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

25 January 2019

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

50 / 622 papers shown

Title
Optimizing Bi-Encoder for Named Entity Recognition via Contrastive Learning Sheng Zhang Hao Cheng Jianfeng Gao Hoifung Poon 38 47 0 30 Aug 2022
POPDx: An Automated Framework for Patient Phenotyping across 392,246 Individuals in the UK Biobank Study Lu Yang Sheng Wang Russ Altman LM&MA 21 5 0 23 Aug 2022
Review of Natural Language Processing in Pharmacology D. Trajanov Vangel Trajkovski Makedonka Dimitrieva Jovana Dobreva Milos Jovanovik Matej Klemen Alevs vZagar Marko Robnik-vSikonja LM&MA 36 7 0 22 Aug 2022
Graph-Augmented Cyclic Learning Framework for Similarity Estimation of Medical Clinical Notes Can Zheng Yanshan Wang X. Jia 40 0 0 19 Aug 2022
Non-Contrastive Self-supervised Learning for Utterance-Level Information Extraction from Speech Jaejin Cho Jesús Villalba Laureano Moro-Velazquez Najim Dehak SSL 39 18 0 10 Aug 2022
An Embarrassingly Easy but Strong Baseline for Nested Named Entity Recognition Hang Yan Yu Sun Xiaonan Li Xipeng Qiu 30 28 0 09 Aug 2022
A Multimodal Transformer: Fusing Clinical Notes with Structured EHR Data for Interpretable In-Hospital Mortality Prediction Weimin Lyu Xinyu Dong Rachel Wong Songzhu Zheng Kayley Abell-Hart Fusheng Wang Chao Chen 26 47 0 09 Aug 2022
Fine-Tuning BERT for Automatic ADME Semantic Labeling in FDA Drug Labeling to Enhance Product-Specific Guidance Assessment Yiwen Shi Jing Wang Ping Ren Taha ValizadehAslani Yi Zhang Meng Hu Hualou Liang AI4MH AAML 33 16 0 25 Jul 2022
PanGu-Coder: Program Synthesis with Function-Level Language Modeling Fenia Christopoulou Gerasimos Lampouras Milan Gritta Guchun Zhang Yinpeng Guo ... Guangtai Liang Jia Wei Xin Jiang Qianxiang Wang Qun Liu ELM SyDa ALM 47 74 0 22 Jul 2022
Multi-Level Fine-Tuning, Data Augmentation, and Few-Shot Learning for Specialized Cyber Threat Intelligence Markus Bayer Tobias Frey Christian A. Reuter AAML 29 15 0 22 Jul 2022
Natural language processing for clusterization of genes according to their functions Vladislav Dordiuk E. Demicheva Fernando Polanco Espino K. Ushenin 21 1 0 17 Jul 2022
Bi-PointFlowNet: Bidirectional Learning for Point Cloud Based Scene Flow Estimation Wencan Cheng J. Ko 3DPC 35 54 0 15 Jul 2022
PLM-ICD: Automatic ICD Coding with Pretrained Language Models Chao-Wei Huang Shang-Chi Tsai Yun-Nung Chen 43 49 0 12 Jul 2022
Developing an NLP-based Recommender System for the Ethical, Legal, and Social Implications of Synthetic Biology Damien Dablain Lilian Huang Brandon Sepulvado 26 0 0 10 Jul 2022
Win-Win Cooperation: Bundling Sequence and Span Models for Named Entity Recognition Bin Ji Shasha Li Jie Yu Jun Ma Huijun Liu 29 2 0 07 Jul 2022
BioTABQA: Instruction Learning for Biomedical Table Question Answering Man Luo S. Saxena Swaroop Mishra Mihir Parmar Chitta Baral LMTD 160 15 0 06 Jul 2022
Improving Low-Resource Speech Recognition with Pretrained Speech Models: Continued Pretraining vs. Semi-Supervised Training Mitchell DeHaven J. Billa VLM AI4TS 23 8 0 01 Jul 2022
GERNERMED++: Transfer Learning in German Medical NLP Johann Frei Ludwig Frei-Stuber Frank Kramer MedIm 41 8 0 29 Jun 2022
Knowledge Graph Construction and Its Application in Automatic Radiology Report Generation from Radiologist's Dictation Kaveri Kale P. Bhattacharyya A. Shetty Milind Gune Kush Shrivastava Rustom Lawyer Spriha Biswas MedIm 28 9 0 13 Jun 2022
Graph-in-Graph Network for Automatic Gene Ontology Description Generation Fenglin Liu Bang-ju Yang Chenyu You Xian Wu Shen Ge Adelaide Woicik Sheng Wang GNN 44 4 0 10 Jun 2022
SsciBERT: A Pre-trained Language Model for Social Science Texts Si Shen Jiang-fu Liu Litao Lin Ying Huang Lin Zhang Changting Liu Yu Feng Dongbo Wang 11 27 0 09 Jun 2022
Training Subset Selection for Weak Supervision Hunter Lang Aravindan Vijayaraghavan David Sontag NoLa 16 21 0 06 Jun 2022
FinBERT-MRC: financial named entity recognition using BERT under the machine reading comprehension paradigm Yuzhe Zhang Hong Zhang 51 27 0 31 May 2022
K-12BERT: BERT for K-12 education Vasu Goel Dhruv Sahnan Venktesh V Gaurav Sharma Deep Dwivedi Mukesh Mohania AI4Ed 30 5 0 24 May 2022
