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 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)

Yield and bias in defining a cohort study baseline from electronic health record data. - Jason Vassy; Yuk-Lam Ho; Jacqueline Honerlaw; Kelly Cho; J. Michael Gaziano; Peter W. F. Wilson; David R. Gagnon (J. Biomed. Informatics, 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)

Integrative High Dimensional Multiple Testing with Heterogeneity under Data Sharing Constraints. - Molei Liu; Yin Xia; Kelly Cho; Tianxi Cai (J. Mach. Learn. Res., 2021)

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)

SurvMaximin: Robust federated approach to transporting survival risk prediction models. - Xuan Wang; Harrison G. Zhang; Xin Xiong; Chuan Hong; Griffin M. Weber; Gabriel A. Brat; Clara-Lea Bonzel; Yuan Luo 001; Rui Duan 004; Nathan P. Palmer; Meghan R. Hutch; Alba Gutiérrez-Sacristán; 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)

International electronic health record-derived post-acute sequelae profiles of COVID-19 patients. - Harrison G. Zhang; Arianna Dagliati; Zahra Shakeri Hossein Abad; Xin Xiong; Clara-Lea Bonzel; Zongqi Xia; Bryce W. Q. Tan; Paul Avillach; Gabriel A. Brat; Chuan Hong; Michele Morris; Shyam Visweswaran; et al. (npj Digit. Medicine, 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)

Framework of the Centralized Interactive Phenomics Resource (CIPHER) standard for electronic health data-based phenomics knowledgebase. - Jacqueline Honerlaw; Yuk-Lam Ho; Francesca Fontin; Jeffrey Gosian; Monika Maripuri; Michael Murray; Rahul Sangar; Ashley Galloway; Andrew J. Zimolzak; Stacey B. Whitbourne; Juan P. Casas; Rachel B. Ramoni; et al. (J. Am. Medical Informatics Assoc., 2023)

Semi-supervised calibration of noisy event risk (SCANER) with electronic health records. - Chuan Hong; Liang Liang; Qianyu Yuan; Kelly Cho; Katherine P. Liao; Michael J. Pencina; David C. Christiani; Tianxi Cai (J. Biomed. Informatics, 2023)

VISION: Toward a Standardized Process for Radiology Image Management at the National Level. - Kathryn Knight; Ioana Danciu; Olga Ovchinnikova; Jacob D. Hinkle; Mayanka Chandra Shekar; Debangshu Mukherjee; Eileen McAllister; Caitlin Rizy; Kelly Cho; Amy C. Justice; Joseph Erdos; Peter Kuzmak; et al. (CoRR, 2024)

Domain Shift Analysis in Chest Radiographs Classification in a Veterans Healthcare Administration Population. - Mayanka Chandrashekar; Ian Goethert; Md Inzamam Ul Haque; Benjamin McMahon; Sayera Dhaubhadel; Kathryn Knight; Joseph Erdos; Donna Reagan; Caroline Taylor; Peter Kuzmak; John Michael Gaziano; Eileen McAllister; et al. (CoRR, 2024)

Unified Representation of Genomic and Biomedical Concepts through Multi-Task, Multi-Source Contrastive Learning. - Hongyi Yuan; Suqi Liu; Kelly Cho; Katherine P. Liao; Alexandre Pereira; Tianxi Cai (CoRR, 2024)

Centralized Interactive Phenomics Resource: an integrated online phenomics knowledgebase for health data users. - Jacqueline Honerlaw; Yuk-Lam Ho; Francesca Fontin; Michael Murray; Ashley Galloway; David Heise; Keith Connatser; Laura Davies; Jeffrey Gosian; Monika Maripuri; John Russo 001; Rahul Sangar; et al. (J. Am. Medical Informatics Assoc., 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; et al. (Patterns, 2024)

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)

Label efficient phenotyping for Long COVID using electronic health records. - Chuan Hong; Jun Wen; Harrison G. Zhang; Vidul Ayakulangara Panickan; Doris Yang; Alicia W. Chen; Xin Xiong; Xuan Wang; Michele Morris; Sara Morini; Rahul Sangar; Andrew Dey; et al. (npj Digit. Medicine, 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)