Events Calendar

Epstein Institute / ISE 651 Seminar Series

Speaker: Jimeng Sun, Associate Professor, School of Computational Science and Engineering, College of Computing, Georgia Institute of Technology

Talk Title: Computational Phenotyping on Electronic Health Records using Tensor Factorization

Abstract: As the adoption of electronic health records (EHRs) has grown, EHRs are now composed of a diverse array of data, including structured information (e.g., diagnoses, medications, and lab results), and unstructured clinical progress notes. The interactions among different data sources within an EHR are challenging to model, hampering our ability to leverage traditional analytic frameworks.

The goal of this project is to address these challenges by developing a general computational framework for transforming EHR data into meaningful phenotypes with only modest levels of expert guidance. We represent and analyze EHR data as inter-connected high-order relations i.e. tensors (e.g. tuples of patient-medication-diagnosis, patient-lab, and patient-symptoms). The proposed analytic framework generalizes several existing data mining methodologies, including dimensionality reduction, topic modeling and co-clustering, which all arise as limited special cases of analyzing second order tensors. It will also enable flexible refinement of candidates to incorporate feedback from domain experts.

The significance of the resulting phenotypes will have diverse clinical applications, including: a) cohort construction, where case and control patients are identified with respect to specific phenotype combinations; b) genome wide association studies (GWAS), where target phenotypes of patients are tested against DNA sequence variation for significant statistical associations; and c) clinical predictive modeling, where a model is developed to predict target phenotypes or diseases will be demonstrated. The framework is developed with public accessible data from MIMIC-II and CMS and validate in real clinical environments at Northwestern Memorial Hospital and VUMC through several high-impact disease targets (including hypertension, type 2 diabetes, hypothyroidism, atrial fibrillation, rheumatoid arthritis, and multiple sclerosis).


Biography: Jimeng Sun is an Associate Professor of School of Computational Science and Engineering at College of Computing in Georgia Institute of Technology. Prior to joining Georgia Tech, he was a research staff member at IBM TJ Watson Research Center. His research focuses on health analytics using electronic health records and data mining, especially in designing novel tensor analysis and similarity learning methods and developing large-scale predictive modeling systems.

Dr. Sun has worked on various healthcare applications such as computational phenotyping from electronic health records, heart failure onset prediction and hypertension control management. He has collaborated with many healthcare institutions including Vanderbilt university medical center, Children's healthcare of Atlanta, Center for Disease Control and Prevention (CDC), Geisinger Health System and Sutter Health.

He has published over 70 papers, filed over 20 patents (5 granted). He has received ICDM best research paper award in 2008, SDM best research paper award in 2007, and KDD Dissertation runner-up award in 2008. Dr. Sun received his B.S. and M.Phil. in Computer Science from Hong Kong University of Science and Technology in 2002 and 2003, and PhD in Computer Science from Carnegie Mellon University in 2007.

More Information: Seminar-Jimeng Sun.docx

Location: Ethel Percy Andrus Gerontology Center (GER) - 206

Audiences: Everyone Is Invited

Contact: Georgia Lum