Improving EHR Chart Review Efficiency via Semantic Similarity Assessment. - Tianrun A. Cai; Andrew Beam; Stephanie Chan 002; Jacqueline Honerlaw; Yichi Zhang; David R. Gagnon; Kelly Cho; J. Michael Gaziano; Katherine P. Liao; Tianxi Cai (AMIA, 2017)

High-throughput Phenotyping via Denoised Normal Mixture Transformation. - Sheng Yu 002; 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 (AMIA, 2017)

Surrogate-assisted feature extraction for high-throughput phenotyping. - Sheng Yu 002; 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)

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 030; Jennifer E. Huffman; Jessica L. Gronsbell; Lauren Costa; Victor M. Castro; Vivian S. Gainer; Shawn N. Murphy; et al. (AMIA, 2018)

Unsupervised Ensemble Learning via Ising Model Approximation with Application to Phenotyping Prediction. - Luwan Zhang; Tianrun A. Cai (CoRR, 2018)

Enabling phenotypic big data with PheNorm. - Sheng Yu 002; 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)

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 030; Jennifer E. Huffman; Jessica L. Gronsbell; Yichi Zhang; Yuk-Lam Ho; Victor M. Castro; Vivian S. Gainer; et al. (J. Am. Medical Informatics Assoc., 2019)

Automated grouping of medical codes via multiview banded spectral clustering. - Luwan Zhang; Yichi Zhang; Tianrun A. Cai; Yuri Ahuja; Zeling He; Yuk-Lam Ho; Andrew Beam; Kelly Cho; Robert J. Carroll; Joshua C. Denny; Isaac S. Kohane; Katherine P. Liao; et al. (J. Biomed. Informatics, 2019)

EXTraction of EMR numerical data: an efficient and generalizable tool to EXTEND clinical research. - Tianrun A. Cai; Luwan Zhang; Nicole Yang; Kanako K. Kumamaru; Frank J. Rybicki; Tianxi Cai; Katherine P. Liao (BMC Medical Informatics Decis. Mak., 2019)

Clinical knowledge extraction via sparse embedding regression (KESER) with multi-center large scale electronic health record data. - 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; et al. (npj Digit. Medicine, 2021)

Knowledge-Driven Online Multimodal Automated Phenotyping System. - Molei Liu; Sara Morini; Xin Xiong; Chuan Hong; Clara-Lea Bonzel; Vidul Ayakulangara Panickan; Everett Neil Rush; Yuk-Lam Ho; Kelly Cho; J. Michael Gaziano; Katherine P. Liao; Tianxi Cai; et al. (AMIA, 2022)

Binary acronym disambiguation in clinical notes from electronic health records with an application in computational phenotyping. - Nicholas B. Link; Sicong Huang 005; Tianrun Cai; Jiehuan Sun; Kumar Dahal; Lauren Costa; Kelly Cho; Katherine P. Liao; Tianxi Cai; Chuan Hong (Int. J. Medical Informatics, 2022)

Scalable relevance ranking algorithm via semantic similarity assessment improves efficiency of medical chart review. - Tianrun Cai; Zeling He; Chuan Hong; Yichi Zhang; Yuk-Lam Ho; Jacqueline Honerlaw; Alon Geva; Vidul Ayakulangara Panickan; Amanda King; David R. Gagnon; J. Michael Gaziano; Kelly Cho; et al. (J. Biomed. Informatics, 2022)

Multiview Incomplete Knowledge Graph Integration with application to cross-institutional EHR data harmonization. - 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; et al. (J. Biomed. Informatics, 2022)

Multimodal representation learning for predicting molecule-disease relations. - Jun Wen; Xiang Zhang 012; Everett Neil Rush; Vidul Ayakulangara Panickan; Xingyu Li; Tianrun Cai; Doudou Zhou; Yuk-Lam Ho; Lauren Costa; Edmon Begoli; Chuan Hong; J. Michael Gaziano; et al. (Bioinform., 2023)

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; et al. (Patterns, 2024)

Identifying an Autoinflammatory Syndrome Cohort Using Natural Language Processing with Electronic Medical Record Data. - Maranda Russell; Aleksander Lenert; Katherine P. Liao; Tianrun Cai; Sujin Kim (BIOSTEC (2): HEALTHINF, 2025)

Utilizing RBC system for taxation policy evaluation: An adaptive interaction framework based on deep reinforcement learning. - Shuang Luo; Shunyu Liu 001; Tianrun Cai; Chao Wu 001 (Expert Syst. Appl., 2025)

ARCH: Large-scale knowledge graph via aggregated narrative codified health records analysis. - Ziming Gan; Doudou Zhou; Everett Neil Rush; Vidul Ayakulangara Panickan; Yuk-Lam Ho; George Ostrouchov; Zhiwei Xu; Shuting Shen; Xin Xiong; Kimberly F. Greco; Chuan Hong; Clara-Lea Bonzel; et al. (J. Biomed. Informatics, 2025)

DOME: Directional medical embedding vectors from Electronic Health Records. - Jun Wen; Hao Xue 005; Everett Neil Rush; Vidul Ayakulangara Panickan; Tianrun Cai; Doudou Zhou; Yuk-Lam Ho; Lauren Costa; Edmon Begoli; Chuan Hong; J. Michael Gaziano; Kelly Cho; et al. (J. Biomed. Informatics, 2025)

Representation Learning to Advance Multi-institutional Studies with Electronic Health Record Data. - Doudou Zhou; Han Tong; Linshanshan Wang; Suqi Liu; Xin Xiong; Ziming Gan; Romain Griffier; Boris P. Hejblum; Yun-Chung Liu; Chuan Hong; Clara-Lea Bonzel; Tianrun Cai; et al. (CoRR, 2025)