Lisa Bastarache

According to our database, Lisa Bastarache authored at least 39 papers between 2009 and 2024.

Collaborative distances:

• Dijkstra number of four.
• Erdős number of three.

2024

Identifying and Extracting Rare Diseases and Their Phenotypes with Large Language Models.

Cathy Shyr, Yan Hu, Lisa Bastarache, Alex Cheng, Rizwan Hamid, Paul A. Harris, Hua Xu

J. Heal. Informatics Res., June, 2024

Disentangling the phenotypic patterns of hypertension and chronic hypotension.

William W. Stead, Adam Lewis, Nunzia B. Giuse, Annette M. Williams, Italo Biaggioni, Lisa Bastarache

J. Biomed. Informatics, 2024

Comparison of phenomic profiles in the <i>All of Us</i> Research Program against the US general population and the UK Biobank.

Chenjie Zeng, David J. Schlueter, Tam C. Tran, Anav Babbar, Thomas Cassini, Lisa Bastarache, Joshua C. Denny

J. Am. Medical Informatics Assoc., 2024

2023

Systematic replication of smoking disease associations using survey responses and EHR data in the <i>All of Us</i> Research Program.

David J. Schlueter, Lina M. Sulieman, Huan Mo, Jacob M. Keaton, Tracey M. Ferrara, Ariel Williams, Jun Qian, Onajia J. Stubblefield, Chenjie Zeng, Tam C. Tran, Lisa Bastarache, Jian Dai, Anav Babbar, Andrea H. Ramirez, Slavina Goleva, Joshua C. Denny

J. Am. Medical Informatics Assoc., December, 2023

Next-generation phenotyping: introducing phecodeX for enhanced discovery research in medical phenomics.

Megan M. Shuey, William W. Stead, Ida Aka, April L. Barnado, Lisa Bastarache, Elly Brokamp, Meredith Campbell, Robert J. Carroll, Jeffrey A. Goldstein, Adam Lewis, Beth A. Malow, Jonathan D. Mosley, Travis Osterman, Dolly A Padovani-Claudio, Andrea Ramirez, Dan M. Roden, Bryce A Schuler, Edward Siew, Jennifer Sucre, Isaac Thomsen, Rory J. Tinker, Sara Van Driest, Colin Walsh, Jeremy L. Warner, Quinn Stanton Wells, Lee E. Wheless

Bioinform., October, 2023

Knowledgebase strategies to aid interpretation of clinical correlation research.

William W. Stead, Adam Lewis, Nunzia B. Giuse, Taneya Y. Koonce, Lisa Bastarache

J. Am. Medical Informatics Assoc., June, 2023

2022

The phers R package: using phenotype risk scores based on electronic health records to study Mendelian disease and rare genetic variants.

Layla Aref, Lisa Bastarache, Jacob J. Hughey

Bioinform., October, 2022

A research agenda to support the development and implementation of genomics-based clinical informatics tools and resources.

Ken Wiley, Laura Findley, Madison Goldrich, Tejinder K. Rakhra-Burris, Ana Stevens, Pamela Williams, Carol J. Bult, Rex L. Chisholm, Patricia Deverka, Geoffrey S. Ginsburg, Eric D. Green, Gail P. Jarvik, George A. Mensah, Erin Ramos, Mary V. Relling, Dan M. Roden, Robb Rowley, Gil Alterovitz, Samuel J. Aronson, Lisa Bastarache, James J. Cimino, Erin L. Crowgey, Guilherme Del Fiol, Robert R. Freimuth, Mark A. Hoffman, Janina M. Jeff, Kevin B. Johnson, Kensaku Kawamoto, Subha Madhavan, Eneida A. Mendonça, Lucila Ohno-Machado, Siddharth Pratap, Casey Overby Taylor, Marylyn D. Ritchie, Nephi Walton, Chunhua Weng, Teresa Zayas-Cabán, Teri A. Manolio, Marc S. Williams

J. Am. Medical Informatics Assoc., 2022

Cox regression is robust to inaccurate EHR-extracted event time: an application to EHR-based GWAS.

Rebecca Irlmeier, Jacob J. Hughey, Lisa Bastarache, Joshua C. Denny, Qingxia Chen

Bioinform., 2022

The PheRS R package: Phenotype risk score generation and analysis tool using electronic health record data.

Layla Aref, Lisa Bastarache, Jake Hughey

Proceedings of the AMIA 2022, 2022

2021

Phenotyping coronavirus disease 2019 during a global health pandemic: Lessons learned from the characterization of an early cohort.

