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The integration of large language model (LLM) techniques in the field of medical analysis has brought about significant advancements, yet the scarcity of large, diverse, and well-annotated datasets remains a major challenge.
MedMentions: A Large Biomedical Corpus Annotated with UMLS Concepts
Sunil Mohan and Donghui Li. 2019 · 1902
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Clinical XLNet: Modeling Sequential Clinical Notes and Predicting Prolonged Mechanical Ventilation
Kexin Huang, Abhishek Singh, Sitong Chen, Edward T. Moseley, Chih-ying Deng, Naomi George, and Charlotta Lindvall. 2019 · 1912
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A Multi-Layered, XML-Based Approach to the Integration of Linguistic and Semantic Annotations
Paul Buitelaar, Thierry Declerck, Bogdan Sacaleanu, Špela Vintar, Diana Raileanu, and Claudia Crispi. 2003 · 2003
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Introduction to the Bio-entity Recognition Task at JNLPBA
Nigel Collier, Tomoko Ohta, Yoshimasa Tsuruoka, Yuka Tateisi, and Jin-Dong Kim. 2004 · 2004
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Language Models are Few-Shot Learners
Tom B. Brown, Benjamin Mann, Nick Ryder, Melanie Subbiah, Jared Kaplan, Prafulla Dhariwal, Arvind Neelakantan, Pranav Shyam, Girish Sastry, Amanda Askell, Sandhini Agarwal, Ariel Herbert-Voss, Gretchen Krueger, Tom Henighan, Rewon Child, Aditya Ramesh, Daniel M. Ziegler, Jeffrey Wu, Clemens Winter, Christopher Hesse, Mark Chen, Eric Sigler, Mateusz Litwin, Scott Gray, Benjamin Chess, Jack Clark, Christopher Berner, Sam McCandlish, Alec Radford, Ilya Sutskever, and Dario Amodei. 2020 · 2005
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Overview of BioCreAtIvE: Critical assessment of information extraction for biology
Lynette Hirschman, Alexander Yeh, Christian Blaschke, and Alfonso Valencia. 2005 · 2005
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Domain-Specific Language Model Pretraining for Biomedical Natural Language Processing
Yu Gu, Robert Tinn, Hao Cheng, Michael Lucas, Naoto Usuyama, Xiaodong Liu, Tristan Naumann, Jianfeng Gao, and Hoifung Poon. 2021 · 2007
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Clara H. McCreery, Namit Katariya, Anitha Kannan, Manish Chablani, and Xavier Amatriain. 2020 · 2008
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Overview of BioNLP’09 Shared Task on Event Extraction
Jin-Dong Kim, Tomoko Ohta, Sampo Pyysalo, Yoshinobu Kano, and Jun’ichi Tsujii. 2009 · 2009
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LINNAEUS: A species name identification system for biomedical literature
Martin Gerner, Goran Nenadic, and Casey M. Bergman. 2010 · 2010
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Explainable Automated Fact-Checking for Public Health Claims
Neema Kotonya and Francesca Toni. 2020 · 2010
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Overview of the Entity Relations (REL) supporting task of BioNLP Shared Task 2011
Sampo Pyysalo, Tomoko Ohta, and Jun’ichi Tsujii. 2011 · 2011
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Open-domain Anatomical Entity Mention Detection
Tomoko Ohta, Sampo Pyysalo, Jun’ichi Tsujii, and Sophia Ananiadou. 2012 · 2012
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Event extraction across multiple levels of biological organization
Sampo Pyysalo, Tomoko Ohta, Makoto Miwa, Han-Cheol Cho, Jun’ichi Tsujii, and Sophia Ananiadou. 2012 · 2012
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Automatic semantic classification of scientific literature according to the hallmarks of cancer
Simon Baker, Ilona Silins, Yufan Guo, Imran Ali, Johan Högberg, Ulla Stenius, and Anna Korhonen. 2016 · 2016
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BioCreative V CDR task corpus: A resource for chemical disease relation extraction
Jiao Li, Yueping Sun, Robin J. Johnson, Daniela Sciaky, Chih-Hsuan Wei, Robert Leaman, Allan Peter Davis, Carolyn J. Mattingly, Thomas C. Wiegers, and Zhiyong Lu. 2016 · 2016
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Normalising Medical Concepts in Social Media Texts by Learning Semantic Representation
Nut Limsopatham and Nigel Collier. 2016 · 2016
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BIOSSES: A semantic sentence similarity estimation system for the biomedical domain
Gizem Soğancıoğlu, Hakime Öztürk, and Arzucan Özgür. 2017 · 2017
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Bio-SimVerb and Bio-SimLex: Wide-coverage evaluation sets of word similarity in biomedicine
Billy Chiu, Sampo Pyysalo, Ivan Vulić, and Anna Korhonen. 2018 · 2018
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SciTaiL: A Textual Entailment Dataset from Science Question Answering
Tushar Khot, Ashish Sabharwal, and Peter Clark. 2018 · 2018
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A Large Parallel Corpus of Full-Text Scientific Articles
Felipe Soares, Viviane Moreira, and Karin Becker. 2018 · 2018
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FEVER: A large-scale dataset for Fact Extraction and VERification
James Thorne, Andreas Vlachos, Christos Christodoulopoulos, and Arpit Mittal. 2018 · 2018
Cited alongside, same era.
