Transfer learning for biomedical named entity recognition with neural networks. - John M. Giorgi; Gary D. Bader (Bioinform., 2018)

End-to-end Named Entity Recognition and Relation Extraction using Pre-trained Language Models. - John M. Giorgi; Xindi Wang 001; Nicola Sahar; Won Young Shin; Gary D. Bader; Bo Wang 044 (CoRR, 2019)

Towards reliable named entity recognition in the biomedical domain. - John M. Giorgi; Gary D. Bader (Bioinform., 2020)

DeCLUTR: Deep Contrastive Learning for Unsupervised Textual Representations. - John M. Giorgi; Osvald Nitski; Bo Wang 044; Gary D. Bader (ACL/IJCNLP (1), 2021)

A flexible search system for high-accuracy identification of biological entities and molecules. - Max Franz; Jeffrey V. Wong; Metin Can Siper; Christian Dallago; John M. Giorgi; Emek Demir; Chris Sander; Gary D. Bader (J. Open Source Softw., 2021)

A sequence-to-sequence approach for document-level relation extraction. - John M. Giorgi; Gary D. Bader; Bo Wang 044 (BioNLP@ACL, 2022)

BigBio: A Framework for Data-Centric Biomedical Natural Language Processing. - Jason A. Fries; Leon Weber; Natasha Seelam; Gabriel Altay; Debajyoti Datta; Samuele Garda; Sunny Kang; Rosaline Su; Wojciech Kusa; Samuel Cahyawijaya; Fabio Barth; Simon Ott; et al. (NeurIPS, 2022)

BigBIO: A Framework for Data-Centric Biomedical Natural Language Processing. - Jason Alan Fries; Leon Weber; Natasha Seelam; Gabriel Altay; Debajyoti Datta; Samuele Garda; Myungsun Kang; Ruisi Su; Wojciech Kusa; Samuel Cahyawijaya; Fabio Barth; Simon Ott; et al. (CoRR, 2022)

Exploring the Challenges of Open Domain Multi-Document Summarization. - John M. Giorgi; Luca Soldaini; Bo Wang 044; Gary D. Bader; Kyle Lo; Lucy Lu Wang; Arman Cohan (CoRR, 2022)

WangLab at MEDIQA-Chat 2023: Clinical Note Generation from Doctor-Patient Conversations using Large Language Models. - John M. Giorgi; Augustin Toma; Ronald Xie; Sondra Chen; Kevin R. An; Grace X. Zheng; Bo Wang 044 (ClinicalNLP@ACL, 2023)

Open Domain Multi-document Summarization: A Comprehensive Study of Model Brittleness under Retrieval. - John M. Giorgi; Luca Soldaini; Bo Wang 044; Gary D. Bader; Kyle Lo; Lucy Lu Wang; Arman Cohan (EMNLP (Findings), 2023)

Large Language Models are Fixated by Red Herrings: Exploring Creative Problem Solving and Einstellung Effect using the Only Connect Wall Dataset. - Saeid Alavi Naeini; Raeid Saqur; Mozhgan Saeidi; John M. Giorgi; Babak Taati (NeurIPS, 2023)

Clinical Note Generation from Doctor-Patient Conversations using Large Language Models: Insights from MEDIQA-Chat. - John M. Giorgi; Augustin Toma; Ronald Xie; Sondra Chen; Kevin R. An; Grace X. Zheng; Bo Wang 044 (CoRR, 2023)

TOPICAL: TOPIC Pages AutomagicaLly. - John M. Giorgi; Amanpreet Singh; Doug Downey; Sergey Feldman; Lucy Lu Wang (NAACL (Demonstrations), 2024)

A Study on the Application of Natural Language Processing Methods to Scientific Text - John Michael Giorgi (2024)

The Curious Language Model: Strategic Test-Time Information Acquisition. - Michael Cooper; Rohan Wadhawan; John Michael Giorgi; Chenhao Tan; Davis Liang (CoRR, 2025)

From Feedback to Checklists: Grounded Evaluation of AI-Generated Clinical Notes. - Karen Zhou 001; John M. Giorgi; Pranav Mani; Peng Xu; Davis Liang; Chenhao Tan (CoRR, 2025)