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Cross-type Biomedical Named Entity Recognition with Deep Multi-Task Learning

30 January 2018

Xuan Wang

Yu Zhang

Xiang Ren

Papers citing "Cross-type Biomedical Named Entity Recognition with Deep Multi-Task Learning"

50 / 52 papers shown

Title
Effective Multi-Task Learning for Biomedical Named Entity Recognition João Ruano Gonçalo M. Correia Leonor Barreiros Afonso Mendes 103 0 0 24 Jul 2025
VANER: Leveraging Large Language Model for Versatile and Adaptive Biomedical Named Entity Recognition Junyi Bian W. Zhai Xiaodi Huang Jiaxuan Zheng Shanfeng Zhu 240 7 0 27 Apr 2024
Inspire the Large Language Model by External Knowledge on BioMedical Named Entity Recognition Junyi Bian Jiaxuan Zheng Yuyi Zhang Shanfeng Zhu 135 13 0 21 Sep 2023
DMNER: Biomedical Entity Recognition by Detection and MatchingIEEE International Conference on Bioinformatics and Biomedicine (BIBM), 2023 Junyi Bian Rongze Jiang W. Zhai Tianyang Huang Hong Zhou Shanfeng Zhu 186 4 0 27 Jun 2023
Pre-training Multi-task Contrastive Learning Models for Scientific Literature UnderstandingConference on Empirical Methods in Natural Language Processing (EMNLP), 2023 Yu Zhang Hao Cheng Zhihong Shen Xiaodong Liu Yejiang Wang Jianfeng Gao 230 18 0 23 May 2023
Biomedical Named Entity Recognition via Dictionary-based Synonym GeneralizationConference on Empirical Methods in Natural Language Processing (EMNLP), 2023 Z. Fu Yixuan Su Zaiqiao Meng Nigel Collier MedIm 166 5 0 22 May 2023
A Biomedical Entity Extraction Pipeline for Oncology Health Records in PortugueseACM Symposium on Applied Computing (SAC), 2023 Hugo Sousa Arian Pasquali A. Jorge Catarina Sousa Santos Mário Amorim Lopes 72 2 0 18 Apr 2023
A Comparative Study of Pretrained Language Models for Long Clinical Text Yikuan Li R. M. Wehbe F. Ahmad Hanyin Wang Yuan Luo LM&MA ELM VLM MedIm 223 109 0 27 Jan 2023
AIONER: All-in-one scheme-based biomedical named entity recognition using deep learning Ling Luo Chih-Hsuan Wei Po-Ting Lai Robert Leaman Qingyu Chen Zhiyong Lu 250 41 0 30 Nov 2022
AF Adapter: Continual Pretraining for Building Chinese Biomedical Language ModelIEEE International Conference on Bioinformatics and Biomedicine (BIBM), 2022 Yongyu Yan Kui Xue Xiaoming Shi Qi Ye Jingping Liu Tong Ruan CLL 167 4 0 21 Nov 2022
Hero-Gang Neural Model For Named Entity RecognitionNorth American Chapter of the Association for Computational Linguistics (NAACL), 2022 Jinpeng Hu Yaling Shen Yang Liu Xiang Wan Tsung-Hui Chang 112 19 0 15 May 2022
A review of knowledge graph application scenarios in cyber security Kai-Chun Liu Fei Wang Zhaoyun Ding Sheng Liang Zhengfei Yu Yun Zhou 127 20 0 10 Apr 2022
Clinical-Longformer and Clinical-BigBird: Transformers for long clinical sequences Yikuan Li R. M. Wehbe F. Ahmad Hanyin Wang Yuan Luo VLM MedIm 472 125 0 27 Jan 2022
Razmecheno: Named Entity Recognition from Digital Archive of Diaries "Prozhito" Timofey Atnashev V. Ganeeva Roman S. Kazakov Daria Matyash Michael Sonkin E. Voloshina O. Serikov Ekaterina Artemova 87 2 0 24 Jan 2022
A Multi-modal Fusion Framework Based on Multi-task Correlation Learning for Cancer Prognosis Prediction Kaiwen Tan Weixian Huang Xiaofeng Liu Jinlong Hu Shoubin Dong 129 53 0 22 Jan 2022
BERN2: an advanced neural biomedical named entity recognition and normalization tool Mujeen Sung Minbyul Jeong Yonghwa Choi Donghyeon Kim Jinhyuk Lee Jaewoo Kang MedIm 243 121 0 06 Jan 2022
Semantics-Preserved Distortion for Personal Privacy Protection in Information ManagementInternational Conference on Artificial Neural Networks (ICANN), 2022 Jiajia Li Peijie Wang Letian Peng Shitou Zhang Xueyi Li Zuchao Li Haihui Zhao 97 1 0 04 Jan 2022
Few-shot Named Entity Recognition with Cloze Questions V. Gatta V. Moscato Marco Postiglione Giancarlo Sperlí 129 4 0 24 Nov 2021
Lights, Camera, Action! A Framework to Improve NLP Accuracy over OCR documents Amit Gupte Alexey Romanov Sahitya Mantravadi Dalitso Banda Jianjie Liu Raza Khan Lakshmanan Ramu Meenal Benjamin Han Soundar Srinivasan 195 13 0 06 Aug 2021
Clinical Named Entity Recognition using Contextualized Token Representations Yichao Zhou C. Ju J. H. Caufield Kevin J. Shih Calvin Yu‐Chian Chen Luke Huan Kai-Wei Chang Peipei Ping Wei Wang 158 13 0 23 Jun 2021
PharmKE: Knowledge Extraction Platform for Pharmaceutical Texts using Transfer LearningDe Computis (DC), 2021 Nasi Jofche Kostadin Mishev Riste Stojanov Milos Jovanovik D. Trajanov 130 18 0 25 Feb 2021