Sarah DeLozier, Sarah Bland, Melissa McPheeters, Quinn Stanton Wells, Eric Farber-Eger, Cosmin Adrian Bejan, Daniel Fabbri, S. Trent Rosenbloom, Dan M. Roden, Kevin B. Johnson, Wei-Qi Wei, Josh F. Peterson, Lisa Bastarache

J. Biomed. Informatics, 2021

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.

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

J. Am. Medical Informatics Assoc., 2021

Systematic replication of smoking disease associations in the All of Us Research Program.

David J. Schlueter, Lina M. Sulieman, Jacob M. Keaton, Tracey Ferrara, Kyle Webb, Ariel Williams, Francis Ratsimbazafy, Jun Qian, Lisa Bastarache, Andrea H. Ramirez, Joshua C. Denny

Proceedings of the AMIA 2021, American Medical Informatics Association Annual Symposium, San Diego, CA, USA, October 30, 2021, 2021

Mapping the Read2/CTV3 controlled clinical terminologies to Phecodes in UK Biobank primary care electronic health records: implementation and evaluation.

Spiros C. Denaxas, Ge Liu, QiPing Feng, Ghazaleh Fatemifar, Lisa Bastarache, Vern Eric Kerchberger, Aroon D. Hingorani, R. Tom Lumbers, Josh F. Peterson, Wei-Qi Wei, Harry Hemingway

Proceedings of the AMIA 2021, American Medical Informatics Association Annual Symposium, San Diego, CA, USA, October 30, 2021, 2021

Using Genomic Association Replication Rates as an EHR Quality Measure via the Phenotype-Genotype Reference Map (PGRM).

Sarah DeLozier, Josh F. Peterson, Joshua C. Denny, Lisa Bastarache

Proceedings of the AMIA 2021, American Medical Informatics Association Annual Symposium, San Diego, CA, USA, October 30, 2021, 2021

2020

Developing a Phenotype Risk Score for Opioid Adverse Events.

Leigh Anne Tang, Sarah DeLozier, Lisa Bastarache, Colin Walsh, Joshua C. Denny

Proceedings of the AMIA 2020, 2020

2019

Improving the phenotype risk score as a scalable approach to identifying patients with Mendelian disease.

Lisa Bastarache, Jacob J. Hughey, Jeffery A. Goldstein, Julie A. Bastraache, Satya Das, Neil Charles Zaki, Chenjie Zeng, Leigh Anne Tang, Dan M. Roden, Joshua C. Denny

J. Am. Medical Informatics Assoc., 2019

2018

Computable Longitudinal Patient Trajectories.

Jeremy L. Warner, Guergana Savova, Noemie Elhadad, Lisa Bastarache, David Gotz

Proceedings of the AMIA 2018, 2018

2017

Evaluating electronic health record data sources and algorithmic approaches to identify hypertensive individuals.

Pedro L. Teixeira, Wei-Qi Wei, Robert M. Cronin, Huan Mo, Jacob P. VanHouten, Robert J. Carroll, Eric LaRose, Lisa Bastarache, S. Trent Rosenbloom, Todd L. Edwards, Dan M. Roden, Thomas A. Lasko, Richard A. Dart, Anne M. Nikolai, Peggy L. Peissig, Joshua C. Denny

J. Am. Medical Informatics Assoc., 2017

Association of BMI and Obesity Genetic Risk Score with Surgical Procedures Through a Procedure-wide Association Study.

Jamie R. Robinson, Zongyang Mou, Lisa Bastarache, Wei-Qi Wei, Robert J. Carroll, Joshua C. Denny

Proceedings of the AMIA 2017, 2017

Sub-Phenotyping of Crohn's Disease Using a Large Electronic Record Cohort.

Jamie R. Robinson, Lisa Bastarache, Robert J. Carroll, Elizabeth A. Scoville, David A. Schwartz, Joshua C. Denny

Proceedings of the AMIA 2017, 2017

2015

PheWAS Network Analysis and Visualization.

Yaomin Xu, Todd L. Edwards, Lisa Bastarache, Rebecca N. Jerome, Shilin Zho, Eric Torstenson, Wei-Qi Wei, Jana Shirey-Rice, Erica A. Bowton, Yu Shyr, Jill M. Pulley, Joshua C. Denny

Proceedings of the AMIA 2015, 2015

2014

R PheWAS: data analysis and plotting tools for phenome-wide association studies in the R environment.

Robert J. Carroll, Lisa Bastarache, Joshua C. Denny

Bioinform., 2014

Phenome-Wide Association Studies Using NLP-Derived Concepts.

