yusuke1997/dblp-id-title huggingface dataset:
Adapting an NER-System for German to the Biomedical Domain
XrayGPT: Chest Radiographs Summarization using Large Medical Vision-Language Models
UIUC_BioNLP at BioLaySumm: An Extract-then-Summarize Approach Augmented with Wikipedia Knowledge for Biomedical Lay Summarization
Sentence Filtering for BioNLP: Searching for Renaming Acts
GRO Task: Populating the Gene Regulation Ontology with events and relations
An Exploration of Mining Gene Expression Mentions and Their Anatomical Locations from Biomedical Text
Exploring the Use of NLP in the Disclosure of Electronic Patient Records
Conditional Random Fields and Support Vector Machines for Disorder Named Entity Recognition in Clinical Texts
Evaluating the Utility of Model Configurations and Data Augmentation on Clinical Semantic Textual Similarity
Generation and Evaluation of Synthetic Endoscopy Free-Text Reports with Differential Privacy
Incorporating Figure Captions and Descriptive Text in MeSH Term Indexing
UETfishes at MEDIQA 2021: Standing-on-the-Shoulders-of-Giants Model for Abstractive Multi-answer Summarization
Semantic Annotation of Papers: Interface & Enrichment Tool (SAPIENT)
Mining a Lexicon of Technical Terms and Lay Equivalents
Macquarie University at BioASQ 5b - Query-based Summarisation Techniques for Selecting the Ideal Answers
End-to-End Relation Extraction of Pharmacokinetic Estimates from the Scientific Literature
Semantic Type Classification of Common Words in Biomedical Noun Phrases
BanglaBioMed: A Biomedical Named-Entity Annotated Corpus for Bangla (Bengali)
Can Social Media Inform Dietary Approaches for Health Management? A Dataset and Benchmark for Low-Carb Diet
Zero-Shot Information Extraction for Clinical Meta-Analysis using Large Language Models
Sentiment-guided Transformer with Severity-aware Contrastive Learning for Depression Detection on Social Media
Unsupervised Entailment Detection between Dependency Graph Fragments
A Multi-Phase Approach to Biomedical Event Extraction
Boosting the protein name recognition performance by bootstrapping on selected text
A shared task involving multi-label classification of clinical free text
Interactive Extractive Search over Biomedical Corpora
A dictionary- and rule-based system for identification of bacteria and habitats in text
Annotating Temporal Information in Clinical Notes for Timeline Reconstruction: Towards the Definition of Calendar Expressions
Multilevel Analysis of Biomedical Domain Adaptation of Llama 2: What Matters the Most? A Case Study
Graph-based alignment of narratives for automated neurological assessment
Using Latent Dirichlet Allocation for Child Narrative Analysis
Human Gene Name Normalization using Text Matching with Automatically Extracted Synonym Dictionaries
Experimental Evaluation and Development of a Silver-Standard for the MIMIC-III Clinical Coding Dataset
Encoding Biomedical Resources in TEI: The Case of the GENIA Corpus
Interpreting Consumer Health Questions: The Role of Anaphora and Ellipsis
Multi-task learning for interpretable cause of death classification using key phrase prediction
Extracting Protein-Protein interactions using simple contextual features
Distributed Modules for Text Annotation and IE Applied to the Biomedical Domain
Exploring the Efficacy of Caption Search for Bioscience Journal Search Interfaces
Contextual explanation rules for neural clinical classifiers
SINAI at RadSum23: Radiology Report Summarization Based on Domain-Specific Sequence-To-Sequence Transformer Model
BioMRC: A Dataset for Biomedical Machine Reading Comprehension
Unsupervised Monolingual and Bilingual Word-Sense Disambiguation of Medical Documents using UMLS
SingleCite: Towards an improved Single Citation Search in PubMed
Using Large Language Models to Evaluate Biomedical Query-Focused Summarisation
Simplification-induced transformations: typology and some characteristics
