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BioBERT: a pre-trained biomedical language representation model for biomedical text mining

25 January 2019

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Papers citing "BioBERT: a pre-trained biomedical language representation model for biomedical text mining"

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Effective Unsupervised Domain Adaptation with Adversarially Trained Language ModelsConference on Empirical Methods in Natural Language Processing (EMNLP), 2020 Thuy-Trang Vu Dinh Q. Phung Gholamreza Haffari 217 25 0 05 Oct 2020
Cost-effective Selection of Pretraining Data: A Case Study of Pretraining BERT on Social MediaFindings (Findings), 2020 Xiang Dai Sarvnaz Karimi Ben Hachey Cécile Paris 210 36 0 02 Oct 2020
Data Transfer Approaches to Improve Seq-to-Seq Retrosynthesis Katsuhiko Ishiguro K. Ujihara R. Sawada Hirotaka Akita Masaaki Kotera 154 6 0 02 Oct 2020
An Empirical Investigation Towards Efficient Multi-Domain Language Model Pre-trainingConference on Empirical Methods in Natural Language Processing (EMNLP), 2020 Kristjan Arumae Q. Sun Parminder Bhatia 183 15 0 01 Oct 2020
Extracting Concepts for Precision Oncology from the Biomedical Literature N. Greenspan Yuqi Si Kirk Roberts 87 2 0 30 Sep 2020
Gender prediction using limited Twitter Data M. Burghoorn M. D. Boer S. Raaijmakers 97 1 0 29 Sep 2020
Zero-Shot Clinical Acronym Expansion via Latent Meaning Cells Griffin Adams Mert Ketenci Shreyas Bhave A. Perotte Noémie Elhadad BDL 211 0 0 29 Sep 2020
What Disease does this Patient Have? A Large-scale Open Domain Question Answering Dataset from Medical ExamsApplied Sciences (Appl. Sci.), 2020 Di Jin Eileen Pan Nassim Oufattole W. Weng Hanyi Fang Peter Szolovits FaML ELM LM&MA 420 1,229 0 28 Sep 2020
Unsupervised Pre-training for Biomedical Question AnsweringConference and Labs of the Evaluation Forum (CLEF), 2020 Vaishnavi Kommaraju K. Gunasekaran Kun Li Trapit Bansal Andrew McCallum Ivana Williams Ana-Maria Istrate SSL MedIm 159 18 0 27 Sep 2020
Machine Knowledge: Creation and Curation of Comprehensive Knowledge Bases Gerhard Weikum Luna Dong Simon Razniewski Fabian M. Suchanek 327 144 0 24 Sep 2020
Feature Adaptation of Pre-Trained Language Models across Languages and Domains with Robust Self-Training Hai Ye Qingyu Tan Ruidan He Juntao Li Hwee Tou Ng Lidong Bing VLM 176 7 0 24 Sep 2020
AnchiBERT: A Pre-Trained Model for Ancient ChineseLanguage Understanding and GenerationIEEE International Joint Conference on Neural Network (IJCNN), 2020 Huishuang Tian Kexin Yang Dayiheng Liu Jiancheng Lv 168 35 0 24 Sep 2020
Global-to-Local Neural Networks for Document-Level Relation ExtractionConference on Empirical Methods in Natural Language Processing (EMNLP), 2020 D. Wang Wei Hu E. Cao Weijian Sun NAI 171 135 0 22 Sep 2020
"When they say weed causes depression, but it's your fav antidepressant": Knowledge-aware Attention Framework for Relationship ExtractionPLoS ONE (PLOS ONE), 2020 S. Yadav Usha Lokala Raminta Daniulaityte K. Thirunarayan Francois R. Lamy A. Sheth 133 20 0 21 Sep 2020
Assessing the Severity of Health States based on Social Media PostsInternational Conference on Pattern Recognition (ICPR), 2020 S. Yadav Joy Prakash Sain A. Sheth Asif Ekbal S. Saha P. Bhattacharyya AI4MH 127 3 0 21 Sep 2020
