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Journal Articles
- 2021
[j3]Max Franz
, Jeffrey V. Wong, Metin Can Siper, Christian Dallago, John M. Giorgi, Emek Demir, Chris Sander, Gary D. Bader:
A flexible search system for high-accuracy identification of biological entities and molecules. J. Open Source Softw. 6(67): 3756 (2021)- 2020
- [j2]John M. Giorgi, Gary D. Bader:
Towards reliable named entity recognition in the biomedical domain. Bioinform. 36(1): 280-286 (2020) - 2018
- [j1]John M. Giorgi, Gary D. Bader:
Transfer learning for biomedical named entity recognition with neural networks. Bioinform. 34(23): 4087-4094 (2018)
Conference and Workshop Papers
- 2024
- [c7]John M. Giorgi, Amanpreet Singh, Doug Downey, Sergey Feldman, Lucy Lu Wang:
TOPICAL: TOPIC Pages AutomagicaLly. NAACL (Demonstrations) 2024: 1-11 - 2023
- [c6]John M. Giorgi, Augustin Toma, Ronald Xie, Sondra Chen, Kevin R. An, Grace X. Zheng, Bo Wang:
WangLab at MEDIQA-Chat 2023: Clinical Note Generation from Doctor-Patient Conversations using Large Language Models. ClinicalNLP@ACL 2023: 323-334 - [c5]John M. Giorgi, Luca Soldaini, Bo Wang, Gary D. Bader, Kyle Lo, Lucy Lu Wang, Arman Cohan:
Open Domain Multi-document Summarization: A Comprehensive Study of Model Brittleness under Retrieval. EMNLP (Findings) 2023: 8177-8199 - [c4]Saeid Alavi Naeini, Raeid Saqur, Mozhgan Saeidi, John M. Giorgi, Babak Taati:
Large Language Models are Fixated by Red Herrings: Exploring Creative Problem Solving and Einstellung Effect using the Only Connect Wall Dataset. NeurIPS 2023 - 2022
- [c3]John M. Giorgi, Gary D. Bader, Bo Wang:
A sequence-to-sequence approach for document-level relation extraction. BioNLP@ACL 2022: 10-25 - [c2]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, Matthias Samwald, Stephen H. Bach, Stella Biderman, Mario Sänger, Bo Wang, Alison Callahan, Daniel León Periñán, Théo Gigant, Patrick Haller, Jenny Chim, José D. Posada, John M. Giorgi, Karthik Rangasai Sivaraman, Marc Pàmies, Marianna Nezhurina, Robert Martin, Michael Cullan, Moritz Freidank, Nathan Dahlberg, Shubhanshu Mishra, Shamik Bose, Nicholas Broad, Yanis Labrak, Shlok Deshmukh, Sid Kiblawi, Ayush Singh, Minh Chien Vu, Trishala Neeraj, Jonas Golde, Albert Villanova del Moral, Benjamin Beilharz:
BigBio: A Framework for Data-Centric Biomedical Natural Language Processing. NeurIPS 2022 - 2021
- [c1]John M. Giorgi, Osvald Nitski, Bo Wang, Gary D. Bader:
DeCLUTR: Deep Contrastive Learning for Unsupervised Textual Representations. ACL/IJCNLP (1) 2021: 879-895
Informal and Other Publications
- 2024
- [i8]John M. Giorgi, Amanpreet Singh, Doug Downey, Sergey Feldman, Lucy Lu Wang:
TOPICAL: TOPIC Pages AutomagicaLly. CoRR abs/2405.01796 (2024) - 2023
- [i7]John M. Giorgi, Augustin Toma, Ronald Xie, Sondra Chen, Kevin R. An, Grace X. Zheng, Bo Wang:
Clinical Note Generation from Doctor-Patient Conversations using Large Language Models: Insights from MEDIQA-Chat. CoRR abs/2305.02220 (2023) - [i6]Saeid Alavi Naeini, Raeid Saqur, Mozhgan Saeidi, John M. Giorgi, Babak Taati:
Large Language Models are Fixated by Red Herrings: Exploring Creative Problem Solving and Einstellung Effect using the Only Connect Wall Dataset. CoRR abs/2306.11167 (2023) - 2022
- [i5]John M. Giorgi, Gary D. Bader, Bo Wang:
A sequence-to-sequence approach for document-level relation extraction. CoRR abs/2204.01098 (2022) - [i4]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, Matthias Samwald, Stephen H. Bach, Stella Biderman, Mario Sänger, Bo Wang, Alison Callahan, Daniel León Periñán, Théo Gigant, Patrick Haller, Jenny Chim, José David Posada, John Michael Giorgi, Karthik Rangasai Sivaraman, Marc Pàmies, Marianna Nezhurina, Robert Martin, Michael Cullan, Moritz Freidank, Nathan Dahlberg, Shubhanshu Mishra, Shamik Bose, Nicholas Michio Broad, Yanis Labrak, Shlok S. Deshmukh, Sid Kiblawi, Ayush Singh, Minh Chien Vu, Trishala Neeraj, Jonas Golde, Albert Villanova del Moral, Benjamin Beilharz:
BigBIO: A Framework for Data-Centric Biomedical Natural Language Processing. CoRR abs/2206.15076 (2022) - [i3]John M. Giorgi, Luca Soldaini, Bo Wang, Gary D. Bader, Kyle Lo, Lucy Lu Wang, Arman Cohan:
Exploring the Challenges of Open Domain Multi-Document Summarization. CoRR abs/2212.10526 (2022) - 2020
- [i2]John M. Giorgi, Osvald Nitski, Gary D. Bader, Bo Wang:
DeCLUTR: Deep Contrastive Learning for Unsupervised Textual Representations. CoRR abs/2006.03659 (2020) - 2019
- [i1]John M. Giorgi, Xindi Wang, Nicola Sahar, Won Young Shin, Gary D. Bader, Bo Wang:
End-to-end Named Entity Recognition and Relation Extraction using Pre-trained Language Models. CoRR abs/1912.13415 (2019)
Coauthor Index
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