Mining the Biomedical Literature for Genic Information
Deep neural model with enhanced embeddings for pharmaceutical and chemical entities recognition in Spanish clinical text
AliBERT: A Pre-trained Language Model for French Biomedical Text
Intermediate Domain Finetuning for Weakly Supervised Domain-adaptive Clinical NER
A Markov Logic Approach to Bio-Molecular Event Extraction
Explainable Assessment of Healthcare Articles with QA
Deep Learning for Biomedical Information Retrieval: Learning Textual Relevance from Click Logs
Large Language Models for Biomedical Knowledge Graph Construction: Information extraction from EMR notes
The BioScope corpus: annotation for negation, uncertainty and their scope in biomedical texts
Clinical Concept Extraction for Document-Level Coding
Transfer Learning in Biomedical Natural Language Processing: An Evaluation of BERT and ELMo on Ten Benchmarking Datasets
Proceedings of the BioNLP Workshop, BioNLP@HLT-NAACL 2009, Boulder, Colorado, USA, June 4-5, 2009
Refactoring Corpora
BioNLP Shared Task 2013: Supporting Resources
Promoting Fairness in Classification of Quality of Medical Evidence
ThaiHerbMiner: A Thai Herbal Medicine Mining and Visualizing Tool
Neural Dependency Parsing of Biomedical Text: TurkuNLP entry in the CRAFT Structural Annotation Task
An end-to-end neural model based on cliques and scopes for frame extraction in long breast radiology reports
Syntactic methods for negation detection in radiology reports in Spanish
Towards ML-supported Triage Prediction in Real-World Emergency Room Scenarios
NaCTeM EventMine for BioNLP 2013 CG and PC tasks
Conversational Bots for Psychotherapy: A Study of Generative Transformer Models Using Domain-specific Dialogues
DoSSIER at MedVidQA 2022: Text-based Approaches to Medical Video Answer Localization Problem
Static Relations: a Piece in the Biomedical Information Extraction Puzzle
Prediction Models for Risk of Type-2 Diabetes Using Health Claims
Event Extraction from Trimmed Dependency Graphs
Can Rule-Based Insights Enhance LLMs for Radiology Report Classification? Introducing the RadPrompt Methodology
Embedding Biomedical Ontologies by Jointly Encoding Network Structure and Textual Node Descriptors
Unsupervised Context-Sensitive Spelling Correction of Clinical Free-Text with Word and Character N-Gram Embeddings
Automatic Acquisition of Huge Training Data for Bio-Medical Named Entity Recognition
On the unification of syntactic annotations under the Stanford dependency scheme: A case study on BioInfer and GENIA
Identification of Patients with Congestive Heart Failure using a Binary Classifier: A Case Study
Relation extraction from clinical texts using domain invariant convolutional neural network
Transfer Learning in Biomedical Named Entity Recognition: An Evaluation of BERT in the PharmaCoNER task
Identification of Genia Events using Multiple Classifiers
UZH@CRAFT-ST: a Sequence-labeling Approach to Concept Recognition
Exploring Surface-Level Heuristics for Negation and Speculation Discovery in Clinical Texts
Summarizing Key Concepts using Citation Sentences
On Learning Better Embeddings from Chinese Clinical Records: Study on Combining In-Domain and Out-Domain Data
Deep learning for extracting protein-protein interactions from biomedical literature
Extracting Biomedical Event Using Feature Selection and Word Representation
Towards Internet-Age Pharmacovigilance: Extracting Adverse Drug Reactions from User Posts in Health-Related Social Networks
Cancer Stage Prediction Based on Patient Online Discourse
Extraction of Regulatory Events using Kernel-based Classifiers and Distant Supervision
Towards Event Extraction from Full Texts on Infectious Diseases
SB_NITK at MEDIQA 2021: Leveraging Transfer Learning for Question Summarization in Medical Domain
A memory-based learning approach to event extraction in biomedical texts
