Vivian S. Gainer

According to our database, Vivian S. Gainer authored at least 35 papers between 2003 and 2024.

Collaborative distances:

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

2024

LATTE: Label-efficient incident phenotyping from longitudinal electronic health records.

Jun Wen, Jue Hou, Clara-Lea Bonzel, Yihan Zhao, Victor M. Castro, Vivian S. Gainer, Dana Weisenfeld, Tianrun Cai, Yuk-Lam Ho, Vidul Ayakulangara Panickan, Lauren Costa, Chuan Hong, J. Michael Gaziano, Katherine P. Liao, Junwei Lu, Kelly Cho, Tianxi Cai

Patterns, January, 2024

2022

Under-specification as the source of ambiguity and vagueness in narrative phenotype algorithm definitions.

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

BMC Medical Informatics Decis. Mak., 2022

The Mass General Brigham Biobank Portal: an i2b2-based data repository linking disparate and high-dimensional patient data to support multimodal analytics.

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

J. Am. Medical Informatics Assoc., 2022

2021

Medical records-based chronic kidney disease phenotype for clinical care and "big data" observational and genetic studies.

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

npj Digit. Medicine, 2021

A Novel Data Portal to Enable COVID-19 Data Integration and Analysis.

Nich Wattanasin, Victor M. Castro, Vivian S. Gainer, Barbara Benoit, Andrew Cagan, Reeta Metta, Shawn N. Murphy

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

Evaluation of the Portability of Natural Language Processing-based Computable Phenotypes in the eMERGE Network.

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

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

2020

sureLDA: A multidisease automated phenotyping method for the electronic health record.

Yuri Ahuja, Doudou Zhou, Zeling He, Jiehuan Sun, Victor M. Castro, Vivian S. Gainer, Shawn N. Murphy, Chuan Hong, Tianxi Cai

J. Am. Medical Informatics Assoc., 2020

HistoriView: An Interactive and Scalable Visual Exploratory Plugin for Longitudinal Patient Data Review.

Heekyong Park, Taowei David Wang, Vivian S. Gainer, Victor M. Castro, Nich Wattanasin, Shawn N. Murphy

Proceedings of the AMIA 2020, 2020

2019

Making work visible for electronic phenotype implementation: Lessons learned from the eMERGE network.

Ning Shang, Cong Liu, Luke V. Rasmussen, Casey N. Ta, Robert J. Carroll, Barbara Benoit, Todd Lingren, Ozan Dikilitas, Frank D. Mentch, David S. Carrell, Wei-Qi Wei, Yuan Luo, Vivian S. Gainer, Iftikhar J. Kullo, Jennifer A. Pacheco, Hakon Hakonarson, Theresa L. Walunas, Joshua C. Denny, Chunhua Weng

J. Biomed. Informatics, 2019

Facilitating phenotype transfer using a common data model.

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

J. Biomed. Informatics, 2019

High-throughput multimodal automated phenotyping (MAP) with application to PheWAS.

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

J. Am. Medical Informatics Assoc., 2019

Scalable Process to Generate Aggregated Patient Data for Analysis.

Nich Wattanasin, Taowei David Wang, Vivian S. Gainer, Shawn N. Murphy

Proceedings of the AMIA 2019, 2019

sureLDA: A Novel Multi-Disease Automated Phenotyping Method for the Electronic Health Record.

Yuri Ahuja, Doudou Zhou, Zeling He, Jiehuan Sun, Victor M. Castro, Vivian S. Gainer, Shawn N. Murphy, Chuan Hong, Tianxi Cai

Proceedings of the AMIA 2019, 2019

2018

Enabling phenotypic big data with PheNorm.

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

J. Am. Medical Informatics Assoc., 2018

A case study evaluating the portability of an executable computable phenotype algorithm across multiple institutions and electronic health record environments.

Jennifer A. Pacheco, Luke V. Rasmussen, Richard C. Kiefer, Thomas R. Campion Jr., Peter Speltz, Robert J. Carroll, Sarah C. Stallings, Huan Mo, Monika Ahuja, Guoqian Jiang, Eric R. LaRose, Peggy L. Peissig, Ning Shang, Barbara Benoit, Vivian S. Gainer, Kenneth Borthwick, Kathryn L. Jackson, Ambrish Sharma, Andy Yizhou Wu, Abel N. Kho, Dan M. Roden, Jyotishman Pathak, Joshua C. Denny, William K. Thompson

J. Am. Medical Informatics Assoc., 2018

High-Throughput Multimodal Automated Phenotyping (MAP) Incorporating Natural Language Processing with Application to PheWAS.

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

Proceedings of the AMIA 2018, 2018

2017

Surrogate-assisted feature extraction for high-throughput phenotyping.

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

J. Am. Medical Informatics Assoc., 2017

Applying Computed Phenotypes Derived from Electronic Health Records in the Partners HealthCare Biobank Using i2b2.

Victor M. Castro, Nich Wattanasin, Vivian S. Gainer, Bhaswati Ghosh, Shawn N. Murphy

Proceedings of the Summit on Clinical Research Informatics, 2017

High-throughput Phenotyping via Denoised Normal Mixture Transformation.

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

Proceedings of the AMIA 2017, 2017

Building Better Timeline Interactions for Patient Chart Reviews.

Heekyong Park, Taowei David Wang, Vivian S. Gainer, Victor M. Castro, Shawn N. Murphy

Proceedings of the AMIA 2017, 2017

2016

Defining a Statistically Valid Type 2 Diabetes Cohort in the Partners HealthCare EMR.