Pedro L. Teixeira, Robert J. Carroll, Lisa Bastarache, Peter Speltz, Joshua C. Smith, Joshua C. Denny

Proceedings of the AMIA 2014, 2014

2013

Development and evaluation of an ensemble resource linking medications to their indications.

Wei-Qi Wei, Robert M. Cronin, Hua Xu, Thomas A. Lasko, Lisa Bastarache, Joshua C. Denny

J. Am. Medical Informatics Assoc., 2013

Validation and Enhancement of a Computable Medication Indication Resource (MEDI) Using a Large Practice-based Dataset.

Wei-Qi Wei, Jonathan D. Mosley, Lisa Bastarache, Joshua C. Denny

Proceedings of the AMIA 2013, 2013

Using PheWAS and Natural Language Processing to Discover Clinical Associations for Congenital Chest Deformities.

Christine M. McEvoy, Robert J. Carroll, Lisa Bastarache, Wei-Qi Wei, Joshua C. Denny

Proceedings of the AMIA 2013, 2013

A Natural Language Processing Algorithm to define a Venous Thromboembolism Phenotype.

Eugenia R. McPeek Hinz, Joshua C. Denny, Lisa Bastarache

Proceedings of the AMIA 2013, 2013

Open Source R Implementation of the PheWAS Methodology.

Robert J. Carroll, Lisa Bastarache, Joshua C. Denny

Proceedings of the AMIA 2013, 2013

Classifying ICD-9 codes into meaningful disease categories: A comparison between two coding systems.

Lisa Bastarache, Wei-Qi Wei, Joshua C. Denny

Proceedings of the AMIA 2013, 2013

2012

A General Purpose Phenotype Algorithm for Venous Thromboembolism Using Billing Codes and Natural Language Processing.

Eugenia R. McPeek Hinz, Lisa Bastarache, Joshua C. Denny

Proceedings of the 2012 IEEE Second International Conference on Healthcare Informatics, 2012

Comparing Diagnoses Recorded in Problem Lists vs. Administrative Codes.

Wei-Qi Wei, Lisa Bastarache, Joshua C. Denny

Proceedings of the AMIA 2012, 2012

Using PheWAS to Assess Pleiotropy of Genetic Risk Scores for Rheumatoid Arthritis and Coronary Artery Disease in the eMERGE Network.

Robert J. Carroll, Katherine P. Liao, Anne E. Eyler, Lisa Bastarache, Dana C. Crawford, Peggy L. Peissig, Jyotishman Pathak, David Carrell, Abel N. Kho, Rongling Li, Daniel R. Masys, Gail P. Jarvik, Christopher G. Chute, Rex L. Chisholm, Eric B. Larson, Catherine A. McCarty, Iftikhar J. Kullo

Proceedings of the AMIA 2012, 2012

Diabetes and Susceptibility to Infection: A Study of Lab Culture Results in the EMR.

Lisa Bastarache, Wei-Qi Wei, Joshua C. Denny

Proceedings of the AMIA 2012, 2012

2010

Integrating existing natural language processing tools for medication extraction from discharge summaries.

Son Doan, Lisa Bastarache, Sergio Klimkowski, Joshua C. Denny, Hua Xu

J. Am. Medical Informatics Assoc., 2010

Extracting timing and status descriptors for colonoscopy testing from electronic medical records.

Joshua C. Denny, Josh F. Peterson, Neesha N. Choma, Hua Xu, Randolph A. Miller, Lisa Bastarache, Neeraja B. Peterson

J. Am. Medical Informatics Assoc., 2010

PheWAS: demonstrating the feasibility of a phenome-wide scan to discover gene-disease associations.

Joshua C. Denny, Marylyn D. Ritchie, Melissa A. Basford, Jill M. Pulley, Lisa Bastarache, Kristin Brown-Gentry, Deede Wang, Daniel R. Masys, Dan M. Roden, Dana C. Crawford

Bioinform., 2010

2009

Tracking medical students' clinical experiences using natural language processing.

Joshua C. Denny, Lisa Bastarache, Elizabeth Ann Sastre, Anderson Spickard III

J. Biomed. Informatics, 2009

Development of a Natural Language Processing System to Identify Timing and Status of Colonoscopy Testing in Electronic Medical Records.

Joshua C. Denny, Josh F. Peterson, Neesha N. Choma, Hua Xu, Randolph A. Miller, Lisa Bastarache, Neeraja B. Peterson

Proceedings of the AMIA 2009, 2009