Investigating the Documentation of Electronic Cigarette Use in the Veteran Affairs Electronic Health Record: A Pilot Study
Using Natural Language Processing to Extract Drug-Drug Interaction Information from Package Inserts
Proceedings of the Workshop on Linking Natural Language and Biology, BioNLP@NAACL-HLT 2006, New York, NY, USA, June 8, 2006
BioAMA: Towards an End to End BioMedical Question Answering System
Support Vector Machine Approach to Extracting Gene References into Function from Biological Documents
End-to-End System for Bacteria Habitat Extraction
Identifying First Episodes of Psychosis in Psychiatric Patient Records using Machine Learning
Biomedical Named Entity Recognition with Multilingual BERT
Selecting an Ontology for Biomedical Text Mining
WeLT: Improving Biomedical Fine-tuned Pre-trained Language Models with Cost-sensitive Learning
PubMed-Scale Event Extraction for Post-Translational Modifications, Epigenetics and Protein Structural Relations
LHS712EE at BioLaySumm 2023: Using BART and LED to summarize biomedical research articles
Semantic Role Labeling of Gene Regulation Events: Preliminary Results
HULAT-UC3M at BiolaySumm: Adaptation of BioBART and Longformer models to summarizing biomedical documents
Integration of Static Relations to Enhance Event Extraction from Text
Query selection methods for automated corpora construction with a use case in food-drug interactions
A preliminary approach to extract drugs by combining UMLS resources and USAN naming conventions
Construction of a Personal Experience Tweet Corpus for Health Surveillance
Identifying Experimental Techniques in Biomedical Literature
Extracting Distinctive Features of Swine (H1N1) Flu through Data Mining Clinical Documents
Proceedings of the Workshop on Current Trends in Biomedical Natural Language Processing, BioNLP 2008, Columbus, Ohio, USA, June 19, 2008
Comparative Analysis of Text Classification Approaches in Electronic Health Records
Event Extraction for Post-Translational Modifications
A Preliminary Work on Symptom Name Recognition from Free-Text Clinical Records of Traditional Chinese Medicine using Conditional Random Fields and Reasonable Features
Contributions to Clinical Named Entity Recognition in Portuguese
VBD-NLP at BioLaySumm Task 1: Explicit and Implicit Key Information Selection for Lay Summarization on Biomedical Long Documents
Investigation of Unsupervised Pattern Learning Techniques for Bootstrap Construction of a Medical Treatment Lexicon
Biomedical Event Extraction from Abstracts and Full Papers using Search-based Structured Prediction
Clinical Event Detection with Hybrid Neural Architecture
PubAnnotation - a persistent and sharable corpus and annotation repository
Using word embedding for bio-event extraction
Annotating Multiple Types of Biomedical Entities: A Single Word Classification Approach
Recognizing Biomedical Named Entities Using Skip-Chain Conditional Random Fields
Biomedical Event Extraction by Multi-class Classification of Pairs of Text Entities
Do Numbers Matter? Types and Prevalence of Numbers in Clinical Texts
Alignment-HMM-based Extraction of Abbreviations from Biomedical Text
BioNLP 2017, Vancouver, Canada, August 4, 2017
Noise Pollution in Hospital Readmission Prediction: Long Document Classification with Reinforcement Learning
Towards Gene Recognition from Rare and Ambiguous Abbreviations using a Filtering Approach
Distantly Supervised Document-Level Biomedical Relation Extraction with Neighborhood Knowledge Graphs
Classification from Full Text: A Comparison of Canonical Sections of Scientific Papers
Identifying Pathological Findings in German Radiology Reports Using a Syntacto-semantic Parsing Approach
Challenges for extracting biomedical knowledge from full text
Position-based Prompting for Health Outcome Generation
CUED at ProbSum 2023: Hierarchical Ensemble of Summarization Models