On the Summarization of Consumer Health Questions
Asma Ben Abacha and Dina Demner-Fushman. 2019 · 2019
Cited alongside, same era.
Overview of the MEDIQA 2019 Shared Task on Textual Inference, Question Entailment and Question Answering
Asma Ben Abacha, Chaitanya Shivade, and Dina Demner-Fushman. 2019 · 2019
Cited alongside, same era.
Structural Scaffolds for Citation Intent Classification in Scientific Publications
Arman Cohan, Waleed Ammar, Madeleine van Zuylen, and Field Cady. 2019 · 2019
Cited alongside, same era.
BioRelEx 1.0: Biological Relation Extraction Benchmark
Hrant Khachatrian, Lilit Nersisyan, Karen Hambardzumyan, Tigran Galstyan, Anna Hakobyan, Arsen Arakelyan, Andrey Rzhetsky, and Aram Galstyan. 2019 · 2019
Cited alongside, same era.
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, Matthias Samwald, Stephen Bach, Stella Biderman, Mario Sänger, Bo Wang, Alison Callahan, Daniel León Periñán, Théo Gigant, Patrick Haller, Jenny Chim, Jose 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, and Benjamin Beilharz. 2022 · 2022
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Introducing chatgpt
OpenAI. 2022 · 2022
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Training language models to follow instructions with human feedback
Long Ouyang, Jeff Wu, Xu Jiang, Diogo Almeida, Carroll L. Wainwright, Pamela Mishkin, Chong Zhang, Sandhini Agarwal, Katarina Slama, Alex Ray, John Schulman, Jacob Hilton, Fraser Kelton, Luke Miller, Maddie Simens, Amanda Askell, Peter Welinder, Paul Christiano, Jan Leike, and Ryan Lowe. 2022 · 2022
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In-BoXBART: Get Instructions into Biomedical Multi-Task Learning
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A corpus of plant–disease relations in the biomedical domain
Baeksoo Kim, Wonjun Choi, and Hyunju Lee. 2019 · 2019
Cited alongside, same era.
Transfer Learning in Biomedical Natural Language Processing: An Evaluation of BERT and ELMo on Ten Benchmarking Datasets
Yifan Peng, Shankai Yan, and Zhiyong Lu. 2019 · 2019
Cited alongside, same era.
Automated recognition of functional compound-protein relationships in literature
Kersten Döring, Ammar Qaseem, Michael Becer, Jianyu Li, Pankaj Mishra, Mingjie Gao, Pascal Kirchner, Florian Sauter, Kiran K. Telukunta, Aurélien F. A. Moumbock, Philippe Thomas, and Stefan Günther. 2020 · 2020
Cited alongside, same era.
BioBERT: A pre-trained biomedical language representation model for biomedical text mining
Jinhyuk Lee, Wonjin Yoon, Sungdong Kim, Donghyeon Kim, Sunkyu Kim, Chan Ho So, and Jaewoo Kang. 2020 · 2020
Cited alongside, same era.
Multi-XScience: A Large-scale Dataset for Extreme Multi-document Summarization of Scientific Articles
Yao Lu, Yue Dong, and Laurent Charlin. 2020 · 2020
Cited alongside, same era.
Fact or Fiction: Verifying Scientific Claims
David Wadden, Shanchuan Lin, Kyle Lo, Lucy Lu Wang, Madeleine van Zuylen, Arman Cohan, and Hannaneh Hajishirzi. 2020 · 2020
Cited alongside, same era.
MeDAL: Medical Abbreviation Disambiguation Dataset for Natural Language Understanding Pretraining
Zhi Wen, Xing Han Lu, and Siva Reddy. 2020 · 2020
Cited alongside, same era.
