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BioBERT: a pre-trained biomedical language representation model for
  biomedical text mining
v1v2v3v4 (latest)

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

25 January 2019
Jinhyuk Lee
Wonjin Yoon
Sungdong Kim
Donghyeon Kim
Sunkyu Kim
Chan Ho So
Jaewoo Kang
    OOD
ArXiv (abs)PDFHTMLGithub (689★)

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

50 / 1,900 papers shown
Ontology-based and User-focused Automatic Text Summarization (OATS):
  Using COVID-19 Risk Factors as an Example
Ontology-based and User-focused Automatic Text Summarization (OATS): Using COVID-19 Risk Factors as an Example
Po-Hsu Chen
Amy Leibrand
Jordan Vasko
M. Gauthier
72
1
0
18 Nov 2020
Predictions For Pre-training Language Models
Predictions For Pre-training Language Models
Tonglei Guo
142
0
0
18 Nov 2020
Biomedical Named Entity Recognition at Scale
Biomedical Named Entity Recognition at Scale
Veysel Kocaman
D. Talby
179
79
0
12 Nov 2020
Biomedical Information Extraction for Disease Gene Prioritization
Biomedical Information Extraction for Disease Gene Prioritization
Jupinder Parmar
William C. Koehler
Martin Bringmann
Katharina Sophia Volz
Berk Kapicioglu
126
7
0
10 Nov 2020
CODER: Knowledge infused cross-lingual medical term embedding for term
  normalization
CODER: Knowledge infused cross-lingual medical term embedding for term normalization
Zheng Yuan
Zhengyun Zhao
Haixia Sun
Jiao Li
Fei Wang
Sheng Yu
MedIm
201
114
0
05 Nov 2020
Extracting Chemical-Protein Interactions via Calibrated Deep Neural
  Network and Self-training
Extracting Chemical-Protein Interactions via Calibrated Deep Neural Network and Self-training
Dongha Choi
Hyunju Lee
96
5
0
04 Nov 2020
Analyzing Sustainability Reports Using Natural Language Processing
Analyzing Sustainability Reports Using Natural Language Processing
A. Luccioni
Emi Baylor
N. Duchêne
151
52
0
03 Nov 2020
Tabular Transformers for Modeling Multivariate Time Series
Tabular Transformers for Modeling Multivariate Time Series
Inkit Padhi
Yair Schiff
Igor Melnyk
Mattia Rigotti
Youssef Mroueh
Pierre Dognin
Jerret Ross
Ravi Nair
Erik Altman
LMTDAI4TS
285
113
0
03 Nov 2020
CMT in TREC-COVID Round 2: Mitigating the Generalization Gaps from Web
  to Special Domain Search
CMT in TREC-COVID Round 2: Mitigating the Generalization Gaps from Web to Special Domain Search
Chenyan Xiong
Zhenghao Liu
Si Sun
Zhuyun Dai
Kaitao Zhang
S. Yu
Zhiyuan Liu
Hoifung Poon
Jianfeng Gao
Paul N. Bennett
115
13
0
03 Nov 2020
BioNerFlair: biomedical named entity recognition using flair embedding
  and sequence tagger
BioNerFlair: biomedical named entity recognition using flair embedding and sequence tagger
Harsh Patel
102
8
0
03 Nov 2020
Analyzing the Effect of Multi-task Learning for Biomedical Named Entity
  Recognition
Analyzing the Effect of Multi-task Learning for Biomedical Named Entity Recognition
Arda Akdemir
T. Shibuya
127
4
0
01 Nov 2020
Investigation of BERT Model on Biomedical Relation Extraction Based on
  Revised Fine-tuning Mechanism
Investigation of BERT Model on Biomedical Relation Extraction Based on Revised Fine-tuning MechanismIEEE International Conference on Bioinformatics and Biomedicine (BIBM), 2020
P. Su
K. Vijay-Shanker
170
21
0
01 Nov 2020
Explainable Automated Coding of Clinical Notes using Hierarchical
  Label-wise Attention Networks and Label Embedding Initialisation
