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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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Harnessing Collective Intelligence of LLMs for Robust Biomedical QA: A Multi-Model Approach Dimitra N. Panou Alexandros C. Dimopoulos Manolis Koubarakis M. Reczko LM&MA 92 2 0 02 Aug 2025
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Deep Learning-based Prediction of Clinical Trial Enrollment with Uncertainty Estimates Tien Huu Do Antoine Masquelier Nae Eoun Lee Jonathan Crowther 148 0 0 31 Jul 2025
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EnTao-GPM: DNA Foundation Model for Predicting the Germline Pathogenic Mutations Zekai Lin Haoran Sun Yucheng Guo Yujie Yang Yanwen Wang ... Chonghang Ye Qirong Yang Fan Zhong Xiaoming Zhang Lei Liu LM&MA 136 0 0 29 Jul 2025
On The Role of Pretrained Language Models in General-Purpose Text Embeddings: A Survey Meishan Zhang Xin Zhang X. Zhao Shouzheng Huang Baotian Hu Min Zhang 221 3 0 28 Jul 2025
Leveraging Fine-Tuned Large Language Models for Interpretable Pancreatic Cystic Lesion Feature Extraction and Risk Categorization Ebrahim Rasromani Stella K. Kang Yanqi Xu Beisong Liu Garvit Luhadia ... Ammar A. Javed Greg D. Sacks Tamas Gonda Chenchan Huang Yiqiu Shen 112 1 0 26 Jul 2025
The Carbon Cost of Conversation, Sustainability in the Age of Language Models Sayed Mahbub Hasan Amiri Prasun Goswami Md. Mainul Islam Mohammad Shakhawat Hossen Sayed Majhab Hasan Amiri Naznin Akter SILM SyDa 243 2 0 26 Jul 2025
HypKG: Hypergraph-based Knowledge Graph Contextualization for Precision Healthcare Yuzhang Xie Xu Han Ran Xu Xiao Hu Jiaying Lu Carl Yang AI4MH 176 2 0 26 Jul 2025
Towards Domain Specification of Embedding Models in Medicine Mohammad Khodadad Ali Shiraee Mahdi Astaraki H. Mahyar 156 1 0 25 Jul 2025
AutoPCR: Automated Phenotype Concept Recognition by Prompting Yicheng Tao Yuanhao Huang Jie Liu 77 0 0 25 Jul 2025
PromptAL: Sample-Aware Dynamic Soft Prompts for Few-Shot Active LearningKnowledge-Based Systems (KBS), 2025 Hui Xiang Jinqiao Shi Ting Zhang Xiaojie Zhao Yong Liu Yong Ma VLM 134 1 0 22 Jul 2025
A novel language model for predicting serious adverse event results in clinical trials from their prospective registrations Qixuan Hu Xumou Zhang Jinman Kim Florence T. Bourgeois A. Dunn 125 0 0 21 Jul 2025
Search-Optimized Quantization in Biomedical Ontology AlignmentFrontiers in Artificial Intelligence (Front. Artif. Intell.), 2025 Oussama Bouaggad Natalia Grabar MQ 137 0 0 18 Jul 2025
MedicalBERT: enhancing biomedical natural language processing using pretrained BERT-based model K. Sahit Reddy N. Ragavenderan Vasanth K. Ganesh N. Naik Vishalakshi Prabhu Nagaraja G. S AI4MH LM&MA 139 1 0 06 Jul 2025
STRUCTSENSE: A Task-Agnostic Agentic Framework for Structured Information Extraction with Human-In-The-Loop Evaluation and Benchmarking Tek Raj Chhetri Yibei Chen Puja Trivedi Dorota Jarecka Saif Haobsh Patrick Ray Lydia Ng Satrajit S. Ghosh 170 1 0 04 Jul 2025
TextBraTS: Text-Guided Volumetric Brain Tumor Segmentation with Innovative Dataset Development and Fusion Module ExplorationInternational Conference on Medical Image Computing and Computer-Assisted Intervention (MICCAI), 2025 Xiaoyu Shi R. Jain Yinhao Li Ruibo Hou Jingliang Cheng J. Bai Guohua Zhao Lanfen Lin R. Xu Yen-Wei Chen 134 0 0 20 Jun 2025