Mihir Parmar, Swaroop Mishra, Mirali Purohit, Man Luo, M. Hassan Murad, and Chitta Baral. 2022 · 2022
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Multitask Prompted Training Enables Zero-Shot Task Generalization
Victor Sanh, Albert Webson, Colin Raffel, Stephen H. Bach, Lintang Sutawika, Zaid Alyafeai, Antoine Chaffin, Arnaud Stiegler, Teven Le Scao, Arun Raja, Manan Dey, M. Saiful Bari, Canwen Xu, Urmish Thakker, Shanya Sharma Sharma, Eliza Szczechla, Taewoon Kim, Gunjan Chhablani, Nihal Nayak, Debajyoti Datta, Jonathan Chang, Mike Tian-Jian Jiang, Han Wang, Matteo Manica, Sheng Shen, Zheng Xin Yong, Harshit Pandey, Rachel Bawden, Thomas Wang, Trishala Neeraj, Jos Rozen, Abheesht Sharma, Andrea Santilli, Thibault Fevry, Jason Alan Fries, Ryan Teehan, Tali Bers, Stella Biderman, Leo Gao, Thomas Wolf, and Alexander M. Rush. 2022 · 2022
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Super-NaturalInstructions: Generalization via Declarative Instructions on 1600+ NLP Tasks
Yizhong Wang, Swaroop Mishra, Pegah Alipoormolabashi, Yeganeh Kordi, Amirreza Mirzaei, Anjana Arunkumar, Arjun Ashok, Arut Selvan Dhanasekaran, Atharva Naik, David Stap, Eshaan Pathak, Giannis Karamanolakis, Haizhi Gary Lai, Ishan Purohit, Ishani Mondal, Jacob Anderson, Kirby Kuznia, Krima Doshi, Maitreya Patel, Kuntal Kumar Pal, Mehrad Moradshahi, Mihir Parmar, Mirali Purohit, Neeraj Varshney, Phani Rohitha Kaza, Pulkit Verma, Ravsehaj Singh Puri, Rushang Karia, Shailaja Keyur Sampat, Savan Doshi, Siddhartha Mishra, Sujan Reddy, Sumanta Patro, Tanay Dixit, Xudong Shen, Chitta Baral, Yejin Choi, Noah A. Smith, Hannaneh Hajishirzi, and Daniel Khashabi. 2022 · 2022
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Finetuned Language Models Are Zero-Shot Learners
Jason Wei, Maarten Bosma, Vincent Y. Zhao, Kelvin Guu, Adams Wei Yu, Brian Lester, Nan Du, Andrew M. Dai, and Quoc V. Le. 2022 · 2022
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MedAlpaca – An Open-Source Collection of Medical Conversational AI Models and Training Data
Tianyu Han, Lisa C. Adams, Jens-Michalis Papaioannou, Paul Grundmann, Tom Oberhauser, Alexander Löser, Daniel Truhn, and Keno K. Bressem. 2023 · 2023
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Albert Q. Jiang, Alexandre Sablayrolles, Arthur Mensch, Chris Bamford, Devendra Singh Chaplot, Diego de las Casas, Florian Bressand, Gianna Lengyel, Guillaume Lample, Lucile Saulnier, Lélio Renard Lavaud, Marie-Anne Lachaux, Pierre Stock, Teven Le Scao, Thibaut Lavril, Thomas Wang, Timothée Lacroix, and William El Sayed. 2023 · 2023
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ChatDoctor: A Medical Chat Model Fine-Tuned on a Large Language Model Meta-AI (LLaMA) Using Medical Domain Knowledge
Yunxiang Li, Zihan Li, Kai Zhang, Ruilong Dan, Steve Jiang, and You Zhang. 2023 · 2023
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The Flan Collection: Designing Data and Methods for Effective Instruction Tuning
Shayne Longpre, Le Hou, Tu Vu, Albert Webson, Hyung Won Chung, Yi Tay, Denny Zhou, Quoc V. Le, Barret Zoph, Jason Wei, and Adam Roberts. 2023 · 2023
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Stanford alpaca: An instruction-following llama model
Rohan Taori, Ishaan Gulrajani, Tianyi Zhang, Yann Dubois, Xuechen Li, Carlos Guestrin, Percy Liang, and Tatsunori B. Hashimoto. 2023 · 2023
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LLaMA: Open and Efficient Foundation Language Models
Hugo Touvron, Thibaut Lavril, Gautier Izacard, Xavier Martinet, Marie-Anne Lachaux, Timothée Lacroix, Baptiste Rozière, Naman Goyal, Eric Hambro, Faisal Azhar, Aurelien Rodriguez, Armand Joulin, Edouard Grave, and Guillaume Lample. 2023 · 2023
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PMC-LLaMA: Towards Building Open-source Language Models for Medicine
Chaoyi Wu, Weixiong Lin, Xiaoman Zhang, Ya Zhang, Yanfeng Wang, and Weidi Xie. 2023 · 2023
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Baize: An Open-Source Chat Model with Parameter-Efficient Tuning on Self-Chat Data
Canwen Xu, Daya Guo, Nan Duan, and Julian McAuley. 2023 · 2023
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BioMistral: A Collection of Open-Source Pretrained Large Language Models for Medical Domains
Yanis Labrak, Adrien Bazoge, Emmanuel Morin, Pierre-Antoine Gourraud, Mickael Rouvier, and Richard Dufour. 2024 · 2024
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Introducing Meta Llama 3: The most capable openly available LLM to date
Meta. 2024 · 2024
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OpenAI. 2024 · 2024
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Towards building multilingual language model for medicine
Pengcheng Qiu, Chaoyi Wu, Xiaoman Zhang, Weixiong Lin, Haicheng Wang, Ya Zhang, Yanfeng Wang, and Weidi Xie. 2024 · 2024
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AlpaCare:Instruction-tuned Large Language Models for Medical Application
Xinlu Zhang, Chenxin Tian, Xianjun Yang, Lichang Chen, Zekun Li, and Linda Ruth Petzold. 2024 · 2024
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