Explainable Automated Coding of Clinical Notes using Hierarchical Label-wise Attention Networks and Label Embedding InitialisationJournal of Biomedical Informatics (JBI), 2020
Hang Dong
Víctor Suárez-Paniagua
W. Whiteley
Honghan Wu
250
93
0
29 Oct 2020
Multiple Sclerosis Severity Classification From Clinical Text
Multiple Sclerosis Severity Classification From Clinical TextClinical Natural Language Processing Workshop (ClinicalNLP), 2020
Alister D Costa
Stefan Denkovski
Michal Malyska
S. Moon
Brandon Rufino
Zhen Yang
Taylor W. Killian
Marzyeh Ghassemi
141
12
0
29 Oct 2020
A Comprehensive Survey on Word Representation Models: From Classical to
  State-Of-The-Art Word Representation Language Models
A Comprehensive Survey on Word Representation Models: From Classical to State-Of-The-Art Word Representation Language Models
Usman Naseem
Imran Razzak
S. Khan
M. Prasad
224
185
0
28 Oct 2020
On the diminishing return of labeling clinical reports
On the diminishing return of labeling clinical reportsClinical Natural Language Processing Workshop (ClinicalNLP), 2020
Jean-Baptiste Lamare
Tobi Olatunji
Linxing Yao
114
3
0
27 Oct 2020
WNUT-2020 Task 1 Overview: Extracting Entities and Relations from Wet
  Lab Protocols
WNUT-2020 Task 1 Overview: Extracting Entities and Relations from Wet Lab Protocols
Jeniya Tabassum
Sydney Lee
Wei Xu
Alan Ritter
236
18
0
27 Oct 2020
Accelerating Training of Transformer-Based Language Models with
  Progressive Layer Dropping
Accelerating Training of Transformer-Based Language Models with Progressive Layer DroppingNeural Information Processing Systems (NeurIPS), 2020
Minjia Zhang
Yuxiong He
AI4CE
138
116
0
26 Oct 2020
HateBERT: Retraining BERT for Abusive Language Detection in English
HateBERT: Retraining BERT for Abusive Language Detection in English
Tommaso Caselli
Valerio Basile
Jelena Mitrović
Michael Granitzer
271
448
0
23 Oct 2020
A Survey on Recent Approaches for Natural Language Processing in
  Low-Resource Scenarios
A Survey on Recent Approaches for Natural Language Processing in Low-Resource ScenariosNorth American Chapter of the Association for Computational Linguistics (NAACL), 2020
Michael A. Hedderich
Lukas Lange
Heike Adel
Jannik Strötgen
Dietrich Klakow
656
347
0
23 Oct 2020
Text Mining to Identify and Extract Novel Disease Treatments From
  Unstructured Datasets
Text Mining to Identify and Extract Novel Disease Treatments From Unstructured Datasets
Rahul Yedida
S. Abrar
C. Melo-Filho
E. Muratov
Rada Y. Chirkova
A. Tropsha
77
1
0
22 Oct 2020
Clustering-based Inference for Biomedical Entity Linking
Clustering-based Inference for Biomedical Entity Linking
Rico Angell
Nicholas Monath
Sunil Mohan
Nishant Yadav
Andrew McCallum
305
4
0
21 Oct 2020
Explaining black-box text classifiers for disease-treatment information
  extraction
Explaining black-box text classifiers for disease-treatment information extraction
M. Moradi
Matthias Samwald
188
2
0
21 Oct 2020
CharacterBERT: Reconciling ELMo and BERT for Word-Level Open-Vocabulary
  Representations From Characters
CharacterBERT: Reconciling ELMo and BERT for Word-Level Open-Vocabulary Representations From CharactersInternational Conference on Computational Linguistics (COLING), 2020
Hicham El Boukkouri
Olivier Ferret
Thomas Lavergne
Hiroshi Noji
Pierre Zweigenbaum
Junichi Tsujii
309
171
0
20 Oct 2020
UmlsBERT: Clinical Domain Knowledge Augmentation of Contextual
  Embeddings Using the Unified Medical Language System Metathesaurus