A Brain-to-Population Graph Learning Framework for Diagnosing Brain Disorders Qianqian Liao Wuque Cai Hongze Sun Dongze Liu Duo Chen Dezhong Yao Daqing Guo 145 0 0 19 Jun 2025
Cohort Discovery: A Survey on LLM-Assisted Clinical Trial Recruitment Shrestha Ghosh Moritz Schneider Carina Reinicke Carsten Eickhoff 199 0 0 18 Jun 2025
CKD-EHR:Clinical Knowledge Distillation for Electronic Health Records Junke Wang H. Ling Li Zhang L. Zhang Fang Wang Yuan Gao Zhi Li 149 0 0 18 Jun 2025
JEBS: A Fine-grained Biomedical Lexical Simplification TaskAnnual Meeting of the Association for Computational Linguistics (ACL), 2025 William Xia Ishita Unde Brian D. Ondov Dina Demner-Fushman 153 0 0 15 Jun 2025
ImmunoFOMO: Are Language Models missing what oncologists see? Aman Sinha Bogdan-Valentin Popescu X. Coubez Marianne Clausel Mathieu Constant LM&MA 123 0 0 13 Jun 2025
Large Language Models for History, Philosophy, and Sociology of Science: Interpretive Uses, Methodological Challenges, and Critical Perspectives Arno Simons Michael Zichert Adrian Wüthrich 229 0 0 13 Jun 2025
GeistBERT: Breathing Life into German NLP Raphael Scheible-Schmitt Johann Frei VLM 339 3 0 13 Jun 2025
Instruction Tuning and CoT Prompting for Contextual Medical QA with LLMs Chenqian Le Ziheng Gong Chihang Wang Haowei Ni Panfeng Li Xupeng Chen LM&MA LRM 168 6 0 13 Jun 2025
Spelling-out is not Straightforward: LLMs' Capability of Tokenization from Token to Characters Tatsuya Hiraoka Kentaro Inui 244 1 0 12 Jun 2025
Enhancing Medical Dialogue Generation through Knowledge Refinement and Dynamic Prompt AdjustmentAnnual Meeting of the Association for Computational Linguistics (ACL), 2025 Hongda Sun Jiaren Peng Wenzhong Yang Liang He Bo Du Rui Yan MedIm 245 0 0 12 Jun 2025
Benchmarking Foundation Speech and Language Models for Alzheimer's Disease and Related Dementia Detection from Spontaneous Speech Jingyu Li Lingchao Mao Hairong Wang Zhendong Wang Xi Mao Xuelei Sherry Ni 102 0 0 09 Jun 2025
Research Knowledge Graphs: the Shifting Paradigm of Scholarly Information RepresentationExtended Semantic Web Conference (ESWC), 2025 Matthäus Zloch Danilo Dessi Jennifer D’Souza Leyla Jael Castro Benjamin Zapilko ... Brigitte Mathiak M. Stocker Wolfgang Otto Sören Auer Stefan Dietze 124 2 0 08 Jun 2025
MedCite: Can Language Models Generate Verifiable Text for Medicine?Annual Meeting of the Association for Computational Linguistics (ACL), 2025 Xiao Wang Mengjue Tan Qiao Jin Guangzhi Xiong Yu Hu Aidong Zhang Zhiyong Lu Minjia Zhang 150 3 0 07 Jun 2025
Constrained Entropic Unlearning: A Primal-Dual Framework for Large Language Models Taha Entesari Arman Hatami Rinat Khaziev Anil Ramakrishna Mahyar Fazlyab MU 284 1 0 05 Jun 2025
Mitigating Confounding in Speech-Based Dementia Detection through Weight MaskingAnnual Meeting of the Association for Computational Linguistics (ACL), 2025 Zhecheng Sheng Xiruo Ding Brian Hur Changye Li Trevor Cohen Serguei V. S. Pakhomov 129 0 0 05 Jun 2025
Training-free AI for Earth Observation Change Detection using Physics Aware Neuromorphic NetworksScientific Reports (Sci Rep), 2025 Stephen Smith Cormac Purcell Zdenka Kuncic 221 0 0 04 Jun 2025