BioALBERT: A Simple and Effective Pre-trained Language Model for Biomedical Named Entity RecognitionIEEE International Joint Conference on Neural Network (IJCNN), 2020 Usman Naseem Matloob Khushi V. Reddy S. Rajendran Imran Razzak Jinman Kim 125 71 0 19 Sep 2020
PhenoTagger: A Hybrid Method for Phenotype Concept Recognition using Human Phenotype Ontology Ling Luo Shankai Yan Po-Ting Lai Daniel Veltri Andrew J. Oler Sandhya Xirasagar R. Ghosh M. Similuk Peter N. Robinson Zhiyong Lu 140 56 0 17 Sep 2020
UPB at SemEval-2020 Task 11: Propaganda Detection with Domain-Specific Trained BERTInternational Workshop on Semantic Evaluation (SemEval), 2020 Andrei Paraschiv Dumitru-Clementin Cercel M. Dascalu 119 17 0 11 Sep 2020
Patient Cohort Retrieval using Transformer Language ModelsAmerican Medical Informatics Association Annual Symposium (AMIA), 2020 Sarvesh Soni Kirk Roberts 109 12 0 10 Sep 2020
High-throughput relation extraction algorithm development associating knowledge articles and electronic health records Yucong Lin Keming Lu Yulin Chen C. Hong Sheng Yu 104 5 0 08 Sep 2020
E-BERT: A Phrase and Product Knowledge Enhanced Language Model for E-commerce Denghui Zhang Zixuan Yuan Yanchi Liu Fuzhen Zhuang Haifeng Chen Hui Xiong 245 37 0 07 Sep 2020
Vapur: A Search Engine to Find Related Protein-Compound Pairs in COVID-19 LiteraturebioRxiv (bioRxiv), 2020 Abdullatif Köksal Hilal Dönmez Rıza Özçelik Elif Özkirimli Arzucan Özgür 133 13 0 05 Sep 2020
Multi-Perspective Semantic Information Retrieval Samarth Rawal Chitta Baral 72 4 0 03 Sep 2020
Biomedical named entity recognition using BERT in the machine reading comprehension frameworkJournal of Biomedical Informatics (JBI), 2020 Cong Sun Zhihao Yang Lei Wang Yin Zhang Hongfei Lin Jian Wang 208 108 0 03 Sep 2020
Automatic Assignment of Radiology Examination Protocols Using Pre-trained Language Models with Knowledge DistillationAmerican Medical Informatics Association Annual Symposium (AMIA), 2020 Wilson Lau Laura Aaltonen Martin Gunn Meliha Yetisgen-Yildiz 115 8 0 01 Sep 2020
TATL at W-NUT 2020 Task 2: A Transformer-based Baseline System for Identification of Informative COVID-19 English Tweets A. Nguyen MedIm 140 2 0 28 Aug 2020
Intimate Partner Violence and Injury Prediction From Radiology ReportsPacific Symposium on Biocomputing (PSB), 2020 Irene Y. Chen Emily Alsentzer Hyesun Park Richard Thomas B. Gosangi Rahul Gujrathi B. Khurana 149 22 0 28 Aug 2020
Repurposing TREC-COVID Annotations to Answer the Key Questions of CORD-19 Connor T. Heaton P. Mitra 99 2 0 27 Aug 2020
Query Focused Multi-document Summarisation of Biomedical TextsConference and Labs of the Evaluation Forum (CLEF), 2020 Diego Mollá Aliod Christopher Jones Vincent Nguyen 235 12 0 27 Aug 2020
Multimodal Learning for Cardiovascular Risk Prediction using EHR DataACM International Conference on Bioinformatics, Computational Biology and Biomedicine (ACM-BCB), 2020 A. Bagheri T. K. Groenhof W. B. Veldhuis P. A. Jong F. Asselbergs Daniel L. Oberski 137 20 0 27 Aug 2020
Conceptualized Representation Learning for Chinese Biomedical Text Mining Ningyu Zhang Qianghuai Jia Kangping Yin Liang Dong Feng Gao Nengwei Hua OOD 135 71 0 25 Aug 2020
Knowledge-Empowered Representation Learning for Chinese Medical Reading Comprehension: Task, Model and Resources Taolin Zhang Chengyu Wang Minghui Qiu Bite Yang Xiaofeng He Yanjie Liang 135 5 0 24 Aug 2020