UmlsBERT: Clinical Domain Knowledge Augmentation of Contextual Embeddings Using the Unified Medical Language System MetathesaurusNorth American Chapter of the Association for Computational Linguistics (NAACL), 2020
George Michalopoulos
Yuanxin Wang
H. Kaka
Helen H. Chen
Alexander Wong
269
136
0
20 Oct 2020
A Benchmark for Lease Contract Review
A Benchmark for Lease Contract Review
Spyretta Leivaditi
Julien Rossi
Evangelos Kanoulas
AILaw
284
43
0
20 Oct 2020
Explainable Automated Fact-Checking for Public Health Claims
Explainable Automated Fact-Checking for Public Health ClaimsConference on Empirical Methods in Natural Language Processing (EMNLP), 2020
Neema Kotonya
Francesca Toni
470
315
0
19 Oct 2020
SmartTriage: A system for personalized patient data capture,
  documentation generation, and decision support
SmartTriage: A system for personalized patient data capture, documentation generation, and decision support
Ilya Valmianski
Nave Frost
Navdeep Sood
Yang Wang
Baodong Liu
James J. Zhu
Sunil Karumuri
Ian M. Finn
D. Zisook
136
7
0
19 Oct 2020
Drug Repurposing for COVID-19 via Knowledge Graph Completion
Drug Repurposing for COVID-19 via Knowledge Graph Completion
Rui Zhang
D. Hristovski
Dalton Schutte
Andrej Kastrin
M. Fiszman
H. Kilicoglu
144
4
0
19 Oct 2020
TweetBERT: A Pretrained Language Representation Model for Twitter Text
  Analysis
TweetBERT: A Pretrained Language Representation Model for Twitter Text Analysis
Mohiuddin Md Abdul Qudar
Vijay K. Mago
SSeg
156
40
0
17 Oct 2020
Detecting ESG topics using domain-specific language models and data
  augmentation approaches
Detecting ESG topics using domain-specific language models and data augmentation approaches
Timothy Nugent
N. Stelea
Jochen L. Leidner
162
13
0
16 Oct 2020
Fine-Tuning Pre-trained Language Model with Weak Supervision: A
  Contrastive-Regularized Self-Training Approach
Fine-Tuning Pre-trained Language Model with Weak Supervision: A Contrastive-Regularized Self-Training Approach
Yue Yu
Simiao Zuo
Haoming Jiang
Wendi Ren
T. Zhao
Chao Zhang
AI4MH
333
133
0
15 Oct 2020
Pretrained Transformers for Text Ranking: BERT and Beyond
Pretrained Transformers for Text Ranking: BERT and Beyond
Jimmy J. Lin
Rodrigo Nogueira
Andrew Yates
VLM
785
697
0
13 Oct 2020
Aspect-based Document Similarity for Research Papers
Aspect-based Document Similarity for Research Papers
Malte Ostendorff
Terry Ruas
Till Blume
Bela Gipp
Georg Rehm
173
32
0
13 Oct 2020
RGCL at SemEval-2020 Task 6: Neural Approaches to Definition Extraction
RGCL at SemEval-2020 Task 6: Neural Approaches to Definition Extraction
Tharindu Ranasinghe
Alistair Plum
Constantin Orasan
R. Mitkov
NAI
60
2
0
13 Oct 2020
BioMegatron: Larger Biomedical Domain Language Model
BioMegatron: Larger Biomedical Domain Language Model
Hoo-Chang Shin
Yang Zhang
Evelina Bakhturina
Raul Puri
M. Patwary
Mohammad Shoeybi
Raghav Mani
AI4CE
206
163
0
12 Oct 2020
Improving Self-supervised Pre-training via a Fully-Explored Masked
  Language Model
Improving Self-supervised Pre-training via a Fully-Explored Masked Language Model
Ming Zheng
Dinghan Shen
Yelong Shen
Weizhu Chen
Lin Xiao
SSL
180
4
0
12 Oct 2020
Multi-Stage Pre-training for Low-Resource Domain Adaptation
Multi-Stage Pre-training for Low-Resource Domain Adaptation
Rong Zhang
Revanth Reddy Gangi Reddy
Md Arafat Sultan
Vittorio Castelli
Anthony Ferritto
Radu Florian
Efsun Sarioglu Kayi
Salim Roukos
Avirup Sil