Alyssa P. Goodson, Andrew Cagan, Vivian S. Gainer, Christopher D. Herrick, Kelly Bell, Tianxi Cai, Shawn N. Murphy

Proceedings of the Summit on Clinical Research Informatics, 2016

Export data from i2b2 using the new download data web client plugin.

Nich Wattanasin, Taowei David Wang, Bhaswati Ghosh, Reeta Metta, Vivian S. Gainer, Shawn N. Murphy

Proceedings of the AMIA 2016, 2016

2015

Toward high-throughput phenotyping: unbiased automated feature extraction and selection from knowledge sources.

Sheng Yu, Katherine P. Liao, Stanley Y. Shaw, Vivian S. Gainer, Susanne E. Churchill, Peter Szolovits, Shawn N. Murphy, Isaac S. Kohane, Tianxi Cai

J. Am. Medical Informatics Assoc., 2015

Automatic identification of methotrexate-induced liver toxicity in patients with rheumatoid arthritis from the electronic medical record.

Chen Lin, Elizabeth W. Karlson, Dmitriy Dligach, Monica P. Ramirez, Timothy A. Miller, Huan Mo, Natalie S. Braggs, Andrew Cagan, Vivian S. Gainer, Joshua C. Denny, Guergana K. Savova

J. Am. Medical Informatics Assoc., 2015

Computable Phenotypes enabled by the i2b2 Validation Platform.

Shawn N. Murphy, Vivian S. Gainer, Victor M. Castro, Alyssa P. Goodson, Lori C. Phillips, Sheng Yu, Tianxi Cai

Proceedings of the AMIA 2015, 2015

Demonstrating the Advantages of Applying Data Mining Techniques on Time-Dependent Electronic Medical Records.

Uri Kartoun, Vishesh Kumar, Su-Chun Cheng, Sheng Yu, Katherine P. Liao, Elizabeth W. Karlson, Ashwin N. Ananthakrishnan, Zongqi Xia, Vivian S. Gainer, Andrew Cagan, Guergana Savova, Pei J. Chen, Shawn N. Murphy, Susanne E. Churchill, Isaac S. Kohane, Peter Szolovits, Tianxi Cai, Stanley Y. Shaw

Proceedings of the AMIA 2015, 2015

2014

Evaluation of matched control algorithms in EHR-based phenotyping studies: A case study of inflammatory bowel disease comorbidities.

Victor M. Castro, W. Kay Apperson, Vivian S. Gainer, Ashwin N. Ananthakrishnan, Alyssa P. Goodson, Taowei David Wang, Christopher D. Herrick, Shawn N. Murphy

J. Biomed. Informatics, 2014

Informatics for Integrating Biology and the Bedside (I2b2) Clinical Trials (CT) Patient Ascertainment Suite.

Shawn N. Murphy, Nich Wattanasin, Susanne E. Churchill, Isaac S. Kohane, Vivian S. Gainer

Proceedings of the AMIA 2014, 2014

Integrating Information from Unstructured Text with Structured Clinical Data from an Electronic Medical Record to Improve Patient Cohort Identification.

Victor M. Castro, Sergey Goryachev, Christopher Herrick, Vivian S. Gainer, Martin Rees, Shawn N. Murphy

Proceedings of the AMIA 2014, 2014

2012

Portability of an algorithm to identify rheumatoid arthritis in electronic health records.

Robert J. Carroll, William K. Thompson, Anne E. Eyler, Arthur M. Mandelin, Tianxi Cai, Raquel M. Zink, Jennifer A. Pacheco, Chad S. Boomershine, Thomas A. Lasko, Hua Xu, Elizabeth W. Karlson, Raúl G. Pérez, Vivian S. Gainer, Shawn N. Murphy, Eric M. Ruderman, Richard M. Pope, Robert M. Plenge, Abel N. Kho, Katherine P. Liao, Joshua C. Denny

J. Am. Medical Informatics Assoc., 2012

Implementing a pharmacovigilance framework using data from electronic medical records.

Victor M. Castro, Vivian S. Gainer, Christopher Herrick, Shawn N. Murphy, Wannapa Kay Mahamaneerat

Proceedings of the AMIA 2012, 2012

2011

Strategies for maintaining patient privacy in i2b2.

Shawn N. Murphy, Vivian S. Gainer, Michael Mendis, Susanne E. Churchill, Isaac S. Kohane

J. Am. Medical Informatics Assoc., 2011

2010

Serving the enterprise and beyond with informatics for integrating biology and the bedside (i2b2).

Shawn N. Murphy, Griffin M. Weber, Michael Mendis, Vivian S. Gainer, Henry C. Chueh, Susanne E. Churchill, Isaac S. Kohane

J. Am. Medical Informatics Assoc., 2010

2007

Architecture of the Open-source Clinical Research Chart from Informatics for Integrating Biology and the Bedside.

Shawn N. Murphy, Michael Mendis, Kristel Hackett, Rajesh Kuttan, Wensong Pan, Lori C. Phillips, Vivian S. Gainer, David Berkowicz, John P. Glaser, Isaac S. Kohane, Henry C. Chueh

Proceedings of the AMIA 2007, 2007

2003

A Visual Interface Designed for Novice Users to find Research Patient Cohorts in a Large Biomedical Database.

Shawn N. Murphy, Vivian S. Gainer, Henry C. Chueh

Proceedings of the AMIA 2003, 2003