharmacological risk factors associated with hospital readmission rates in a psychiatric cohort identified using prescriptome data mining. BMC Medical Informatics Decis. Mak. 18(S-3): 79:1-79:11 (2018) - [c16]Theresa A. Koleck, Suzanne Bakken, Nicholas P. Tatonetti:
Comparison of Electronic Medication Orders Versus Administration Records for Identifying Prevalence of Postoperative Nausea and Vomiting. AMIA 2018 - [c15]Fernanda C. Polubriaginof, Ning Shang, George Hripcsak, Nicholas P. Tatonetti, David K. Vawdrey:
Low Screening Rates for Diabetes Mellitus Among Family Members of Affected Relatives. AMIA 2018 - [c14]Phyllis M. Thangaraj, Fernanda C. Polubriaginof, Benjamin Kummer, Rami Vanguri, Tal Lorberbaum, Joseph D. Romano, Kayla Quinnies, Alexandre Yahi, Mitchell S. V. Elkind, Nicholas P. Tatonetti:
Using model classifications as quantitative traits to estimate stroke heritability. AMIA 2018 - 2017
- [j14]Richard D. Boyce, Erica A. Voss, Vojtech Huser, Lee Evans, Christian G. Reich, Jon D. Duke, Nicholas P. Tatonetti, Tal Lorberbaum, Michel Dumontier, Manfred Hauben, Magnus Wallberg, Lili Peng, Sara Dempster, Yongqun He, Anthony G. Sena, Vassilis Koutkias, Pantelis Natsiavas, Patrick B. Ryan:
Large-scale adverse effects related to treatment evidence standardization (LAERTES): an open scalable system for linking pharmacovigilance evidence sources with clinical data. J. Biomed. Semant. 8(1): 11:1-11:15 (2017) - [j13]Robert Moskovitch, Fernanda Polubriaginof, Aviram Weiss, Patrick B. Ryan, Nicholas P. Tatonetti:
Procedure prediction from symbolic Electronic Health Records via time intervals analytics. J. Biomed. Informatics 75: 70-82 (2017) - [j12]Mary Regina Boland, Konrad J. Karczewski, Nicholas P. Tatonetti:
Ten Simple Rules to Enable Multi-site Collaborations through Data Sharing. PLoS Comput. Biol. 13(1) (2017) - [j11]Robert Moskovitch, Hyunmi Choi, George Hripcsak, Nicholas P. Tatonetti:
Prognosis of Clinical Outcomes with Temporal Patterns and Experiences with One Class Feature Selection. IEEE ACM Trans. Comput. Biol. Bioinform. 14(3): 555-563 (2017) - [c13]Kenrick Cato, Joseph D. Romano, Rami Vanguri, Nicholas P. Tatonetti:
The Use of Informatics to Reduce Disparities in Transgender Health. AMIA 2017 - [c12]Joseph D. Romano, Kenrick Cato, Rami Vanguri, Nicholas P. Tatonetti:
Deep recurrent neural networks identify transgender patients. AMIA 2017 - [c11]Fernanda Polubriaginof, Kayla Quinnies, Rami Vanguri, Alexandre Yahi, Mary Simmerling, Iuliana Ionita-Laza, Hojjat Salmasian, Suzanne Bakken, George Hripcsak, Krzysztof Kiryluk, David Goldstein, Nicholas P. Tatonetti, David K. Vawdrey:
Automated Identification of Families in Electronic Health Records to Support Clinical Research. CRI 2017 - [c10]Konrad J. Karczewski, Nicholas P. Tatonetti, Chirag J. Patel, Arjun K. Manrai, C. Titus Brown, John P. A. Ioannidis:
Session Introduction. PSB 2017: 117-119 - [c9]Khader Shameer, Kipp W. Johnson, Alexandre Yahi, Riccardo Miotto, Li Li, Doran Ricks, Jebakumar Jebakaran, Patricia H. Kovatch, Partho P. Sengupta, Annetine Gelijns, Alan Moskovitz, Bruce Darrow, David L. Reich, Andrew Kasarskis, Nicholas P. Tatonetti, Deborah F. Pinney, Joel T. Dudley:
Predictive Modeling of Hospital Readmission Rates Using Electronic Medical Record-Wide Machine Learning: A Case-Study Using Mount Sinai Heart Failure Cohort. PSB 2017: 276-287 - [i1]Alexandre Yahi, Rami Vanguri, Noémie Elhadad, Nicholas P. Tatonetti:
Generative Adversarial Networks for Electronic Health Records: A Framework for Exploring and Evaluating Methods for Predicting Drug-Induced Laboratory Test Trajectories. CoRR abs/1712.00164 (2017) - 2016
- [j10]Yun Hao, Nicholas P. Tatonetti:
Predicting G protein-coupled receptor downstream signaling by tissue expression. Bioinform. 32(22): 3435-3443 (2016) - [j9]Nir Nissim, Mary Regina Boland, Nicholas P. Tatonetti, Yuval Elovici, George Hripcsak, Yuval Shahar, Robert Moskovitch:
Improving condition severity classification with an efficient active learning based framework. J. Biomed. Informatics 61: 44-54 (2016) - [c8]Fernanda Polubriaginof, Hojjat Salmasian, Andrea W. Shapiro, Jennifer E. Prey, George Hripcsak, Adler J. Perotte, Nicholas P. Tatonetti, David K. Vawdrey:
Patient-provided Data Improves Race and Ethnicity Data Quality in Electronic Health Records. AMIA 2016 - [c7]Arjun K. Manrai, Chirag J. Patel, Nils Gehlenborg, Nicholas P. Tatonetti, John P. A. Ioannidis, Isaac S. Kohane:
Session Introduction. PSB 2016: 180-182 - 2015
- [j8]Mary Regina Boland, Nicholas P. Tatonetti, George Hripcsak:
Development and validation of a classification approach for extracting severity automatically from electronic health records. J. Biomed. Semant. 6: 14 (2015) - [j7]Mary Regina Boland, Zach Shahn, David Madigan, George Hripcsak, Nicholas P. Tatonetti:
Birth month affects lifetime disease risk: a phenome-wide method. J. Am. Medical Informatics Assoc. 22(5): 1042-1053 (2015) - [j6]Serkan Ayvaz, John R. Horn, Oktie Hassanzadeh, Qian Zhu, Johann Stan, Nicholas P. Tatonetti, Santiago Vilar, Mathias Brochhausen, Matthias Samwald, Majid Rastegar-Mojarad, Michel Dumontier, Richard D. Boyce:
Toward a complete dataset of drug-drug interaction information from publicly available sources. J. Biomed. Informatics 55: 206-217 (2015) - [j5]Alexandra Jacunski, Scott J. Dixon, Nicholas P. Tatonetti:
Connectivity Homology Enables Inter-Species Network Models of Synthetic Lethality. PLoS Comput. Biol. 11(10) (2015) - [c6]Nir Nissim, Mary Regina Boland, Robert Moskovitch, Nicholas P. Tatonetti, Yuval Elovici, Yuval Shahar, George Hripcsak:
An Active Learning Framework for Efficient Condition Severity Classification. AIME 2015: 13-24 - [c5]Atul J. Butte, Nigam Shah, Nicholas P. Tatonetti, Hua Xu, Ping Zhang:
Recent Advances in Computational Drug Repositioning. AMIA 2015 - [c4]Fernanda Polubriaginof, Nicholas P. Tatonetti, David K. Vawdrey:
An Assessment of Family History Information Captured in an Electronic Health Record. AMIA 2015 - [c3]Robert Moskovitch, Colin G. Walsh, Fei Wang, George Hripcsak, Nicholas P. Tatonetti:
Outcomes Prediction via Time Intervals Related Patterns. ICDM 2015: 919-924 - 2013
- [j4]Ryen W. White, Nicholas P. Tatonetti, Nigam H. Shah, Russ B. Altman, Eric Horvitz:
Web-scale pharmacovigilance: listening to signals from the crowd. J. Am. Medical Informatics Assoc. 20(3): 404-408 (2013) - [j3]Nicholas P. Tatonetti, Joshua C. Denny, Russ B. Altman:
Correspondence: Response to 'Use of an algorithm for identifying hidden drug-drug interactions in adverse event reports' by Gooden et al. J. Am. Medical Informatics Assoc. 20(3): 591 (2013) - 2012
- [j2]Nicholas P. Tatonetti, Guy Haskin Fernald, Russ B. Altman:
A novel signal detection algorithm for identifying hidden drug-drug interactions in adverse event reports. J. Am. Medical Informatics Assoc. 19(1): 79-85 (2012) - [c2]Konrad J. Karczewski, Robert P. Tirrell, Pablo Cordero, Nicholas P. Tatonetti, Joel T. Dudley, Keyan Salari, Michael Snyder, Russ B. Altman, Stuart K. Kim:
Interpretome: A Freely Available, Modular, and Secure Personal Genome Interpretation Engine. Pacific Symposium on Biocomputing 2012: 339-350 - 2010
- [j1]Nicholas P. Tatonetti, Joel Dudley, Hersh Sagreiya, Atul J. Butte, Russ B. Altman:
An integrative method for scoring candidate genes from association studies: application to warfarin dosing. BMC Bioinform. 11(S-9): S9 (2010) - [c1]Yael Garten, Nicholas P. Tatonetti, Russ B. Altman:
Improving the Prediction of Pharmacogenes Using Text-Derived Gene-Drug Relationships. Pacific Symposium on Biocomputing 2010: 305-314
Coauthor Index
Fernanda Polubriaginof
aka: Fernanda C. Polubriaginof
aka: Fernanda C. Polubriaginof
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