Subdomain adaptation of a POS tagger with a small corpus
Gla-AI4BioMed at RRG24: Visual Instruction-tuned Adaptation for Radiology Report Generation
BioLay_AK_SS at BioLaySumm: Domain Adaptation by Two-Stage Fine-Tuning of Large Language Models used for Biomedical Lay Summary Generation
Neural Transduction of Letter Position Dyslexia using an Anagram Matrix Representation
BioBART: Pretraining and Evaluation of A Biomedical Generative Language Model
Towards Retrieving Relevant Information for Answering Clinical Comparison Questions
Discovering Temporal Narrative Containers in Clinical Text
BDKG at MEDIQA 2021: System Report for the Radiology Report Summarization Task
Leveraging Sublanguage Features for the Semantic Categorization of Clinical Terms
RankPref: Ranking Sentences Describing Relations between Biomedical Entities with an Application
Extracting Disease-Symptom Relationships by Learning Syntactic Patterns from Dependency Graphs
REflex: Flexible Framework for Relation Extraction in Multiple Domains
Investigating Domain-Specific Information for Neural Coreference Resolution on Biomedical Texts
Refactoring the Genia Event Extraction Shared Task Toward a General Framework for IE-Driven KB Development
A Study of Structured Clinical Abstracts and the Semantic Classification of Sentences
Biomedical Event Trigger Identification Using Bidirectional Recurrent Neural Network Based Models
CRF-LSTM Text Mining Method Unveiling the Pharmacological Mechanism of Off-target Side Effect of Anti-Multiple Myeloma Drugs
Improving the Identification of Non-Anaphoric it using Support Vector Machines
Text Mining Techniques for Leveraging Positively Labeled Data
How Feasible and Robust is the Automatic Extraction of Gene Regulation Events? A Cross-Method Evaluation under Lab and Real-Life Conditions
Identifying Key Sentences for Precision Oncology Using Semi-Supervised Learning
Modelling the Combination of Generic and Target Domain Embeddings in a Convolutional Neural Network for Sentence Classification
EntityBERT: Entity-centric Masking Strategy for Model Pretraining for the Clinical Domain
ADEQA: A Question Answer based approach for joint ADE-Suspect Extraction using Sequence-To-Sequence Transformers
Extracting Drug-Drug and Protein-Protein Interactions from Text using a Continuous Update of Tree-Transformers
GRASUM at BioLaySumm Task 1: Background Knowledge Grounding for Readable, Relevant, and Factual Biomedical Lay Summaries
Improving classification of Adverse Drug Reactions through Using Sentiment Analysis and Transfer Learning
ELiRF-VRAIN at BioLaySumm: Boosting Lay Summarization Systems Performance with Ranking Models
Predicting Discharge Disposition Using Patient Complaint Notes in Electronic Medical Records
Detecting Relations in the Gene Regulation Network
Exploring Word Segmentation and Medical Concept Recognition for Chinese Medical Texts
An Overview of the Active Gene Annotation Corpus and the BioNLP OST 2019 AGAC Track Tasks
An Incremental Model for the Coreference Resolution Task of BioNLP 2011
Improving Feature-Based Biomedical Event Extraction System by Integrating Argument Information
When Specialization Helps: Using Pooled Contextualized Embeddings to Detect Chemical and Biomedical Entities in Spanish
AUTH at BioLaySumm 2024: Bringing Scientific Content to Kids
Overview of the MEDIQA 2021 Shared Task on Summarization in the Medical Domain
shs-nlp at RadSum23: Domain-Adaptive Pre-training of Instruction-tuned LLMs for Radiology Report Impression Generation
Word centrality constrained representation for keyphrase extraction
Scaling up Biomedical Event Extraction to the Entire PubMed
Reranking for Biomedical Named-Entity Recognition
Ontology-Based Categorization of Bacteria and Habitat Entities using Information Retrieval Techniques
Comparing and combining some popular NER approaches on Biomedical tasks