Spark NLP: Natural Language Understanding at Scale Veysel Kocaman D. Talby 148 72 0 26 Jan 2021
How Do Your Biomedical Named Entity Recognition Models Generalize to Novel Entities?IEEE Access (IEEE Access), 2021 Hyunjae Kim Jaewoo Kang AI4CE 401 23 0 01 Jan 2021
Domain specific BERT representation for Named Entity Recognition of lab protocol Tejas Vaidhya Ayush Kaushal 121 9 0 21 Dec 2020
Biomedical Named Entity Recognition at Scale Veysel Kocaman D. Talby 146 78 0 12 Nov 2020
Low-Resource Adaptation of Neural NLP Models Farhad Nooralahzadeh 130 0 0 09 Nov 2020
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 Arda Akdemir T. Shibuya 127 4 0 01 Nov 2020
Disease Normalization with Graph EmbeddingsIntelligent Systems with Applications (ISA), 2020 D. Pujary C. Thorne Wilker Aziz MedIm AI4CE 143 8 0 24 Oct 2020
Multi-domain Clinical Natural Language Processing with MedCAT: the Medical Concept Annotation Toolkit Z. Kraljevic Thomas Searle Anthony Shek Lukasz Roguski Kawsar Noor ... A. Shah W. K. Wong Zina M. Ibrahim J. Teo Richard J. B. Dobson AI4MH 300 190 0 02 Oct 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 204 106 0 03 Sep 2020
Learning Boost by Exploiting the Auxiliary Task in Multi-task Domain Jonghwa Yim Sang Hwan Kim 108 2 0 05 Aug 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
COVID-19 Literature Knowledge Graph Construction and Drug Repurposing Report Generation Qingyun Wang Pengfei Yu Xuan Wang Nikolaus Nova Parulian G. Han ... Ahmed Elsayed Martha Palmer Clare Voss Cynthia Schneider Boyan A. Onyshkevych 253 122 0 01 Jul 2020
A Deep Learning Pipeline for Patient Diagnosis Prediction Using Electronic Health Records Leopold Franz Yash Raj Shrestha B. Paudel OOD 132 26 0 23 Jun 2020
DeepVar: An End-to-End Deep Learning Approach for Genomic Variant Recognition in Biomedical Literature Chaoran Cheng Fei Tan Zhi Wei 169 8 0 05 Jun 2020
An Empirical Study of Multi-Task Learning on BERT for Biomedical Text MiningWorkshop on Biomedical Natural Language Processing (BioNLP), 2020 Yifan Peng Qingyu Chen Zhiyong Lu 169 124 0 06 May 2020
Biomedical Entity Representations with Synonym MarginalizationAnnual Meeting of the Association for Computational Linguistics (ACL), 2020 Mujeen Sung Hwisang Jeon Jinhyuk Lee Jaewoo Kang 221 147 0 01 May 2020
MT-Clinical BERT: Scaling Clinical Information Extraction with Multitask Learning Andriy Mulyar Bridget T. McInnes 136 63 0 21 Apr 2020
MT-BioNER: Multi-task Learning for Biomedical Named Entity Recognition using Deep Bidirectional Transformers Muhammad Raza Khan Morteza Ziyadi M. Abdelhady MedIm 104 48 0 24 Jan 2020
Knowledge Guided Named Entity Recognition for BioMedical Text Pratyay Banerjee Kuntal Kumar Pal M. Devarakonda Chitta Baral 179 0 0 10 Nov 2019
Progress Notes Classification and Keyword Extraction using Attention-based Deep Learning Models with BERT Matthew Tang P. Gandhi Md. Ahsanul Kabir C. Zou J. Blakey Xiao Luo 184 42 0 13 Oct 2019
Learning to Contextually Aggregate Multi-Source Supervision for Sequence LabelingAnnual Meeting of the Association for Computational Linguistics (ACL), 2019 Ouyu Lan Xiao Huang Bill Yuchen Lin He Jiang Liyuan Liu Xiang Ren SSL 143 30 0 09 Oct 2019
Learning A Unified Named Entity Tagger From Multiple Partially Annotated Corpora For Efficient AdaptationConference on Computational Natural Language Learning (CoNLL), 2019 Xiao Huang Li Dong Elizabeth Boschee Nanyun Peng 147 17 0 25 Sep 2019
ScispaCy: Fast and Robust Models for Biomedical Natural Language Processing Mark Neumann Daniel King Iz Beltagy Bridger Waleed Ammar 356 763 0 20 Feb 2019
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 Jaewoo Kang OOD 1.4K 6,562 0 25 Jan 2019
A Survey on Deep Learning for Named Entity Recognition Junlin Li Aixin Sun Jianglei Han Chenliang Li 3DV 357 1,344 0 22 Dec 2018
A Neural Multi-Task Learning Framework to Jointly Model Medical Named Entity Recognition and Normalization Sendong Zhao Ting Liu Sicheng Zhao Fei Wang MedIm 198 120 0 14 Dec 2018
Effective Feature Representation for Clinical Text Concept Extraction Yifeng Tao B. Godefroy Guillaume Genthial Christopher Potts 264 8 0 31 Oct 2018
CollaboNet: collaboration of deep neural networks for biomedical named entity recognition Wonjin Yoon Chan Ho So Jinhyuk Lee Jaewoo Kang 167 142 0 21 Sep 2018