Machine classification of melanoma and nevi from skin lesions. - John David Osborne; Song Gao 010; Wei-bang Chen; Aleodor Andea; Chengcui Zhang (SAC, 2011)

Evaluation of YTEX and MetaMap for Clinical Concept Recognition. - John David Osborne; Binod Gyawali; Thamar Solorio (CLEF (Working Notes), 2013)

CUAB: Supervised Learning of Disorders and their Attributes using Relations. - James Gung; John David Osborne; Steven Bethard (SemEval@NAACL-HLT, 2015)

Efficient identification of nationally mandated reportable cancer cases using natural language processing and machine learning. - John David Osborne; Matthew C. Wyatt; Andrew O. Westfall; James H. Willig; Steven Bethard; Geoffrey D. Gordon (J. Am. Medical Informatics Assoc., 2016)

Phenotype Detection Registry System (PheDRS) - Implementation of a Generalizable Single Institution Clinical Registry Architecture. - John David Osborne; Adarsh Khare; Donald D. Dempsey; James M. Wells; Matthew C. Wyatt; Geoffrey D. Gordon; Wayne H. Liang; James J. Cimino (AMIA, 2018)

CUILESS2016: a clinical corpus applying compositional normalization of text mentions. - John David Osborne; Matthew B. Neu; Maria I. Danila; Thamar Solorio; Steven J. Bethard (J. Biomed. Semant., 2018)

Identification of Gout Flares in Chief Complaint Text Using Natural Language Processing. - John D. Osborne; James S. Booth; Tobias O'Leary; Amy Mudano; Giovanna Rosas; Phillip Foster; Kenneth Saag; Maria I. Danila (AMIA, 2020)

AllergyMap: An Open Source Corpus of Allergy Mention Normalizations. - Amy Y. Wang; John D. Osborne; Maria I. Danila; Andrew Naidech; David M. Liebovitz (AMIA, 2020)

Empowering Team Science Across the Translational Spectrum with the UAB Biomedical Research Infrastructure Technology Enhancement (U-BRITE). - James J. Cimino; Wayne H. Liang; Jelai Wang; Dongmei Sun; John David Osborne; Amy Y. Wang; S. Louis Bridges; Matthew C. Wyatt; Jake Y. Chen (IRI, 2020)

Identification of Cancer Entities in Clinical Text Combining Transformers with Dictionary Features. - John D. Osborne; Tobias O'Leary; James Del Monte; Kuleen Sasse (IberLEF@SEPLN, 2020)

Towards Identification of Opiate Use Disorder in Clinical Text. - John D. Osborne; Tobias O'Leary; Abdullateef I. Almudaifer; Whitney L. Covington; Caleb M. Carroll; Ellen F. Eaton; Rachel A. Lee; Sue S. Feldman; Lauren Walter (AMIA, 2021)

An Open Natural Language Processing Development Framework for EHR-based Clinical Research: A case demonstration using the National COVID Cohort Collaborative (N3C). - Sijia Liu 002; Andrew Wen; Liwei Wang 010; Huan He; Sunyang Fu; Robert T. Miller; Andrew E. Williams; Daniel R. Harris; Ramakanth Kavuluru; Mei Liu; Noor Abu-El-Rub; Rui Zhang 028; et al. (CoRR, 2021)

BRATsynthetic: Text De-identification using a Markov Chain Replacement Strategy for Surrogate Personal Identifying Information. - John D. Osborne; Tobias O'Leary; Akhil Nadimpalli; Salma M. Aly; Richard E. Kennedy (CoRR, 2022)

The precision medicine process for treating rare disease using the artificial intelligence tool mediKanren. - Aleksandra Foksinska; Camerron M. Crowder; Andrew B. Crouse; Jeff Henrikson; William E. Byrd; Gregory Rosenblatt; Michael J. Patton; Kaiwen He; Thi K. Tran-Nguyen; Marissa Zheng; Stephen A. Ramsey; Nada Amin; et al. (Frontiers Artif. Intell., 2022)

Annotation of Opioid Use Disorder Entity Modifiers in Clinical Text. - Abdullateef I. Almudaifer; Sue S. Feldman; Tobias O'Leary; Whitney L. Covington; JaMor Hairston; Zachary Deitch; Estera Crisan; Kevin Riggs; Lauren Walter; John D. Osborne (MedInfo, 2023)

An open natural language processing (NLP) framework for EHR-based clinical research: a case demonstration using the National COVID Cohort Collaborative (N3C). - Sijia Liu 002; Andrew Wen; Liwei Wang 010; Huan He; Sunyang Fu; Robert T. Miller; Andrew E. Williams; Daniel R. Harris; Ramakanth Kavuluru; Mei Liu; Noor Abu-El-Rub; Dalton Schutte; et al. (J. Am. Medical Informatics Assoc., 2023)

Transfer Learning for the Prediction of Entity Modifiers in Clinical Text: Application to Opioid Use Disorder Case Detection. - Abdullateef I. Almudaifer; Tobias O'Leary; Whitney L. Covington; JaMor Hairston; Zachary Deitch; Ankit Anand; Caleb M. Carroll; Estera Crisan; William Bradford; Lauren Walter; Ellen F. Eaton; Sue S. Feldman; et al. (CoRR, 2024)

Disease Entity Recognition and Normalization is Improved with Large Language Model Derived Synthetic Normalized Mentions. - Kuleen Sasse; Shinjitha Vadlakonda; Richard E. Kennedy; John D. Osborne (CoRR, 2024)

Environment Scan of Generative AI Infrastructure for Clinical and Translational Science. - Betina Idnay; Zihan Xu; William G. Adams; Mohammad Adibuzzaman; Nicholas R. Anderson 001; Neil Bahroos; Douglas S. Bell; Cody Bumgardner; Thomas R. Campion Jr.; Victor M. Castro; James J. Cimino; I. Glenn Cohen; et al. (CoRR, 2024)

Mapping Bias in Vision Language Models: Signposts, Pitfalls, and the Road Ahead. - Kuleen Sasse; Shan Chen 004; Jackson Pond; Danielle S. Bitterman; John D. Osborne (CoRR, 2024)

Collaborative Resource for Intensive care Translational science, Informatics, Comprehensive Analytics, and Learning (CRITICAL). - Yuan Luo 001; Luke V. Rasmussen; Andrew Williams 005; Jared Houghtaling; Andrew P. Michelson; Philip R. O. Payne; James J. Cimino; John D. Osborne; Prasanth Nannapaneni; Yikuan Li; Saki Amagai; Meghan Hutch; et al. (Zenodo, 2024)

Multi-task transfer learning for the prediction of entity modifiers in clinical text: application to opioid use disorder case detection. - Abdullateef I. Almudaifer; Whitney L. Covington; JaMor Hairston; Zachary Deitch; Ankit Anand; Caleb M. Carroll; Estera Crisan; William Bradford; Lauren Walter; Ellen F. Eaton; Sue S. Feldman; John D. Osborne (J. Biomed. Semant., 2024)