DUTIR in BioNLP-ST 2016: Utilizing Convolutional Network and Distributed Representation to Extract Complicate Relations
Exploring Adjectival Modification in Biomedical Discourse Across Two Genres
An ensemble CNN method for biomedical entity normalization
paht_nlp @ MEDIQA 2021: Multi-grained Query Focused Multi-Answer Summarization
Hospital Discharge Summarization Data Provenance
Domain Adaptation and Instance Selection for Disease Syndrome Classification over Veterinary Clinical Notes
Generation and De-Identification of Indian Clinical Discharge Summaries using LLMs
A Neural Autoencoder Approach for Document Ranking and Query Refinement in Pharmacogenomic Information Retrieval
BioLaySumm 2023 Shared Task: Lay Summarisation of Biomedical Research Articles
Selecting Text Features for Gene Name Classification: from Documents to Terms
YNU-junyi in BioNLP-OST 2019: Using CNN-LSTM Model with Embeddings for SeeDev Binary Event Extraction
Biomedical Relation Extraction with Entity Type Markers and Relation-specific Question Answering
Cascaded Classifiers for Confidence-Based Chemical Named Entity Recognition
MSR-NLP Entry in BioNLP Shared Task 2011
ChiMed: A Chinese Medical Corpus for Question Answering
Stress Test Evaluation of Biomedical Word Embeddings
Generalizing Biomedical Event Extraction
UCSD-Adobe at MEDIQA 2021: Transfer Learning and Answer Sentence Selection for Medical Summarization
Seeking Informativeness in Literature Based Discovery
iHealth-Chile-1 at RRG24: In-context Learning and Finetuning of a Large Multimodal Model for Radiology Report Generation
DoubleTransfer at MEDIQA 2019: Multi-Source Transfer Learning for Natural Language Understanding in the Medical Domain
NCUEE-NLP at MEDIQA 2021: Health Question Summarization Using PEGASUS Transformers
A Multi-Task Learning Framework for Extracting Bacteria Biotope Information
Identification, characterization, and grounding of gradable terms in clinical text
Overview of the First Shared Task on Clinical Text Generation: RRG24 and "Discharge Me!"
Self-training and co-training in biomedical word sense disambiguation
Extracting Gene Regulation Networks Using Linear-Chain Conditional Random Fields and Rules
UoG Siephers at "Discharge Me!": Exploring Ways to Generate Synthetic Patient Notes From Multi-Part Electronic Health Records
Statistical Term Profiling for Query Pattern Mining
Integrating Ontological Knowledge and Textual Evidence in Estimating Gene and Gene Product Similarity
Temporal Classification of Medical Events
End-to-end clinical temporal information extraction with multi-head attention
Eulerian at BioLaySumm: Preprocessing Over Abstract is All You Need
Claim Detection in Biomedical Twitter Posts
Extracting Protein-Protein Interaction based on Discriminative Training of the Hidden Vector State Model
Quantifying Clinical Outcome Measures in Patients with Epilepsy Using the Electronic Health Record
Raising the Compatibility of Heterogeneous Annotations: A Case Study on
How do you know that? Teaching Generative Language Models to Reference Answers to Biomedical Questions
Making the most of limited training data using distant supervision
Quantifying 60 Years of Gender Bias in Biomedical Research with Word Embeddings
An Approach to Reducing Annotation Costs for BioNLP
e-Health CSIRO at "Discharge Me!" 2024: Generating Discharge Summary Sections with Fine-tuned Language Models
Improving BERT Model Using Contrastive Learning for Biomedical Relation Extraction
Proceedings of the Workshop on Biomedical Natural Language Processing, BioNLP@IJCNLP 2015, Beijing, China, July 30, 2015
A Priority Model for Named Entities
Syntactic analyses and named entity recognition for PubMed and PubMed Central - up-to-the-minute
Biomedical relation extraction with pre-trained language representations and minimal task-specific architecture
How Much do Knowledge Graphs Impact Transformer Models for Extracting Biomedical Events?