Assigning function to protein-protein interactions: a weakly supervised BioBERT based approach using PubMed abstracts Aparna Elangovan Melissa J. Davis Karin Verspoor 131 8 0 20 Aug 2020
HunFlair: An Easy-to-Use Tool for State-of-the-Art Biomedical Named Entity Recognition Leon Weber Mario Sanger Jannes Munchmeyer Maryam Habibi Ulf Leser Alan Akbik 168 100 0 17 Aug 2020
Adding Recurrence to Pretrained Transformers for Improved Efficiency and Context Size Davis Yoshida Allyson Ettinger Kevin Gimpel AI4CE 191 7 0 16 Aug 2020
Prosody Learning Mechanism for Speech Synthesis System Without Text Length LimitInterspeech (Interspeech), 2020 Zhen Zeng Jianzong Wang Ning Cheng Jing Xiao 137 9 0 13 Aug 2020
Distantly Supervised Relation Extraction in Federated SettingsConference on Empirical Methods in Natural Language Processing (EMNLP), 2020 Dianbo Sui Yubo Chen Kang Liu Jun Zhao FedML 153 11 0 12 Aug 2020
Interpretable Multi-Step Reasoning with Knowledge Extraction on Complex Healthcare Question Answering Ye Liu Shaika Chowdhury Chenwei Zhang Cornelia Caragea Philip S. Yu 143 13 0 06 Aug 2020
Ontology-driven weak supervision for clinical entity classification in electronic health records Jason Alan Fries E. Steinberg S. Khattar Scott L. Fleming J. Posada A. Callahan N. Shah 251 76 0 05 Aug 2020
Antibody Watch: Text Mining Antibody Specificity from the Literature Chun-Nan Hsu Chia-Hui Chang Thamolwan Poopradubsil Amanda Lo Karen A. William Ko-Wei Lin A. Bandrowski I. B. Ozyurt J. Grethe M. Martone 93 3 0 05 Aug 2020
Effective Transfer Learning for Identifying Similar Questions: Matching User Questions to COVID-19 FAQs Clara H. McCreery Namit Katariya A. Kannan Manish Chablani X. Amatriain MedIm OOD 152 82 0 04 Aug 2020
Domain-Specific Language Model Pretraining for Biomedical Natural Language Processing Yu Gu Robert Tinn Hao Cheng Michael R. Lucas Naoto Usuyama Xiaodong Liu Tristan Naumann Jianfeng Gao Hoifung Poon LM&MA AI4CE 628 2,133 0 31 Jul 2020
COVID-19 therapy target discovery with context-aware literature miningIFIP Working Conference on Database Semantics (IWDS), 2020 Matej Martinc Blaž Škrlj S. Pirkmajer Nada Lavrac B. Cestnik Martin Marzidovsek Senja Pollak 139 9 0 30 Jul 2020
Biomedical and Clinical English Model Packages in the Stanza Python NLP Library Yuhao Zhang Yuhui Zhang Peng Qi Christopher D. Manning C. Langlotz 196 14 0 29 Jul 2020
Multi-Perspective Semantic Information Retrieval in the Biomedical Domain Samarth Rawal 94 4 0 17 Jul 2020
Green Algorithms: Quantifying the carbon footprint of computation Loïc Lannelongue Jason Grealey Michael Inouye 163 20 0 15 Jul 2020
GGPONC: A Corpus of German Medical Text with Rich Metadata Based on Clinical Practice GuidelinesInternational Workshop on Health Text Mining and Information Analysis (HTMIA), 2020 Florian Borchert Christina Lohr Luise Modersohn T. Langer M. Follmann J. Sachs U. Hahn M. Schapranow LM&MA AI4MH 148 28 0 13 Jul 2020
Searching Scientific Literature for Answers on COVID-19 Questions Vincent Nguyen Maciej Rybiński Sarvnaz Karimi Zhenchang Xing 153 4 0 06 Jul 2020
Robust Prediction of Punctuation and Truecasing for Medical ASR Monica Sunkara S. Ronanki Kalpit Dixit S. Bodapati Katrin Kirchhoff 290 37 0 04 Jul 2020
Coronavirus Knowledge Graph: A Case Study Chongyan Chen Islam Akef Ebeid Yi Bu Ying Ding 119 21 0 04 Jul 2020