A reproducible experimental survey on biomedical sentence similarity: a string-based method sets the state of the art Alicia Lara-Clares Juan J. Lastra-Díaz A. García-Serrano 30 0 0 18 May 2022
PathologyBERT -- Pre-trained Vs. A New Transformer Language Model for Pathology Domain Thiago Santos Amara Tariq Susmita Das Kavyasree Vayalpati Geoffrey H. Smith Hari M. Trivedi Imon Banerjee LM&MA MedIm 25 17 0 13 May 2022
Clinical Prompt Learning with Frozen Language Models Niall Taylor Yi Zhang Dan W Joyce A. Nevado-Holgado Andrey Kormilitzin VLM LM&MA 16 31 0 11 May 2022
SuMe: A Dataset Towards Summarizing Biomedical Mechanisms Mohaddeseh Bastan N. Shankar Mihai Surdeanu Niranjan Balasubramanian 34 3 0 10 May 2022
Assigning Species Information to Corresponding Genes by a Sequence Labeling Framework Ling Luo Chih-Hsuan Wei Po-Ting Lai Qingyu Chen R. Dogan Zhiyong Lu 36 3 0 08 May 2022
AKI-BERT: a Pre-trained Clinical Language Model for Early Prediction of Acute Kidney Injury Chengsheng Mao Liang Yao Yuan Luo 21 1 0 07 May 2022
A Dataset for N-ary Relation Extraction of Drug Combinations Aryeh Tiktinsky Vijay Viswanathan Danna Niezni D. Azagury Y. Shamay Hillel Taub-Tabib Tom Hope Yoav Goldberg 37 18 0 04 May 2022
Seed-Guided Topic Discovery with Out-of-Vocabulary Seeds Yu Zhang Yu Meng Xuan Wang Sheng Wang Jiawei Han 68 14 0 04 May 2022
A Library Perspective on Nearly-Unsupervised Information Extraction Workflows in Digital Libraries H. Kroll Jan Pirklbauer Florian Plötzky Wolf-Tilo Balke 24 5 0 02 May 2022
POLITICS: Pretraining with Same-story Article Comparison for Ideology Prediction and Stance Detection Yujian Liu Xinliang Frederick Zhang David Wegsman Nick Beauchamp Lu Wang 40 71 0 02 May 2022
Crude Oil-related Events Extraction and Processing: A Transfer Learning Approach Meisin Lee Lay-Ki Soon Eu-Gene Siew 32 0 0 01 May 2022
On the Effect of Pretraining Corpora on In-context Learning by a Large-scale Language Model Seongjin Shin Sang-Woo Lee Hwijeen Ahn Sungdong Kim Hyoungseok Kim ... Kyunghyun Cho Gichang Lee W. Park Jung-Woo Ha Nako Sung LRM 38 94 0 28 Apr 2022
Cross-modal Memory Networks for Radiology Report Generation Zhihong Chen Yaling Shen Yan Song Xiang Wan MedIm 47 248 0 28 Apr 2022
Attention Mechanism in Neural Networks: Where it Comes and Where it Goes Derya Soydaner 3DV 49 150 0 27 Apr 2022
SkillSpan: Hard and Soft Skill Extraction from English Job Postings Mike Zhang Kristian Nørgaard Jensen Sif Dam Sonniks Barbara Plank 28 53 0 27 Apr 2022
CoVERT: A Corpus of Fact-checked Biomedical COVID-19 Tweets I. Mohr Amelie Wuhrl Roman Klinger OffRL 24 26 0 26 Apr 2022
KALA: Knowledge-Augmented Language Model Adaptation Minki Kang Jinheon Baek Sung Ju Hwang VLM KELM 36 34 0 22 Apr 2022
ICDBigBird: A Contextual Embedding Model for ICD Code Classification George Michalopoulos Michal Malyska Nicola Sahar Alexander Wong Helen H. Chen 27 20 0 21 Apr 2022
Decorate the Examples: A Simple Method of Prompt Design for Biomedical Relation Extraction Hui-Syuan Yeh Thomas Lavergne Pierre Zweigenbaum 26 10 0 21 Apr 2022
Recovering Patient Journeys: A Corpus of Biomedical Entities and Relations on Twitter (BEAR) Amelie Wuhrl Roman Klinger 30 4 0 21 Apr 2022
Multi-label classification for biomedical literature: an overview of the BioCreative VII LitCovid Track for COVID-19 literature topic annotations Qingyu Chen Alexis Allot Robert Leaman Rezarta Islamaj Dougan Jingcheng Du ... S. Pujari Mariia Chizhikova Naveen Sivadasan Naveen Sivadasan Zhiyong Lu 27 30 0 20 Apr 2022
Synthetic Target Domain Supervision for Open Retrieval QA Revanth Reddy Gangi Reddy Bhavani Iyer Md Arafat Sultan Rong Zhang Avirup Sil Vittorio Castelli Radu Florian Salim Roukos OOD 36 12 0 20 Apr 2022
LitMC-BERT: transformer-based multi-label classification of biomedical literature with an application on COVID-19 literature curation Qingyu Chen Jingcheng Du Alexis Allot Zhiyong Lu 24 25 0 19 Apr 2022
Multi-label topic classification for COVID-19 literature with Bioformer Li Fang Kai Wang 25 4 0 14 Apr 2022
EHRKit: A Python Natural Language Processing Toolkit for Electronic Health Record Texts Irene Z Li Keen You Yujie Qiao Lucas Huang Chia-Chun Hsieh Benjamin Rosand Xiangru Tang Dragomir R. Radev 53 4 0 13 Apr 2022
BioRED: A Rich Biomedical Relation Extraction Dataset Ling Luo Po-Ting Lai Chih-Hsuan Wei C. Arighi Zhiyong Lu 47 122 0 08 Apr 2022