T. Ward
181
45
0
12 Oct 2020
Extracting Angina Symptoms from Clinical Notes Using Pre-Trained
  Transformer Architectures
Extracting Angina Symptoms from Clinical Notes Using Pre-Trained Transformer Architectures
A. Eisman
Nishant R. Shah
Carsten Eickhoff
George Zerveas
Elizabeth S. Chen
Wen‐Chih Wu
I. Sarkar
37
8
0
12 Oct 2020
Predicting Clinical Trial Results by Implicit Evidence Integration
Predicting Clinical Trial Results by Implicit Evidence Integration
Qiao Jin
Chuanqi Tan
Mosha Chen
Xiaozhong Liu
Songfang Huang
176
10
0
12 Oct 2020
Information Extraction from Swedish Medical Prescriptions with
  Sig-Transformer Encoder
Information Extraction from Swedish Medical Prescriptions with Sig-Transformer EncoderClinical Natural Language Processing Workshop (ClinicalNLP), 2020
John N. Pougue Biyong
Bo Wang
Terry Lyons
A. Nevado-Holgado
MedIm
141
4
0
10 Oct 2020
Artificial Intelligence (AI) in Action: Addressing the COVID-19 Pandemic
  with Natural Language Processing (NLP)
Artificial Intelligence (AI) in Action: Addressing the COVID-19 Pandemic with Natural Language Processing (NLP)Annual Review of Biomedical Data Science (ARBDS), 2020
Qingyu Chen
Robert Leaman
Alexis Allot
Ling Luo
Chih-Hsuan Wei
Shankai Yan
Zhiyong Lu
257
40
0
09 Oct 2020
On the importance of pre-training data volume for compact language
  models
On the importance of pre-training data volume for compact language models
Vincent Micheli
Martin d'Hoffschmidt
Franccois Fleuret
203
45
0
08 Oct 2020
Infusing Disease Knowledge into BERT for Health Question Answering,
  Medical Inference and Disease Name Recognition
Infusing Disease Knowledge into BERT for Health Question Answering, Medical Inference and Disease Name Recognition
Yun He
Ziwei Zhu
Yin Zhang
Qin Chen
James Caverlee
AI4MH
244
113
0
08 Oct 2020
A Self-supervised Approach for Semantic Indexing in the Context of
  COVID-19 Pandemic
A Self-supervised Approach for Semantic Indexing in the Context of COVID-19 Pandemic
Nima Ebadi
Peyman Najafirad
OOD
117
2
0
07 Oct 2020
COMETA: A Corpus for Medical Entity Linking in the Social Media
COMETA: A Corpus for Medical Entity Linking in the Social Media
Marco Basaldella
Fangyu Liu
Ehsan Shareghi
Nigel Collier
181
92
0
07 Oct 2020
Contrastive Cross-Modal Pre-Training: A General Strategy for Small
  Sample Medical Imaging
Contrastive Cross-Modal Pre-Training: A General Strategy for Small Sample Medical Imaging
G. Liang
Connor Greenwell
Yu Zhang
Xiaoqin Wang
Ramakanth Kavuluru
Nathan Jacobs
461
26
0
06 Oct 2020
Neural Mask Generator: Learning to Generate Adaptive Word Maskings for
  Language Model Adaptation
Neural Mask Generator: Learning to Generate Adaptive Word Maskings for Language Model Adaptation
Minki Kang
Moonsu Han
Sung Ju Hwang
OOD
196
18
0
06 Oct 2020
LEGAL-BERT: The Muppets straight out of Law School
LEGAL-BERT: The Muppets straight out of Law SchoolFindings (Findings), 2020
Ilias Chalkidis
Manos Fergadiotis
Prodromos Malakasiotis
Nikolaos Aletras
Ion Androutsopoulos
AILaw
218
332
0
06 Oct 2020
PublishInCovid19 at WNUT 2020 Shared Task-1: Entity Recognition in Wet
  Lab Protocols using Structured Learning Ensemble and Contextualised
  Embeddings
PublishInCovid19 at WNUT 2020 Shared Task-1: Entity Recognition in Wet Lab Protocols using Structured Learning Ensemble and Contextualised Embeddings
Janvijay Singh
Anshul Wadhawan
213
4
0
05 Oct 2020
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