EvidenceOutcomes: a Dataset of Clinical Trial Publications with Clinically Meaningful OutcomesStudies in Health Technology and Informatics (SHTI), 2025 Yiliang Zhou Abigail M. Newbury Gongbo Zhang B. Idnay Hao Liu Chunhua Weng Yifan Peng 109 0 0 03 Jun 2025
Novel Benchmark for NER in the Wastewater and Stormwater Domain Franco Alberto Cardillo Franca Debole Francesca Frontini Mitra Aelami Nanée Chahinian Serge Conrad 142 0 0 02 Jun 2025
Interpretable phenotyping of Heart Failure patients with Dutch discharge letters Vittorio Torri Machteld J. Boonstra Marielle C. van de Veerdonk Deborah N. Kalkman Alicia Uijl Francesca Ieva Ameen Abu-Hanna Folkert W. Asselbergs Iacer Calixto 146 0 0 30 May 2025
Domain Pre-training Impact on Representations César González-Gutiérrez A. Quattoni 156 0 0 30 May 2025
PRISM: A Framework for Producing Interpretable Political Bias Embeddings with Political-Aware Cross-EncoderAnnual Meeting of the Association for Computational Linguistics (ACL), 2025 Yiqun Sun Qiang Huang Anthony K. H. Tung Jun Yu 134 0 0 30 May 2025
BioReason: Incentivizing Multimodal Biological Reasoning within a DNA-LLM Model Adibvafa Fallahpour Andrew Magnuson Purav Gupta Shihao Ma Jack Naimer ... Haonan Duan Omar Ibrahim Hani Goodarzi Chris J. Maddison Bo Wang SyDa AI4CE LRM 169 13 0 29 May 2025
BioHopR: A Benchmark for Multi-Hop, Multi-Answer Reasoning in Biomedical DomainAnnual Meeting of the Association for Computational Linguistics (ACL), 2025 Yunsoo Kim Yusuf Abdulle Honghan Wu LRM 120 3 0 28 May 2025
Enhancing Study-Level Inference from Clinical Trial Papers via Reinforcement Learning-Based Numeric Reasoning Massimiliano Pronesti Michela Lorandi Paul Flanagan Oisin Redmon Anya Belz Yufang Hou 179 1 0 28 May 2025
Natural Language Processing in Support of Evidence-based Medicine: A Scoping ReviewAnnual Meeting of the Association for Computational Linguistics (ACL), 2025 Zihan Xu Haotian Ma Gongbo Zhang Yihao Ding Chunhua Weng Yifan Peng 147 1 0 28 May 2025
Lunguage: A Benchmark for Structured and Sequential Chest X-ray Interpretation Jong Hak Moon Geon Choi Paloma Rabaey Min Gwan Kim Hyuk Gi Hong ... J. Kim Harshita Sharma Daniel Coelho De Castro Javier Alvarez-Valle Edward Choi LM&MA 179 2 0 27 May 2025
Semi-supervised Clustering Through Representation Learning of Large-scale EHR Data Linshanshan Wang Mengyan Li Zongqi Xia Molei Liu Tianxi Cai 231 1 0 27 May 2025
An Explainable Diagnostic Framework for Neurodegenerative Dementias via Reinforcement-Optimized LLM Reasoning Andrew Zamai Nathanael Fijalkow Boris Mansencal Laurent Simon Eloi Navet Pierrick Coupé 211 0 0 26 May 2025
A General Knowledge Injection Framework for ICD CodingAnnual Meeting of the Association for Computational Linguistics (ACL), 2025 Xu Zhang Kun Zhang Wenxin Ma Rongsheng Wang Chenxu Wu Yingtai Li S.Kevin Zhou 122 4 0 24 May 2025
From Generation to Detection: A Multimodal Multi-Task Dataset for Benchmarking Health MisinformationConference on Empirical Methods in Natural Language Processing (EMNLP), 2025 Zhihao Zhang Yiran Zhang Xiyue Zhou Liting Huang Imran Razzak Preslav Nakov Usman Naseem 97 1 0 24 May 2025
PMOA-TTS: Introducing the PubMed Open Access Textual Times Series Corpus Shahriar Noroozizadeh Sayantan Kumar George H. Chen Jeremy C. Weiss 184 0 0 23 May 2025