Event-Based Information Extraction for the Biomedical Domain: the Caderige Project
Extracting Bacteria Biotopes with Semi-supervised Named Entity Recognition and Coreference Resolution
Extraction of Disease-Treatment Semantic Relations from Biomedical Sentences
Classifying Negative Findings in Biomedical Publications
FFTM: A Fuzzy Feature Transformation Method for Medical Documents
Ontology-Based Extraction and Summarization of Protein Mutation Impact Information
Proceedings of the Workshop on Natural Language Processing in Biomedicine, BioNLP@ACL 2003, Sapporo, Japan, July 2003
Accelerating the Annotation of Sparse Named Entities by Dynamic Sentence Selection
TALP-UPC at ProbSum 2023: Fine-tuning and Data Augmentation Strategies for NER
Two Strong Baselines for the BioNLP 2009 Event Extraction Task
BioNLP Shared Task 2011: Supporting Resources
Towards Morphologically Annotated Corpus of Hospital Discharge Reports in Polish
Dr.Quad at MEDIQA 2019: Towards Textual Inference and Question Entailment using contextualized representations
Vocabulary Development To Support Information Extraction of Substance Abuse from Psychiatry Notes
Building frame-based corpus on the basis of ontological domain knowledge
RDoC Task at BioNLP-OST 2019
Extracting relations between outcomes and significance levels in Randomized Controlled Trials (RCTs) publications
Adapting a Parser to Clinical Text by Simple Pre-processing Rules
Multiple Evidence Combination for Fact-Checking of Health-Related Information
QIAI at MEDIQA 2021: Multimodal Radiology Report Summarization
Evaluating the Robustness of Adverse Drug Event Classification Models using Templates
Hypothesis and Evidence Extraction from Full-Text Scientific Journal Articles
Gene Name Extraction Using FlyBase Resources
Symptom extraction issue
BioNLP 2011 Task Bacteria Biotope - The Alvis system
Privacy Aware Question-Answering System for Online Mental Health Risk Assessment
Identifying Risk Factors For Heart Disease in Electronic Medical Records: A Deep Learning Approach
Mapping Clinical Notes to Medical Terminologies at Point of Care
A Graph Kernel for Protein-Protein Interaction Extraction
Learning Phenotype Mapping for Integrating Large Genetic Data
Exploring Diachronic Changes of Biomedical Knowledge using Distributed Concept Representations
Interpreting comparative constructions in biomedical text
Word-Level Alignment of Paper Documents with their Electronic Full-Text Counterparts
Identifying the Information Structure of Scientific Abstracts: An Investigation of Three Different Schemes
Integration of Deep Learning and Traditional Machine Learning for Knowledge Extraction from Biomedical Literature
Assessing the Correlation between Contextual Patterns and Biological Entity Tagging
AIRI at RRG24: LLaVa with specialised encoder and decoder
WTMED at MEDIQA 2019: A Hybrid Approach to Biomedical Natural Language Inference
DUT-NLP at MEDIQA 2019: An Adversarial Multi-Task Network to Jointly Model Recognizing Question Entailment and Question Answering
Are we there yet? Exploring clinical domain knowledge of BERT models
Ontology-based semantic annotation: an automatic hybrid rule-based method
Event-independent temporal positioning: application to French clinical text
A Paraphrase Generation System for EHR Question Answering
Overview of the Infectious Diseases (ID) task of BioNLP Shared Task 2011
Zone Identification in Biology Articles as a Basis for Information Extraction
UZurich in the BioNLP 2009 Shared Task
What can NLP tell us about BioNLP?
Slot Filling for Biomedical Information Extraction
RACAI's System at PharmaCoNER 2019
Evaluating Large-scale Text Mining Applications Beyond the Traditional Numeric Performance Measures
POSBIOTM-NER in the Shared Task of BioNLP/NLPBA2004
Few-Shot Cross-lingual Transfer for Coarse-grained De-identification of Code-Mixed Clinical Texts
Team Converge at ProbSum 2023: Abstractive Text Summarization of Patient Progress Notes
Representation of complex terms in a vector space structured by an ontology for a normalization task
TEXT2TABLE: Medical Text Summarization System Based on Named Entity Recognition and Modality Identification
Species Disambiguation for Biomedical Term Identification
Initializing neural networks for hierarchical multi-label text classification
Overview of BioNLP 2011 Protein Coreference Shared Task
CBR-Tagger: a case-based reasoning approach to the gene/protein mention problem
Can GPT Redefine Medical Understanding? Evaluating GPT on Biomedical Machine Reading Comprehension
Automatic Approaches for Gene-Drug Interaction Extraction from Biomedical Text: Corpus and Comparative Evaluation
A System for Predicting ICD-10-PCS Codes from Electronic Health Records
Ixa-Med at Discharge Me! Retrieval-Assisted Generation for Streamlining Discharge Documentation
Automatic inference of indexing rules for MEDLINE
TEES 2.1: Automated Annotation Scheme Learning in the BioNLP 2013 Shared Task