default search action
Google
Google Scholar
Semantic Scholar
Internet Archive Scholar
CiteSeerX
ORCIDKarin Verspoor
Karin M. Verspoor – Cornelia Verspoor – Cornelia Maria Verspoor
Person information
- affiliation: University of Melbourne, School of Computing and Information Systems, Australia
- affiliation (former): National ICT, Victoria, Australia
Refine list
refinements active!
zoomed in on ?? of ?? records
view refined list in
showing all ?? records
2020 – today
- 2026
[j94]Aashish Bhandari
, Deval Mehta, Karin Verspoor, Damiano Spina, Feng Xia, Sonika Tyagi:
PregBase: A comprehensive knowledge base for clinically relevant knowledge representation and biomarker prediction in pregnancy. Artif. Intell. Medicine 181: 103510 (2026)- [j93]Melinda Wassell, Kerryn Butler-Henderson, Peter McCann, Henry Pollard, Salma Arabi, Wei Wang, Karin Verspoor:
The state of standardized musculoskeletal terminology for healthcare reuse:A scoping review. Int. J. Medical Informatics 211: 106318 (2026) - [j92]Feng Hu, Estrid He, Karin Verspoor:
AdaptMol: domain adaptation for molecular image recognition with limited supervision. J. Cheminformatics 18(1): 87 (2026) - [j91]Milindi Kodikara, Karin Verspoor:
Exploration of Genetic Entity Extraction From Spanish Literature Using Generative LLMs. IEEE Trans. Comput. Biol. Bioinform. 23(3): 954-963 (2026) - [j90]Ahsan Shehzad, Feng Xia, Shagufta Abid, Ciyuan Peng, Shuo Yu, Dongyu Zhang, Karin Verspoor:
Graph Transformers: A Survey. IEEE Trans. Neural Networks Learn. Syst. 37(7): 3052-3071 (2026) - [c142]He Zhang, Bang Wu, Xiaoning Liu, Karin Verspoor, Xun Yi:
Imprint of the Forgotten: Stealthy Membership Inference in Unlearned Graph Neural Networks. AAAI 2026: 28203-28211 - [c141]Wei Han, David Martinez Iraola, Anna Khanina, Lawrence Cavedon, Karin Verspoor:
RADS: Reinforcement Learning-Based Sample Selection Improves Transfer Learning in Low-resource and Imbalanced Clinical Settings. ACL (Findings) 2026: 12501-12516 - [c140]Minh-Vuong Nguyen, Fatemeh Shiri, Zhuang Li, Karin Verspoor:
How Robust Are Large Language Models for Clinical Numeracy? An Empirical Study on Numerical Reasoning Abilities in Clinical Contexts. ACL (Findings) 2026: 18113-18129 - [c139]Duy Khoa Pham, Dinesh Giritharan, Guilherme Camargo de Oliveira, Bao Quoc Vo, Karin Verspoor, Meng Law, Patrick Kwan, Zongyuan Ge, Deval Mehta:
A Clinical Guideline-Grounded Hybrid Agentic Framework for Holistic Epilepsy Management. MICCAI (18) 2026: 367-377 - [c138]Anh Le Van, Andy Song, Arthur Tang, Karin Verspoor:
Unlearning Spurious Concepts Enhances the Robustness of Concept-Based Explainable Models in Skin Cancer Diagnosis. PAKDD (2) 2026: 482-494 - [i39]Aparna Elangovan, Lei Xu, Mahsa Elyasi, Ismail Akdulum, Mehmet Aksakal, Enes Gurun, Brian Hur, Saab Mansour, Ravid Shwartz-Ziv, Karin Verspoor, Dan Roth:
The Illusion of Human AI Parity Under Uncertainty: Navigating Elusive Ground Truth via a Probabilistic Paradigm. CoRR abs/2601.05500 (2026) - [i38]Melinda Wassell, Kerryn Butler-Henderson, Karin Verspoor:
A Framework for Transparent Reporting of Data Quality Analysis Across the Clinical Electronic Health Record Data Lifecycle. CoRR abs/2603.00921 (2026) - [i37]Minh-Vuong Nguyen, Fatemeh Shiri, Zhuang Li, Karin Verspoor:
How Robust Are Large Language Models for Clinical Numeracy? An Empirical Study on Numerical Reasoning Abilities in Clinical Contexts. CoRR abs/2604.11133 (2026) - [i36]Wei Han, David Martínez, Anna Khanina, Lawrence Cavedon, Karin Verspoor:
RADS: Reinforcement Learning-Based Sample Selection Improves Transfer Learning in Low-resource and Imbalanced Clinical Settings. CoRR abs/2604.20256 (2026) - 2025
- [j89]Mangor Pedersen, Heath R. Pardoe, Anton de Weger, Donna Hutchison, David F. Abbott, Karin Verspoor, Graeme D. Jackson:
Toward responsible artificial intelligence in medicine: Reflections from the Australian epilepsy project. Artif. Intell. Medicine 167: 103192 (2025) - [j88]Yiyuan Pu, Daniel Beck, Karin Verspoor:
Enriched knowledge representation in biological fields: a case study of literature-based discovery in Alzheimer's disease. J. Biomed. Semant. 16(1): 3 (2025) - [j87]Christine Bauer, Li Chen, Nicola Ferro, Norbert Fuhr, Avishek Anand, Timo Breuer, Guglielmo Faggioli, Ophir Frieder, Hideo Joho, Jussi Karlgren, Johannes Kiesel, Bart P. Knijnenburg, Aldo Lipani, Lien Michiels, Andrea Papenmeier, Maria Soledad Pera, Mark Sanderson, Scott Sanner, Benno Stein, Johanne R. Trippas, Karin Verspoor, Martijn C. Willemsen:
Conversational Agents: A Framework for Evaluation (CAFE) (Dagstuhl Perspectives Workshop 24352). Dagstuhl Manifestos 11(1): 19-67 (2025) - [j86]Jinghui Liu, Anthony N. Nguyen, Daniel Capurro, Karin Verspoor:
Comparing Text-Based Clinical Risk Prediction in Critical Care: A Note-Specific Hierarchical Network and Large Language Models. IEEE J. Biomed. Health Informatics 29(12): 7657-7667 (2025) - [c137]Wei Han, David Martínez, Vlada Rozova, Lawrence Cavedon, Anna Khanina, Leon J. Worth, Monica A. Slavin, Karin A. Thursky, Karin Verspoor:
Automated Detection of Invasive Fungal Infections in Clinical Reports Using Medical Language Models. MedInfo 2025: 1002-1007 - [c136]Duy Khoa Pham, Deval Mehta, Yiwen Jiang, Daniel Thom, Richard Shek-kwan Chang, Mohammad Nazem-Zadeh, Emma Foster, Timothy Fazio, Sarah Holper, Karin Verspoor, Jiahe Liu, Duong Nhu, Sarah Barnard, Terence J. O'Brien, Zhibin Chen, Jacqueline French, Patrick Kwan, Zongyuan Ge:
Knowledge Tree Driven Contextualized Instruction Tuning of Foundation Models for Epilepsy Drug Recommendation. MICCAI (6) 2025: 373-383 - [c135]Rahmad Mahendra, Damiano Spina, Lawrence Cavedon, Karin Verspoor:
Evaluating Numeracy of Language Models as a Natural Language Inference Task. NAACL (Findings) 2025: 8336-8361 - [i35]Christine Bauer, Li Chen, Nicola Ferro, Norbert Fuhr, Avishek Anand, Timo Breuer, Guglielmo Faggioli, Ophir Frieder, Hideo Joho, Jussi Karlgren, Johannes Kiesel, Bart P. Knijnenburg, Aldo Lipani, Lien Michiels, Andrea Papenmeier, Maria Soledad Pera, Mark Sanderson, Scott Sanner, Benno Stein, Johanne R. Trippas, Karin Verspoor, Martijn C. Willemsen:
Manifesto from Dagstuhl Perspectives Workshop 24352 - Conversational Agents: A Framework for Evaluation (CAFE). CoRR abs/2506.11112 (2025) - [i34]Thinh Hung Truong, Karin Verspoor, Trevor Cohn, Timothy Baldwin:
Learning Robust Negation Text Representations. CoRR abs/2507.12782 (2025) - 2024
- [j85]Rezarta Islamaj, Po-Ting Lai, Chih-Hsuan Wei, Ling Luo, Tiago Melo Almeida, Richard A. A. Jonker, Sofia I. R. Conceição, Diana F. Sousa, Cong-Phuoc Phan, Jung-Hsien Chiang, Jiru Li, Dinghao Pan, Wilailack Meesawad, Richard Tzong-Han Tsai, M. Janina Sarol, Gibong Hong, Airat Valiev, Elena Tutubalina, Shao-Man Lee, Yi-Yu Hsu, Mingjie Li, Karin Verspoor, Zhiyong Lu:
The overview of the BioRED (Biomedical Relation Extraction Dataset) track at BioCreative VIII. Database J. Biol. Databases Curation 2024 (2024) - [j84]Jiyu Chen, Benjamin Goudey, Nicholas Geard, Karin Verspoor:
Integration of background knowledge for automatic detection of inconsistencies in gene ontology annotation. Bioinform. 40(Supplement_1): i390-i400 (2024) - [j83]Jiayuan He, Yuan Li, Zenan Zhai, Biaoyan Fang, Camilo Thorne, Christian Druckenbrodt, Saber A. Akhondi, Karin Verspoor:
Focused Contrastive Loss for Classification With Pre-Trained Language Models. IEEE Trans. Knowl. Data Eng. 36(7): 3047-3061 (2024) - [c134]Milindi Kodikara, Karin Verspoor:
Lesser the Shots, Higher the Hallucinations: Exploration of Genetic Information Extraction using Generative Large Language Models. ALTA 2024: 130-145 - [c133]Anh Le Van, Karin Verspoor, Thomas B. Kirk, Andy Song:
Towards Explainable Deep Learning for Non-melanoma Skin Cancer Diagnosis. AI (1) 2024: 241-254 - [c132]Rahmad Mahendra, Damiano Spina, Lawrence Cavedon, Karin Verspoor:
Do Numbers Matter? Types and Prevalence of Numbers in Clinical Texts. BioNLP@ACL 2024: 409-415 - [c131]Yiyuan Pu, Kaitlyn Hair, Daniel Beck, Mike Conway, Malcolm MacLeod, Karin Verspoor:
Intervention extraction in preclinical animal studies of Alzheimer's Disease: Enhancing regex performance with language model-based filtering. BioNLP@ACL 2024: 486-492 - [c130]Aparna Elangovan, Jiayuan He, Yuan Li, Karin Verspoor:
Principles from Clinical Research for NLP Model Generalization. NAACL-HLT 2024: 2293-2309 - [c129]Thinh Truong, Yulia Otmakhova, Karin Verspoor, Trevor Cohn, Timothy Baldwin:
Revisiting subword tokenization: A case study on affixal negation in large language models. NAACL-HLT 2024: 5082-5095 - [c128]Milindi Kodikara, Karin Verspoor:
Effectiveness of Cross-linguistic Extraction of Genetic Information using Generative Large Language Models. IberLEF@SEPLN 2024 - [i33]Mingjie Li, Karin Verspoor:
EMBRE: Entity-aware Masking for Biomedical Relation Extraction. CoRR abs/2401.07877 (2024) - [i32]Huiling Tu, Shuo Yu, Vidya Saikrishna, Feng Xia, Karin M. Verspoor:
Deep Outdated Fact Detection in Knowledge Graphs. CoRR abs/2402.03732 (2024) - [i31]Thinh Hung Truong, Yulia Otmakhova, Karin Verspoor, Trevor Cohn, Timothy Baldwin:
Revisiting subword tokenization: A case study on affixal negation in large language models. CoRR abs/2404.02421 (2024) - [i30]Ahsan Shehzad, Feng Xia, Shagufta Abid, Ciyuan Peng, Shuo Yu, Dongyu Zhang, Karin Verspoor:
Graph Transformers: A Survey. CoRR abs/2407.09777 (2024) - 2023
- [j82]Antonio José Jimeno-Yepes, Karin Verspoor:
Classifying literature mentions of biological pathogens as experimentally studied using natural language processing. J. Biomed. Semant. 14(1): 1 (2023) - [j81]Tabinda Sarwar, Sattar Seifollahi, Jeffrey Chan, Xiuzhen Zhang, Vural Aksakalli, Irene Lena Hudson, Karin Verspoor, Lawrence Cavedon:
The Secondary Use of Electronic Health Records for Data Mining: Data Characteristics and Challenges. ACM Comput. Surv. 55(2): 33:1-33:40 (2023) - [j80]Carol El-Hayek, Siamak Barzegar, Noel Faux, Kim Doyle, Priyanka Pillai, Simon J. Mutch, Alaina Vaisey, Roger Ward, Lena Sanci, Adam G. Dunn, Margaret Hellard, Jane S. Hocking, Karin Verspoor, Douglas Iain Ross Boyle:
An evaluation of existing text de-identification tools for use with patient progress notes from Australian general practice. Int. J. Medical Informatics 173: 105021 (2023) - [j79]Vlada Rozova, Anna Khanina, Jasmine C. Teng, Joanne S. K. Teh, Leon J. Worth, Monica A. Slavin, Karin A. Thursky, Karin Verspoor:
Detecting evidence of invasive fungal infections in cytology and histopathology reports enriched with concept-level annotations. J. Biomed. Informatics 139: 104293 (2023) - [j78]Yiyuan Pu, Daniel Beck, Karin Verspoor:
Graph embedding-based link prediction for literature-based discovery in Alzheimer's Disease. J. Biomed. Informatics 145: 104464 (2023) - [j77]Jinghui Liu, Daniel Capurro, Anthony N. Nguyen, Karin Verspoor:
Attention-based multimodal fusion with contrast for robust clinical prediction in the face of missing modalities. J. Biomed. Informatics 145: 104466 (2023) - [j76]Yuxia Wang, Shimin Tao, Ning Xie, Hao Yang, Timothy Baldwin, Karin Verspoor:
Collective Human Opinions in Semantic Textual Similarity. Trans. Assoc. Comput. Linguistics 11: 997-1013 (2023) - [c127]Yang Meng, Vlada Rozova, Karin Verspoor:
CRF-based recognition of invasive fungal infection concepts in CHIFIR clinical reports. ALTA 2023: 130-135 - [c126]Simon Suster, Timothy Baldwin, Karin Verspoor:
Promoting Fairness in Classification of Quality of Medical Evidence. BioNLP@ACL 2023: 413-426 - [c125]Aparna Elangovan, Estrid He, Yuan Li, Karin Verspoor:
Effects of Human Adversarial and Affable Samples on BERT Generalizability. EMNLP (Findings) 2023: 7637-7649 - [c124]Huiling Tu, Shuo Yu, Vidya Saikrishna, Feng Xia, Karin Verspoor:
Deep Outdated Fact Detection in Knowledge Graphs. ICDM (Workshops) 2023: 1443-1452 - [c123]Melinda Wassell, James L. Murray, Chaithra Kumar, Karin Verspoor, Kerryn Butler-Henderson:
Understanding Clinician EHR Data Quality for Reuse in Predictive Modelling. MedInfo 2023: 169-173 - [c122]Anna Khanina, Vlada Rozova, Sri Elkins, Karin Verspoor, Karin A. Thursky:
Designing a Digital Health Solution: A Platform for Automated Surveillance of Fungal Infection. MedInfo 2023: 1454-1455 - [c121]Jinghui Liu, Daniel Capurro, Anthony N. Nguyen, Karin Verspoor:
Uncovering Variations in Clinical Notes for NLP Modeling. MedInfo 2023: 1460-1461 - [c120]Rahmad Mahendra, Damiano Spina, Karin Verspoor:
ITTC at SemEval 2023-Task 7: Document Retrieval and Sentence Similarity for Evidence Retrieval in Clinical Trial Data. SemEval@ACL 2023: 2338-2342 - [c119]Thinh Hung Truong, Timothy Baldwin, Karin Verspoor, Trevor Cohn:
Language models are not naysayers: an analysis of language models on negation benchmarks. *SEM@ACL 2023: 101-114 - [i29]Jinghui Liu, Daniel Capurro, Anthony N. Nguyen, Karin Verspoor:
Improving Text-based Early Prediction by Distillation from Privileged Time-Series Text. CoRR abs/2301.10887 (2023) - [i28]Thinh Hung Truong, Timothy Baldwin, Karin Verspoor, Trevor Cohn:
Language models are not naysayers: An analysis of language models on negation benchmarks. CoRR abs/2306.08189 (2023) - [i27]Yuxia Wang, Shimin Tao, Ning Xie, Hao Yang, Timothy Baldwin, Karin Verspoor:
Collective Human Opinions in Semantic Textual Similarity. CoRR abs/2308.04114 (2023) - [i26]Aparna Elangovan, Jiayuan He, Yuan Li, Karin Verspoor:
Effects of Human Adversarial and Affable Samples on BERT Generalizability. CoRR abs/2310.08008 (2023) - [i25]Aparna Elangovan, Jiayuan He, Yuan Li, Karin Verspoor:
Principles from Clinical Research for NLP Model Generalization. CoRR abs/2311.03663 (2023) - 2022
- [j75]Benjamin Goudey, Nicholas Geard, Karin Verspoor, Justin Zobel:
Propagation, detection and correction of errors using the sequence database network. Briefings Bioinform. 23(6) (2022) - [j74]Gourab Ghosh Roy, Nicholas Geard, Karin Verspoor, Shan He:
MPVNN: Mutated Pathway Visible Neural Network architecture for interpretable prediction of cancer-specific survival risk. Bioinform. 38(22): 5026-5032 (2022) - [j73]Jiyu Chen, Benjamin Goudey, Justin Zobel, Nicholas Geard, Karin Verspoor:
Exploring automatic inconsistency detection for literature-based gene ontology annotation. Bioinform. 38(Supplement_1): i273-i281 (2022) - [j72]Aparna Elangovan, Yuan Li, Douglas E. V. Pires, Melissa J. Davis, Karin Verspoor:
Large-scale protein-protein post-translational modification extraction with distant supervision and confidence calibrated BioBERT. BMC Bioinform. 23(1): 4 (2022) - [j71]Vlada Rozova, Katrina Witt, Jo Robinson, Yan Li, Karin Verspoor:
Detection of self-harm and suicidal ideation in emergency department triage notes. J. Am. Medical Informatics Assoc. 29(3): 472-480 (2022) - [j70]Asher Lederman, Reeva Lederman, Karin Verspoor:
Tasks as needs: reframing the paradigm of clinical natural language processing research for real-world decision support. J. Am. Medical Informatics Assoc. 29(10): 1810-1817 (2022) - [j69]Jinghui Liu, Daniel Capurro, Anthony N. Nguyen, Karin Verspoor:
"Note Bloat" impacts deep learning-based NLP models for clinical prediction tasks. J. Biomed. Informatics 133: 104149 (2022) - [j68]Yuxia Wang, Daniel Beck, Karin Verspoor, Timothy Baldwin:
Uncertainty Estimation and Reduction of Pre-trained Models for Text Regression. Trans. Assoc. Comput. Linguistics 10: 680-696 (2022) - [c118]Biaoyan Fang, Timothy Baldwin, Karin Verspoor:
What does it take to bake a cake? The RecipeRef corpus and anaphora resolution in procedural text. ACL (Findings) 2022: 3481-3495 - [c117]Yulia Otmakhova, Karin Verspoor, Timothy Baldwin, Jey Han Lau:
The patient is more dead than alive: exploring the current state of the multi-document summarisation of the biomedical literature. ACL (1) 2022: 5098-5111 - [c116]Jinghui Liu, Daniel Capurro, Anthony N. Nguyen, Karin Verspoor:
Improving Text-based Early Prediction by Distillation from Privileged Time-Series Text. ALTA 2022: 73-83 - [c115]Antonio Jimeno-Yepes, Karin Verspoor:
Distinguishing between focus and background entities in biomedical corpora using discourse structure and transformers. LOUHI@EMNLP 2022: 35-40 - [c114]Yuan Li, Biaoyan Fang, Jiayuan He, Hiyori Yoshikawa, Saber A. Akhondi, Christian Druckenbrodt, Camilo Thorne, Zubair Afzal, Zenan Zhai, Timothy Baldwin, Karin Verspoor:
Overview of ChEMU 2022 Evaluation Campaign: Information Extraction in Chemical Patents. CLEF 2022: 521-540 - [c113]Yuan Li, Biaoyan Fang, Jiayuan He, Hiyori Yoshikawa, Saber A. Akhondi, Christian Druckenbrodt, Camilo Thorne, Zubair Afzal, Zenan Zhai, Kojiro Machi, Masaharu Yoshioka, Youngrok Jang, Hosung Song, Junho Lee, Gyeonghun Kim, Yireun Kim, Stanley Jungkyu Choi, Honglak Lee, Kyunghoon Bae, Darshini Mahendran, Christina Tang, Bridget T. McInnes, Timothy Baldwin, Karin Verspoor:
Extended Overview of ChEMU 2022 Evaluation Campaign: Information Extraction in Chemical Patents. CLEF (Working Notes) 2022: 758-781 - [c112]Antonio Jimeno-Yepes, Karin Verspoor:
READ-BioMed@SocialDisNER: Adaptation of an Annotation System to Spanish Tweets. SMM4H@COLING 2022: 48-51 - [c111]Yulia Otmakhova, Thinh Hung Truong, Timothy Baldwin, Trevor Cohn, Karin Verspoor, Jey Han Lau:
LED down the rabbit hole: exploring the potential of global attention for biomedical multi-document summarisation. SDP@COLING 2022: 181-187 - [c110]Yuxia Wang, Timothy Baldwin, Karin Verspoor:
Noisy Label Regularisation for Textual Regression. COLING 2022: 4228-4240 - [c109]Mingjie Li, Wenjia Cai, Karin Verspoor, Shirui Pan, Xiaodan Liang, Xiaojun Chang:
Cross-modal Clinical Graph Transformer for Ophthalmic Report Generation. CVPR 2022: 20624-20633 - [c108]Yuan Li, Biaoyan Fang, Jiayuan He, Hiyori Yoshikawa, Saber A. Akhondi, Christian Druckenbrodt, Camilo Thorne, Zenan Zhai, Zubair Afzal, Trevor Cohn, Timothy Baldwin, Karin Verspoor:
The ChEMU 2022 Evaluation Campaign: Information Extraction in Chemical Patents. ECIR (2) 2022: 400-407 - [c107]Yulia Otmakhova, Karin Verspoor, Timothy Baldwin, Antonio Jimeno-Yepes, Jey Han Lau:
M3: Multi-level dataset for Multi-document summarisation of Medical studies. EMNLP (Findings) 2022: 3887-3901 - [c106]Thinh Hung Truong, Yulia Otmakhova, Timothy Baldwin, Trevor Cohn, Jey Han Lau, Karin Verspoor:
Not another Negation Benchmark: The NaN-NLI Test Suite for Sub-clausal Negation. AACL/IJCNLP (1) 2022: 883-894 - [c105]Thinh Hung Truong, Timothy Baldwin, Trevor Cohn, Karin Verspoor:
Improving negation detection with negation-focused pre-training. NAACL-HLT 2022: 4188-4193 - [c104]Antonio Jimeno-Yepes, Karin Verspoor:
The READ-BioMed Team in LivingNER Task 1 (2022): Adaptation of an English Annotation System to Spanish. IberLEF@SEPLN 2022 - [c103]Karin Verspoor:
Why Bother Enabling Biomedical Literature Analysis with Semantics? WWW (Companion Volume) 2022: 822 - [d2]Antonio Jimeno-Yepes, Karin Verspoor:
Identification of focus versus background entities in scientific literature. Zenodo, 2022
- [i24]Aparna Elangovan, Yuan Li, Douglas E. V. Pires, Melissa J. Davis, Karin Verspoor:
Large-scale protein-protein post-translational modification extraction with distant supervision and confidence calibrated BioBERT. CoRR abs/2201.02229 (2022) - [i23]Gourab Ghosh Roy, Nicholas Geard, Karin Verspoor, Shan He:
MPVNN: Mutated Pathway Visible Neural Network Architecture for Interpretable Prediction of Cancer-specific Survival Risk. CoRR abs/2202.00882 (2022) - [i22]Thinh Hung Truong, Yulia Otmakhova, Rahmad Mahendra, Timothy Baldwin, Jey Han Lau, Trevor Cohn, Lawrence Cavedon, Damiano Spina, Karin Verspoor:
ITTC @ TREC 2021 Clinical Trials Track. CoRR abs/2202.07858 (2022) - [i21]Thinh Hung Truong, Timothy Baldwin, Trevor Cohn, Karin Verspoor:
Improving negation detection with negation-focused pre-training. CoRR abs/2205.04012 (2022) - [i20]Mingjie Li, Wenjia Cai, Karin Verspoor, Shirui Pan, Xiaodan Liang, Xiaojun Chang:
Cross-modal Clinical Graph Transformer for Ophthalmic Report Generation. CoRR abs/2206.01988 (2022) - [i19]Yulia Otmakhova, Thinh Hung Truong, Timothy Baldwin, Trevor Cohn, Karin Verspoor, Jey Han Lau:
LED down the rabbit hole: exploring the potential of global attention for biomedical multi-document summarisation. CoRR abs/2209.08698 (2022) - [i18]Thinh Hung Truong, Yulia Otmakhova, Timothy Baldwin, Trevor Cohn, Jey Han Lau, Karin Verspoor:
Not another Negation Benchmark: The NaN-NLI Test Suite for Sub-clausal Negation. CoRR abs/2210.03256 (2022) - 2021
- [j67]Ziad Al Bkhetan, Gursharan Chana, Kotagiri Ramamohanarao, Karin Verspoor, Benjamin Goudey:
Evaluation of consensus strategies for haplotype phasing. Briefings Bioinform. 22(4) (2021) - [j66]Gourab Ghosh Roy, Nicholas Geard, Karin Verspoor, Shan He:
PoLoBag: Polynomial Lasso Bagging for signed gene regulatory network inference from expression data. Bioinform. 36(21): 5187-5193 (2021) - [j65]Jiyu Chen, Nicholas Geard, Justin Zobel, Karin Verspoor:
Automatic consistency assurance for literature-based gene ontology annotation. BMC Bioinform. 22(1): 565 (2021) - [j64]Ke Cao, Karin Verspoor, Elsie Chan, Mark Daniell, Srujana Sahebjada, Paul N. Baird:
Machine learning with a reduced dimensionality representation of comprehensive Pentacam tomography parameters to identify subclinical keratoconus. Comput. Biol. Medicine 138: 104884 (2021) - [j63]Jiayuan He, Dat Quoc Nguyen, Saber A. Akhondi, Christian Druckenbrodt, Camilo Thorne, Ralph Hoessel, Zubair Afzal, Zenan Zhai, Biaoyan Fang, Hiyori Yoshikawa, Ameer Albahem, Lawrence Cavedon, Trevor Cohn, Timothy Baldwin, Karin Verspoor:
ChEMU 2020: Natural Language Processing Methods Are Effective for Information Extraction From Chemical Patents. Frontiers Res. Metrics Anal. 6: 654438 (2021) - [j62]Zenan Zhai, Christian Druckenbrodt, Camilo Thorne, Saber A. Akhondi, Dat Quoc Nguyen, Trevor Cohn, Karin Verspoor:
ChemTables: a dataset for semantic classification on tables in chemical patents. J. Cheminformatics 13(1): 97 (2021) - [j61]Jinghui Liu, Daniel Capurro, Anthony N. Nguyen, Karin Verspoor:
Early prediction of diagnostic-related groups and estimation of hospital cost by processing clinical notes. npj Digit. Medicine 4 (2021) - [c102]Antonio Jimeno-Yepes, Ameer Albahem, Karin Verspoor:
Using Discourse Structure to Differentiate Focus Entities from Background Entities in Scientific Literature. ALTA 2021: 174-178 - [c101]Kevin Bretonnel Cohen, Anna M. Ripple, Asma Ben Abacha, Olivier Bodenreider, Orin Hargraves, Karin Verspoor, Pierre Zweigenbaum, Dina Demner-Fushman:
Reproducibility in biomedical natural language processing: A FAIR approach to what we need to know. AMIA 2021 - [c100]Yuan Li, Biaoyan Fang, Jiayuan He, Hiyori Yoshikawa, Saber A. Akhondi, Christian Druckenbrodt, Camilo Thorne, Zubair Afzal, Zenan Zhai, Timothy Baldwin, Karin Verspoor:
Overview of ChEMU 2021: Reaction Reference Resolution and Anaphora Resolution in Chemical Patents. CLEF 2021: 292-307 - [c99]Yuan Li, Biaoyan Fang, Jiayuan He, Hiyori Yoshikawa, Saber A. Akhondi, Christian Druckenbrodt, Camilo Thorne, Zubair Afzal, Zenan Zhai, Timothy Baldwin, Karin Verspoor:
Extended Overview of ChEMU 2021: Reaction Reference Resolution and Anaphora Resolution in Chemical Patents. CLEF (Working Notes) 2021: 693-709 - [c98]Aparna Elangovan, Jiayuan He, Karin Verspoor:
Memorization vs. Generalization : Quantifying Data Leakage in NLP Performance Evaluation. EACL 2021: 1325-1335 - [c97]Biaoyan Fang, Christian Druckenbrodt, Saber A. Akhondi, Jiayuan He, Timothy Baldwin, Karin Verspoor:
ChEMU-Ref: A Corpus for Modeling Anaphora Resolution in the Chemical Domain. EACL 2021: 1362-1375 - [c96]Karin Verspoor, Simon Suster, Yulia Otmakhova, Shevon Mendis, Zenan Zhai, Biaoyan Fang, Jey Han Lau, Timothy Baldwin, Antonio Jimeno-Yepes, David Martínez:
Brief Description of COVID-SEE: The Scientific Evidence Explorer for COVID-19 Related Research. ECIR (2) 2021: 559-564 - [c95]Jiayuan He, Biaoyan Fang, Hiyori Yoshikawa, Yuan Li, Saber A. Akhondi, Christian Druckenbrodt, Camilo Thorne, Zubair Afzal, Zenan Zhai, Lawrence Cavedon, Trevor Cohn, Timothy Baldwin, Karin Verspoor:
ChEMU 2021: Reaction Reference Resolution and Anaphora Resolution in Chemical Patents. ECIR (2) 2021: 608-615 - [c94]Simon Suster, Karin Verspoor, Timothy Baldwin, Jey Han Lau, Antonio Jimeno-Yepes, David Martinez Iraola, Yulia Otmakhova:
Impact of detecting clinical trial elements in exploration of COVID-19 literature. ICHI 2021: 495-496 - [c93]Mingjie Li, Wenjia Cai, Rui Liu, Yuetian Weng, Xiaoyun Zhao, Cong Wang, Xin Chen, Zhong Liu, Caineng Pan, Mengke Li, Yingfeng Zheng, Yizhi Liu, Flora D. Salim, Karin Verspoor, Xiaodan Liang, Xiaojun Chang:
FFA-IR: Towards an Explainable and Reliable Medical Report Generation Benchmark. NeurIPS Datasets and Benchmarks 2021 - [c92]Mary Regina Boland, Karin Verspoor, Maricel G. Kann, Su Golder, Lisa Levine, Karen O'Conner, Natalia Villanueva-Rosales, Graciela Gonzalez-Hernandez:
Advanced Methods for Big Data Analytics in Women's Health. PSB 2021 - [c91]Hung-Thinh Truong, Yulia Otmakhova, Timothy Baldwin, Jey Han Lau, Trevor Cohn, Karin Verspoor, Rahmad Mahendra, Lawrence Cavedon, Damiano Spina:
ITTC @ TREC 2021 Clinical Trials Track. TREC 2021 - [i17]Aparna Elangovan, Jiayuan He, Karin Verspoor:
Memorization vs. Generalization: Quantifying Data Leakage in NLP Performance Evaluation. CoRR abs/2102.01818 (2021) - [i16]Simon Suster, Karin Verspoor, Timothy Baldwin, Jey Han Lau, Antonio Jimeno-Yepes, David Martínez, Yulia Otmakhova:
Impact of detecting clinical trial elements in exploration of COVID-19 literature. CoRR abs/2105.12261 (2021) - 2020
- [j60]Liliya Akhtyamova, Paloma Martínez, Karin Verspoor, John Cardiff:
Testing Contextualized Word Embeddings to Improve NER in Spanish Clinical Case Narratives. IEEE Access 8: 164717-164726 (2020) - [j59]Qingyu Chen, Ramona Britto, Ivan Erill, Constance J. Jeffery, Arthur Liberzon, Michele Magrane, Jun-ichi Onami, Marc Robinson-Rechavi, Jana Sponarova, Justin Zobel, Karin Verspoor:
Quality Matters: Biocuration Experts on the Impact of Duplication and Other Data Quality Issues in Biological Databases. Genom. Proteom. Bioinform. 18(2): 91-103 (2020) - [c90]Yuxia Wang, Karin Verspoor, Timothy Baldwin:
Learning from Unlabelled Data for Clinical Semantic Textual Similarity. ClinicalNLP@EMNLP 2020: 227-233 - [c89]Yuxia Wang, Fei Liu, Karin Verspoor, Timothy Baldwin:
Evaluating the Utility of Model Configurations and Data Augmentation on Clinical Semantic Textual Similarity. BioNLP 2020: 105-111 - [c88]Brian Hur, Timothy Baldwin, Karin Verspoor, Laura Hardefeldt, James Gilkerson:
Domain Adaptation and Instance Selection for Disease Syndrome Classification over Veterinary Clinical Notes. BioNLP 2020: 156-166 - [c87]Jiayuan He, Dat Quoc Nguyen, Saber A. Akhondi, Christian Druckenbrodt, Camilo Thorne, Ralph Hoessel, Zubair Afzal, Zenan Zhai, Biaoyan Fang, Hiyori Yoshikawa, Ameer Albahem, Lawrence Cavedon, Trevor Cohn, Timothy Baldwin, Karin Verspoor:
Overview of ChEMU 2020: Named Entity Recognition and Event Extraction of Chemical Reactions from Patents. CLEF 2020: 237-254 - [c86]Jiayuan He, Dat Quoc Nguyen, Saber A. Akhondi, Christian Druckenbrodt, Camilo Thorne, Ralph Hoessel, Zubair Afzal, Zenan Zhai, Biaoyan Fang, Hiyori Yoshikawa, Ameer Albahem, Jingqi Wang, Yuankai Ren, Zhi Zhang, Yaoyun Zhang, Mai Hoang Dao, Pedro Ruas, Andre Lamurias, Francisco M. Couto, Jenny Copara, Nona Naderi, Julien Knafou, Patrick Ruch, Douglas Teodoro, Daniel M. Lowe, John Mayfield, Abdullatif Köksal, Hilal Dönmez, Elif Özkirimli, Arzucan Özgür, Darshini Mahendran, Gabrielle Gurdin, Nastassja Lewinski, Christina Tang, Bridget T. McInnes, C. S. Malarkodi, Pattabhi R. K. Rao, Sobha Lalitha Devi, Lawrence Cavedon, Trevor Cohn, Timothy Baldwin, Karin Verspoor:
An Extended Overview of the CLEF 2020 ChEMU Lab: Information Extraction of Chemical Reactions from Patents. CLEF (Working Notes) 2020 - [c85]Afshin Rahimi, Timothy Baldwin, Karin Verspoor:
WikiUMLS: Aligning UMLS to Wikipedia via Cross-lingual Neural Ranking. COLING 2020: 5957-5962 - [c84]Dat Quoc Nguyen, Zenan Zhai, Hiyori Yoshikawa, Biaoyan Fang, Christian Druckenbrodt, Camilo Thorne, Ralph Hoessel, Saber A. Akhondi, Trevor Cohn, Timothy Baldwin, Karin Verspoor:
ChEMU: Named Entity Recognition and Event Extraction of Chemical Reactions from Patents. ECIR (2) 2020: 572-579 - [c83]Yulia Otmakhova, Karin Verspoor, Timothy Baldwin, Simon Suster:
Improved Topic Representations of Medical Documents to Assist COVID-19 Literature Exploration. NLP4COVID@EMNLP 2020 - [e10]Karin Verspoor, Kevin Bretonnel Cohen, Michael Conway, Berry de Bruijn, Mark Dredze, Rada Mihalcea, Byron C. Wallace:
Proceedings of the 1st Workshop on NLP for COVID-19@ EMNLP 2020, Online, December 2020. Association for Computational Linguistics 2020 [contents] - [i15]Afshin Rahimi, Timothy Baldwin, Karin Verspoor:
WikiUMLS: Aligning UMLS to Wikipedia via Cross-lingual Neural Ranking. CoRR abs/2005.01281 (2020) - [i14]Karin Verspoor, Simon Suster, Yulia Otmakhova, Shevon Mendis, Zenan Zhai, Biaoyan Fang, Jey Han Lau, Timothy Baldwin, Antonio Jimeno-Yepes, David Martínez:
COVID-SEE: Scientific Evidence Explorer for COVID-19 Related Research. CoRR abs/2008.07880 (2020) - [i13]Aparna Elangovan, Melissa J. Davis, Karin Verspoor:
Assigning function to protein-protein interactions: a weakly supervised BioBERT based approach using PubMed abstracts. CoRR abs/2008.08727 (2020)
2010 – 2019
- 2019
- [j58]Rezarta Islamaj Dogan, Sun Kim, Andrew Chatr-aryamontri, Chih-Hsuan Wei, Donald C. Comeau, Rui Antunes, Sérgio Matos, Qingyu Chen, Aparna Elangovan, Nagesh C. Panyam, Karin Verspoor, Hongfang Liu, Yanshan Wang, Zhuang Liu, Berna Altinel, Zehra Melce Hüsünbeyi, Arzucan Özgür, Aris Fergadis, Chen-Kai Wang, Hong-Jie Dai, Tung Tran, Ramakanth Kavuluru, Ling Luo, Albert Steppi, Jinfeng Zhang, Jinchan Qu, Zhiyong Lu:
Overview of the BioCreative VI Precision Medicine Track: mining protein interactions and mutations for precision medicine. Database J. Biol. Databases Curation 2019: bay147 (2019) - [j57]Dat Quoc Nguyen, Karin Verspoor:
From POS tagging to dependency parsing for biomedical event extraction. BMC Bioinform. 20(1): 72:1-72:13 (2019) - [j56]Mohamed Reda Bouadjenek, Justin Zobel, Karin Verspoor:
Automated assessment of biological database assertions using the scientific literature. BMC Bioinform. 20(1): 216:1-216:22 (2019) - [j55]Ziad Al Bkhetan, Justin Zobel, Adam Kowalczyk, Karin Verspoor, Benjamin Goudey:
Exploring effective approaches for haplotype block phasing. BMC Bioinform. 20(1): 540:1-540:14 (2019) - [j54]Hamed Hassanzadeh, Anthony N. Nguyen, Karin Verspoor:
Quantifying semantic similarity of clinical evidence in the biomedical literature to facilitate related evidence synthesis. J. Biomed. Informatics 100 (2019) - [j53]Qingyu Chen, Xiuzhen Zhang, Yu Wan, Justin Zobel, Karin Verspoor:
Search Effectiveness in Nonredundant Sequence Databases: Assessments and Solutions. J. Comput. Biol. 26(6): 605-617 (2019) - [c82]Hiyori Yoshikawa, Dat Quoc Nguyen, Zenan Zhai, Christian Druckenbrodt, Camilo Thorne, Saber A. Akhondi, Timothy Baldwin, Karin Verspoor:
Detecting Chemical Reactions in Patents. ALTA 2019: 100-110 - [c81]Zenan Zhai, Dat Quoc Nguyen, Saber A. Akhondi, Camilo Thorne, Christian Druckenbrodt, Trevor Cohn, Michelle Gregory, Karin Verspoor:
Improving Chemical Named Entity Recognition in Patents with Contextualized Word Embeddings. BioNLP@ACL 2019: 328-338 - [c80]Dat Quoc Nguyen, Karin Verspoor:
End-to-End Neural Relation Extraction Using Deep Biaffine Attention. ECIR (1) 2019: 729-738 - [c79]Guillermo López-Campos, Philip Kiossoglou, Ann Borda, Christopher Hawthorne, Kathleen Gray, Karin Verspoor:
Characterizing the Scope of Exposome Research Through Topic Modeling and Ontology Analysis. MedInfo 2019: 1530-1531 - [c78]Jiyu Chen, Karin Verspoor, Zenan Zhai:
A Bag-of-concepts Model Improves Relation Extraction in a Narrow Knowledge Domain with Limited Data. NAACL-HLT (Student Research Workshop) 2019: 43-52 - [c77]Rachel Bawden, Kevin Bretonnel Cohen, Cristian Grozea, Antonio Jimeno-Yepes, Madeleine Kittner, Martin Krallinger, Nancy Mah, Aurélie Névéol, Mariana L. Neves, Felipe Soares, Amy Siu, Karin Verspoor, Maika Vicente Navarro:
Findings of the WMT 2019 Biomedical Translation Shared Task: Evaluation for MEDLINE Abstracts and Biomedical Terminologies. WMT (3) 2019: 29-53 - [e9]Ondrej Bojar, Rajen Chatterjee, Christian Federmann, Mark Fishel, Yvette Graham, Barry Haddow, Matthias Huck, Antonio Jimeno-Yepes, Philipp Koehn, André F. T. Martins, Christof Monz, Matteo Negri, Aurélie Névéol, Mariana L. Neves, Matt Post, Marco Turchi, Karin Verspoor:
Proceedings of the Fourth Conference on Machine Translation, WMT 2019, Florence, Italy, August 1-2, 2019 - Volume 1: Research Papers. Association for Computational Linguistics 2019, ISBN 978-1-950737-27-7 [contents] - [e8]Ondrej Bojar, Rajen Chatterjee, Christian Federmann, Mark Fishel, Yvette Graham, Barry Haddow, Matthias Huck, Antonio Jimeno-Yepes, Philipp Koehn, André F. T. Martins, Christof Monz, Matteo Negri, Aurélie Névéol, Mariana L. Neves, Matt Post, Marco Turchi, Karin Verspoor:
Proceedings of the Fourth Conference on Machine Translation, WMT 2019, Florence, Italy, August 1-2, 2019 - Volume 2: Shared Task Papers, Day 1. Association for Computational Linguistics 2019 [contents] - [e7]Ondrej Bojar, Rajen Chatterjee, Christian Federmann, Mark Fishel, Yvette Graham, Barry Haddow, Matthias Huck, Antonio Jimeno-Yepes, Philipp Koehn, André F. T. Martins, Christof Monz, Matteo Negri, Aurélie Névéol, Mariana L. Neves, Matt Post, Marco Turchi, Karin Verspoor:
Proceedings of the Fourth Conference on Machine Translation, WMT 2019, Florence, Italy, August 1-2, 2019 - Volume 3: Shared Task Papers, Day 2. Association for Computational Linguistics 2019 [contents] - [i12]Jiyu Chen, Karin Verspoor, Zenan Zhai:
A bag-of-concepts model improves relation extraction in a narrow knowledge domain with limited data. CoRR abs/1904.10743 (2019) - [i11]Zenan Zhai, Dat Quoc Nguyen, Saber A. Akhondi, Camilo Thorne, Christian Druckenbrodt, Trevor Cohn, Michelle Gregory, Karin Verspoor:
Improving Chemical Named Entity Recognition in Patents with Contextualized Word Embeddings. CoRR abs/1907.02679 (2019) - [i10]Preslav Nakov, Doris Hoogeveen, Lluís Màrquez, Alessandro Moschitti, Hamdy Mubarak, Timothy Baldwin, Karin Verspoor:
SemEval-2017 Task 3: Community Question Answering. CoRR abs/1912.00730 (2019) - [i9]Toshiaki Katayama, Shuichi Kawashima, Gos Micklem, Shin Kawano, Jin-Dong Kim, Simon Kocbek, Shinobu Okamoto, Yue Wang, Hongyan Wu, Atsuko Yamaguchi, Yasunori Yamamoto, Erick Antezana, Kiyoko F. Aoki-Kinoshita, Kazuharu Arakawa, Masaki Banno, Joachim Baran, Jerven T. Bolleman, Raoul Jean Pierre Bonnal, Hidemasa Bono, Jesualdo Tomás Fernández-Breis, Robert M. Buels, Matthew P. Campbell, Hirokazu Chiba, Peter J. A. Cock, Kevin Bretonnel Cohen, Michel Dumontier, Takatomo Fujisawa, Toyofumi Fujiwara, Leyla J. García, Pascale Gaudet, Emi Hattori, Robert Hoehndorf, Kotone Itaya, Maori Ito, Daniel Jamieson, Simon Jupp, Nick S. Juty, Alex Kalderimis, Fumihiro Kato, Hideya Kawaji, Takeshi Kawashima, Akira R. Kinjo, Yusuke Komiyama, Masaaki Kotera, Tatsuya Kushida, James Malone, Masaaki Matsubara, Satoshi Mizuno, Sayaka Mizutani, Hiroshi Mori, Yuki Moriya, Katsuhiko Murakami, Takeru Nakazato, Hiroyo Nishide, Yosuke Nishimura, Soichi Ogishima, Tazro Ohta, Shujiro Okuda, Hiromasa Ono, Yasset Pérez-Riverol, Daisuke Shinmachi, Andrea Splendiani, Francesco Strozzi, Shinya Suzuki, Junichi Takehara, Mark Thompson, Toshiaki Tokimatsu, Ikuo Uchiyama, Karin Verspoor, Mark D. Wilkinson, Sarala M. Wimalaratne, Issaku Yamada, Nozomi Yamamoto, Masayuki Yarimizu, Shoko Kawamoto, Toshihisa Takagi:
BioHackathon series in 2013 and 2014: improvements of semantic interoperability in life science data and services. F1000Research 8: 1677 (2019) - 2018
- [j52]Qingyu Chen, Nagesh C. Panyam, Aparna Elangovan, Karin Verspoor:
BioCreative VI Precision Medicine Track system performance is constrained by entity recognition and variations in corpus characteristics. Database J. Biol. Databases Curation 2018: bay122 (2018) - [j51]Nagesh Panyam Chandrasekarasastry, Karin Verspoor, Trevor Cohn, Kotagiri Ramamohanarao:
Exploiting graph kernels for high performance biomedical relation extraction. J. Biomed. Semant. 9(1): 7:1-7:11 (2018) - [j50]Pathima Nusrath Hameed, Karin Verspoor, Snezana Kusljic, Saman K. Halgamuge:
A two-tiered unsupervised clustering approach for drug repositioning through heterogeneous data integration. BMC Bioinform. 19(1): 129:1-129:18 (2018) - [j49]Nicola Ferro, Norbert Fuhr, Gregory Grefenstette, Joseph A. Konstan, Pablo Castells, Elizabeth M. Daly, Thierry Declerck, Michael D. Ekstrand, Werner Geyer, Julio Gonzalo, Tsvi Kuflik, Krister Lindén, Bernardo Magnini, Jian-Yun Nie, Raffaele Perego, Bracha Shapira, Ian Soboroff, Nava Tintarev, Karin Verspoor, Martijn C. Willemsen, Justin Zobel:
From Evaluating to Forecasting Performance: How to Turn Information Retrieval, Natural Language Processing and Recommender Systems into Predictive Sciences (Dagstuhl Perspectives Workshop 17442). Dagstuhl Manifestos 7(1): 96-139 (2018) - [j48]Doris Hoogeveen, Li Wang, Timothy Baldwin, Karin M. Verspoor:
Web Forum Retrieval and Text Analytics: A Survey. Found. Trends Inf. Retr. 12(1): 1-163 (2018) - [j47]Karin Verspoor, Bahadorreza Ofoghi, Marlene Robles Granda:
CommViz: Visualization of semantic patterns in large social communication networks. Inf. Vis. 17(1): 66-88 (2018) - [j46]Qingyu Chen, Yu Wan, Xiuzhen Zhang, Yang Lei, Justin Zobel, Karin Verspoor:
Comparative Analysis of Sequence Clustering Methods for Deduplication of Biological Databases. ACM J. Data Inf. Qual. 9(3): 17 (2018) - [j45]Simone Romano, Xuan Vinh Nguyen, Karin Verspoor, James Bailey:
The randomized information coefficient: assessing dependencies in noisy data. Mach. Learn. 107(3): 509-549 (2018) - [j44]Nicola Ferro, Norbert Fuhr, Gregory Grefenstette, Joseph A. Konstan, Pablo Castells, Elizabeth M. Daly, Thierry Declerck, Michael D. Ekstrand, Werner Geyer, Julio Gonzalo, Tsvi Kuflik, Krister Lindén, Bernardo Magnini, Jian-Yun Nie, Raffaele Perego, Bracha Shapira, Ian Soboroff, Nava Tintarev, Karin Verspoor, Martijn C. Willemsen, Justin Zobel:
The Dagstuhl Perspectives Workshop on Performance Modeling and Prediction. SIGIR Forum 52(1): 91-101 (2018) - [c76]Zenan Zhai, Dat Quoc Nguyen, Karin Verspoor:
Comparing CNN and LSTM character-level embeddings in BiLSTM-CRF models for chemical and disease named entity recognition. Louhi@EMNLP 2018: 38-43 - [c75]Piyapong Khumrin, Anna Ryan, Terry S. Judd, Karin Verspoor:
DrKnow: A Diagnostic Learning Tool with Feedback from Automated Clinical Decision Support. AMIA 2018 - [c74]Dat Quoc Nguyen, Karin Verspoor:
Convolutional neural networks for chemical-disease relation extraction are improved with character-based word embeddings. BioNLP 2018: 129-136 - [c73]Dat Quoc Nguyen, Karin Verspoor:
An Improved Neural Network Model for Joint POS Tagging and Dependency Parsing. CoNLL Shared Task (2) 2018: 81-91 - [c72]Doris Hoogeveen, Andrew Bennett, Yitong Li, Karin M. Verspoor, Timothy Baldwin:
Detecting Misflagged Duplicate Questions in Community Question-Answering Archives. ICWSM 2018: 112-120 - [c71]Aurélie Névéol, Antonio Jimeno-Yepes, Mariana L. Neves, Karin Verspoor:
Parallel Corpora for the Biomedical Domain. LREC 2018 - [c70]Yang Lu, Richard O. Sinnott, Karin Verspoor:
Semantic-Based Policy Composition for Privacy-Demanding Data Linkage. TrustCom/BigDataSE 2018: 348-359 - [c69]Yang Lu, Richard O. Sinnott, Karin Verspoor, Udaya Parampalli:
Privacy-Preserving Access Control in Electronic Health Record Linkage. TrustCom/BigDataSE 2018: 1079-1090 - [c68]Mariana L. Neves, Antonio Jimeno-Yepes, Aurélie Névéol, Cristian Grozea, Amy Siu, Madeleine Kittner, Karin Verspoor:
Findings of the WMT 2018 Biomedical Translation Shared Task: Evaluation on Medline test sets. WMT (shared task) 2018: 324-339 - [e6]Ondrej Bojar, Rajen Chatterjee, Christian Federmann, Mark Fishel, Yvette Graham, Barry Haddow, Matthias Huck, Antonio Jimeno-Yepes, Philipp Koehn, Christof Monz, Matteo Negri, Aurélie Névéol, Mariana L. Neves, Matt Post, Lucia Specia, Marco Turchi, Karin Verspoor:
Proceedings of the Third Conference on Machine Translation: Research Papers, WMT 2018, Belgium, Brussels, October 31 - November 1, 2018. Association for Computational Linguistics 2018, ISBN 978-1-948087-81-0 [contents] - [e5]Ondrej Bojar, Rajen Chatterjee, Christian Federmann, Mark Fishel, Yvette Graham, Barry Haddow, Matthias Huck, Antonio Jimeno-Yepes, Philipp Koehn, Christof Monz, Matteo Negri, Aurélie Névéol, Mariana L. Neves, Matt Post, Lucia Specia, Marco Turchi, Karin Verspoor:
Proceedings of the Third Conference on Machine Translation: Shared Task Papers, WMT 2018, Belgium, Brussels, October 31 - November 1, 2018. Association for Computational Linguistics 2018, ISBN 978-1-948087-81-0 [contents] - [d1]Mohamed Reda Bouadjenek, Karin Verspoor, Justin Zobel:
Literature consistency of bioinformatics sequence databases is effective for assessing record quality. Zenodo, 2018 - [i8]Dat Quoc Nguyen, Karin Verspoor:
Convolutional neural networks for chemical-disease relation extraction are improved with character-based word embeddings. CoRR abs/1805.10586 (2018) - [i7]Dat Quoc Nguyen, Karin Verspoor:
An improved neural network model for joint POS tagging and dependency parsing. CoRR abs/1807.03955 (2018) - [i6]Dat Quoc Nguyen, Karin Verspoor:
From POS tagging to dependency parsing for biomedical event extraction. CoRR abs/1808.03731 (2018) - [i5]Zenan Zhai, Dat Quoc Nguyen, Karin Verspoor:
Comparing CNN and LSTM character-level embeddings in BiLSTM-CRF models for chemical and disease named entity recognition. CoRR abs/1808.08450 (2018) - [i4]Dat Quoc Nguyen, Karin Verspoor:
End-to-end neural relation extraction using deep biaffine attention. CoRR abs/1812.11275 (2018) - 2017
- [j43]Qingyu Chen, Justin Zobel, Karin Verspoor:
Duplicates, redundancies and inconsistencies in the primary nucleotide databases: a descriptive study. Database J. Biol. Databases Curation 2017: baw163 (2017) - [j42]Mohamed Reda Bouadjenek, Karin Verspoor, Justin Zobel:
Literature consistency of bioinformatics sequence databases is effective for assessing record quality. Database J. Biol. Databases Curation 2017: bax021 (2017) - [j41]Mohamed Reda Bouadjenek, Karin Verspoor:
Multi-field query expansion is effective for biomedical dataset retrieval. Database J. Biol. Databases Curation 2017: bax062 (2017) - [j40]Pathima Nusrath Hameed, Karin Verspoor, Snezana Kusljic, Saman K. Halgamuge:
Positive-Unlabeled Learning for inferring drug interactions based on heterogeneous attributes. BMC Bioinform. 18(1): 140:1-140:15 (2017) - [j39]K. Bretonnel Cohen, Arrick Lanfranchi, Miji Joo-young Choi, Michael Bada, William A. Baumgartner Jr., Natalya Panteleyeva, Karin Verspoor, Martha Palmer, Lawrence E. Hunter:
Coreference annotation and resolution in the Colorado Richly Annotated Full Text (CRAFT) corpus of biomedical journal articles. BMC Bioinform. 18(1): 372:1-372:14 (2017) - [j38]Mohamed Reda Bouadjenek, Karin Verspoor, Justin Zobel:
Automated detection of records in biological sequence databases that are inconsistent with the literature. J. Biomed. Informatics 71: 229-240 (2017) - [c67]Katherine Cheng, Timothy Baldwin, Karin Verspoor:
Automatic Negation and Speculation Detection in Veterinary Clinical Text. ALTA 2017: 70-78 - [c66]Bahadorreza Ofoghi, Karin Verspoor:
Textual Emotion Classification: An Interoperability Study on Cross-Genre Data Sets. Australasian Conference on Artificial Intelligence 2017: 262-273 - [c65]Mohamed Reda Bouadjenek, Karin Verspoor, Justin Zobel:
Learning Biological Sequence Types Using the Literature. CIKM 2017: 1991-1994 - [c64]Xin Li, Karin Verspoor, Kathleen Gray, Stephen Barnett:
Understanding Health Professionals' Informal Learning in Online Social Networks: A Cross-Sectional Survey. HIC 2017: 77-83 - [c63]Yang Lu, Richard O. Sinnott, Karin Verspoor:
A Semantic-Based K-Anonymity Scheme for Health Record Linkage. HIC 2017: 84-90 - [c62]Qingyu Chen, Xiuzhen Zhang, Yu Wan, Justin Zobel, Karin Verspoor:
Sequence Clustering Methods and Completeness of Biological Database Search. BAI@IJCAI 2017: 8-14 - [c61]Piyapong Khumrin, Anna Ryan, Terry S. Judd, Karin Verspoor:
Diagnostic Machine Learning Models for Acute Abdominal Pain: Towards an e-Learning Tool for Medical Students. MedInfo 2017: 447-451 - [c60]Philip Kiossoglou, Ann Borda, Kathleen Gray, Fernando Martín-Sánchez, Karin Verspoor, Guillermo López-Campos:
Characterising the Scope of Exposome Research: A Generalisable Approach. MedInfo 2017: 457-461 - [c59]Preslav Nakov, Doris Hoogeveen, Lluís Màrquez, Alessandro Moschitti, Hamdy Mubarak, Timothy Baldwin, Karin Verspoor:
SemEval-2017 Task 3: Community Question Answering. SemEval@ACL 2017: 27-48 - [c58]Antonio Jimeno-Yepes, Aurélie Névéol, Mariana L. Neves, Karin Verspoor, Ondrej Bojar, Arthur Boyer, Cristian Grozea, Barry Haddow, Madeleine Kittner, Yvonne Lichtblau, Pavel Pecina, Roland Roller, Rudolf Rosa, Amy Siu, Philippe Thomas, Saskia Trescher:
Findings of the WMT 2017 Biomedical Translation Shared Task. WMT 2017: 234-247 - 2016
- [j37]Miji Choi, Haibin Liu, William A. Baumgartner Jr., Justin Zobel, Karin Verspoor:
Coreference resolution improves extraction of Biological Expression Language statements from texts. Database J. Biol. Databases Curation 2016 (2016) - [j36]Christopher S. Funk, K. Bretonnel Cohen, Lawrence E. Hunter, Karin M. Verspoor:
Gene Ontology synonym generation rules lead to increased performance in biomedical concept recognition. J. Biomed. Semant. 7: 52 (2016) - [j35]Karin Verspoor, Anika Oellrich, Nigel Collier, Tudor Groza, Philippe Rocca-Serra, Larisa N. Soldatova, Michel Dumontier, Nigam Shah:
Thematic issue of the Second combined Bio-ontologies and Phenotypes Workshop. J. Biomed. Semant. 7: 66:1-66:4 (2016) - [j34]Yahui Sun, Pathima Nusrath Hameed, Karin Verspoor, Saman K. Halgamuge:
A physarum-inspired prize-collecting steiner tree approach to identify subnetworks for drug repositioning. BMC Syst. Biol. 10(S-5): 25-38 (2016) - [j33]Miji Choi, Justin Zobel, Karin Verspoor:
A categorical analysis of coreference resolution errors in biomedical texts. J. Biomed. Informatics 60: 309-318 (2016) - [j32]Simon Kocbek, Lawrence Cavedon, David Martínez, Christopher Bain, Chris Mac Manus, Gholamreza Haffari, Ingrid Zukerman, Karin Verspoor:
Text mining electronic hospital records to automatically classify admissions against disease: Measuring the impact of linking data sources. J. Biomed. Informatics 64: 158-167 (2016) - [j31]Tanvir Ahamed, Reeva Lederman, Rachelle Bosua, Karin Verspoor, Wray L. Buntine, Graeme Hart:
Towards a Methodology for Nursing-Specific Clinical Decision Support Systems (CDSS). J. Decis. Syst. 25(Supplement): 23-34 (2016) - [j30]Simone Romano, Xuan Vinh Nguyen, James Bailey, Karin Verspoor:
Adjusting for Chance Clustering Comparison Measures. J. Mach. Learn. Res. 17: 134:1-134:32 (2016) - [j29]Karin M. Verspoor, Go Eun Heo, Keun Young Kang, Min Song:
Establishing a baseline for literature mining human genetic variants and their relationships to disease cohorts. BMC Medical Informatics Decis. Mak. 16(S-1): 68 (2016) - [c57]Hafsah Aamer, Bahadorreza Ofoghi, Karin Verspoor:
Syndromic Surveillance through Measuring Lexical Shift in Emergency Department Chief Complaint Texts. ALTA 2016: 45-53 - [c56]Nagesh Panyam Chandrasekarasastry, Karin Verspoor, Trevor Cohn, Rao Kotagiri:
ASM Kernel: Graph Kernel using Approximate Subgraph Matching for Relation Extraction. ALTA 2016: 65-73 - [c55]Qingyu Chen, Yu Wan, Yang Lei, Justin Zobel, Karin Verspoor:
Evaluation of CD-HIT for constructing non-redundant databases. BIBM 2016: 703-706 - [c54]Nagesh Panyam Chandrasekarasastry, Gitansh Khirbat, Karin Verspoor, Trevor Cohn, Kotagiri Ramamohanarao:
SeeDev Binary Event Extraction using SVMs and a Rich Feature Set. BioNLP (Shared Task) 2016: 82-87 - [c53]Xin Li, Karin Verspoor, Kathleen Gray, Stephen Barnett:
Analysing Health Professionals' Learning Interactions in an Online Social Network: A Longitudinal Study. HIC 2016: 93-99 - [c52]Patrick Cheong-Iao Pang, Karin Verspoor, Jon M. Pearce, Shanton Chang:
Finding and Exploring Health Information with a Slider-Based User Interface. HIC 2016: 106-112 - [c51]Patrick Cheong-Iao Pang, Mitchell Harrop, Karin Verspoor, Jon M. Pearce, Shanton Chang:
What are health website visitors doing: insights from visualisations towards exploratory search. OZCHI 2016: 631-633 - [c50]Patrick Cheong-Iao Pang, Shanton Chang, Karin Verspoor, Jon M. Pearce:
Innovation in Designing Health Information Websites: Results from a Quantitative Study. PACIS 2016: 27 - [c49]Bahadorreza Ofoghi, Meghan Mann, Karin Verspoor:
Towards Early Discovery of Salient Health Threats: A Social Media Emotion Classification Technique. PSB 2016: 504-515 - [c48]Simone Romano, Xuan Vinh Nguyen, James Bailey, Karin Verspoor:
A Framework to Adjust Dependency Measure Estimates for Chance. SDM 2016: 423-431 - [c47]Ping Tan, Karin Verspoor, Tim Miller:
Rev at SemEval-2016 Task 2: Aligning Chunks by Lexical, Part of Speech and Semantic Equivalence. SemEval@NAACL-HLT 2016: 777-782 - [c46]Nagesh Panyam Chandrasekarasastry, Karin Verspoor, Trevor Cohn, Kotagiri Ramamohanarao:
Exploiting Tree Kernels for High Performance Chemical Induced Disease Relation Extraction. SMBM 2016: 42-47 - [c45]Ondrej Bojar, Rajen Chatterjee, Christian Federmann, Yvette Graham, Barry Haddow, Matthias Huck, Antonio Jimeno-Yepes, Philipp Koehn, Varvara Logacheva, Christof Monz, Matteo Negri, Aurélie Névéol, Mariana L. Neves, Martin Popel, Matt Post, Raphael Rubino, Carolina Scarton, Lucia Specia, Marco Turchi, Karin Verspoor, Marcos Zampieri:
Findings of the 2016 Conference on Machine Translation. WMT 2016: 131-198 - [i3]Xin Li, Kathleen Gray, Karin Verspoor, Stephen Barnett:
Analysing health professionals' learning interactions in online social networks: A social network analysis approach. CoRR abs/1604.02883 (2016) - 2015
- [j28]Karin Verspoor, Hagit Shatkay, Lynette Hirschman, Christian Blaschke, Alfonso Valencia:
Summary of the BioLINK SIG 2013 meeting at ISMB/ECCB 2013. Bioinform. 31(2): 297-298 (2015) - [j27]Christopher S. Funk, Indika Kahanda, Asa Ben-Hur, Karin M. Verspoor:
Evaluating a variety of text-mined features for automatic protein function prediction with GOstruct. J. Biomed. Semant. 6: 9 (2015) - [j26]Larisa N. Soldatova, Nigel Collier, Anika Oellrich, Tudor Groza, Karin Verspoor, Philippe Rocca-Serra, Michel Dumontier, Nigam H. Shah:
Special issue on bio-ontologies and phenotypes. J. Biomed. Semant. 6: 40 (2015) - [j25]Haibin Liu, Karin Verspoor, Donald C. Comeau, Andrew D. MacKinlay, W. John Wilbur:
Optimizing graph-based patterns to extract biomedical events from the literature. BMC Bioinform. 16(S16): S2 (2015) - [j24]Martin Krallinger, Obdulia Rabal, Florian Leitner, Miguel Vázquez, David Salgado, Zhiyong Lu, Robert Leaman, Yanan Lu, Donghong Ji, Daniel M. Lowe, Roger A. Sayle, Riza Theresa Batista-Navarro, Rafal Rak, Torsten Huber, Tim Rocktäschel, Sérgio Matos, David Campos, Buzhou Tang, Hua Xu, Tsendsuren Munkhdalai, Keun Ho Ryu, S. V. Ramanan, P. Senthil Nathan, Slavko Zitnik, Marko Bajec, Lutz Weber, Matthias Irmer, Saber A. Akhondi, Jan A. Kors, Shuo Xu, Xin An, Utpal Kumar Sikdar, Asif Ekbal, Masaharu Yoshioka, Thaer M. Dieb, Miji Choi, Karin Verspoor, Madian Khabsa, C. Lee Giles, Hongfang Liu, Ravikumar Komandur Elayavilli, Andre Lamurias, Francisco M. Couto, Hong-Jie Dai, Richard Tzong-Han Tsai, Caglar Ata, Tolga Can, Anabel Usie, Rui Alves, Isabel Segura-Bedmar, Paloma Martínez, Julen Oyarzabal, Alfonso Valencia:
The CHEMDNER corpus of chemicals and drugs and its annotation principles. J. Cheminformatics 7(S-1): S2 (2015) - [c44]Julio Cesar Salinas Alvarado, Karin Verspoor, Timothy Baldwin:
Domain Adaption of Named Entity Recognition to Support Credit Risk Assessment. ALTA 2015: 84-90 - [c43]Ping Ping Tan, Karin Verspoor, Timothy Miller:
Structural Alignment as the Basis to Improve Significant Change Detection in Versioned Sentences. ALTA 2015: 101-109 - [c42]Doris Hoogeveen, Karin M. Verspoor, Timothy Baldwin:
CQADupStack: A Benchmark Data Set for Community Question-Answering Research. ADCS 2015: 3:1-3:8 - [c41]Karin Verspoor:
Drawing on millions of biomedical journal publications to do predictive biology. BigComp 2015: 251-253 - [c40]Karin Verspoor, Go Eun Heo, Keun Young Kang, Min Song:
Extraction of Fine-grained Semantic Relations for the Human Variome. DTMBIO@CIKM 2015: 3 - [c39]Qingyu Chen, Justin Zobel, Karin Verspoor:
Evaluation of a Machine Learning Duplicate Detection Method for Bioinformatics Databases. DTMBIO@CIKM 2015: 4-12 - [c38]Min Song, Doheon Lee, Karin Verspoor:
DTMBIO 2015: International Workshop on Data and Text Mining in Biomedical Informatics. CIKM 2015: 1941-1942 - [c37]Patrick Cheong-Iao Pang, Karin Verspoor, Jon M. Pearce, Shanton Chang:
Better Health Explorer: Designing for Health Information Seekers. OZCHI 2015: 588-597 - [e4]Doheon Lee, Min Song, Karin Verspoor:
Proceedings of the ACM Ninth International Workshop on Data and Text Mining in Biomedical Informatics, DTMBIO 2015, Melbourne, Australia, October 23, 2015. ACM 2015, ISBN 978-1-4503-3787-8 [contents] - [e3]Tao Li, Lukasz A. Kurgan, Vasile Palade, Randy Goebel, Andreas Holzinger, Karin Verspoor, M. Arif Wani:
14th IEEE International Conference on Machine Learning and Applications, ICMLA 2015, Miami, FL, USA, December 9-11, 2015. IEEE 2015, ISBN 978-1-5090-0287-0 [contents] - 2014
- [j23]Donald C. Comeau, Riza Theresa Batista-Navarro, Hong-Jie Dai, Rezarta Islamaj Dogan, Antonio Jimeno-Yepes, Ritu Khare, Zhiyong Lu, Hernani Marques, Carolyn J. Mattingly, Mariana L. Neves, Yifan Peng, Rafal Rak, Fabio Rinaldi, Richard Tzong-Han Tsai, Karin Verspoor, Thomas C. Wiegers, Cathy H. Wu, W. John Wilbur:
BioC interoperability track overview. Database J. Biol. Databases Curation 2014 (2014) - [j22]Antonio Jimeno-Yepes, Karin Verspoor:
Literature mining of genetic variants for curation: quantifying the importance of supplementary material. Database J. Biol. Databases Curation 2014 (2014) - [j21]Christopher S. Funk, William A. Baumgartner Jr., Benjamin Garcia, Christophe Roeder, Michael Bada, K. Bretonnel Cohen, Lawrence E. Hunter, Karin Verspoor:
Large-scale biomedical concept recognition: an evaluation of current automatic annotators and their parameters. BMC Bioinform. 15: 59 (2014) - [j20]Daniel J. Park, Tu Nguyen-Dumont, Sori Kang, Karin Verspoor, Bernard J. Pope:
Annokey: an annotation tool based on key term search of the NCBI Entrez Gene database. Source Code Biol. Medicine 9: 15 (2014) - [c36]Tudor Groza, Karin Verspoor:
Automated Generation of Test Suites for Error Analysis of Concept Recognition Systems. ALTA 2014: 23-31 - [c35]Simon Kocbek, Karin Verspoor, Wray L. Buntine:
Exploring Temporal Patterns in Emergency Department Triage Notes with Topic Models. ALTA 2014: 113-117 - [c34]Miji Choi, Karin Verspoor, Justin Zobel:
Analysis of Coreference Relations in the Biomedical Literature. ALTA 2014: 134-138 - [c33]Dominique Estival, Steve Cassidy, Karin Verspoor, Andrew MacKinlay, Denis Burnham:
Integrating UIMA with Alveo, a human communication science virtual laboratory. OIAF4HLT@COLING 2014: 12-22 - [c32]Long Duong, Trevor Cohn, Karin Verspoor, Steven Bird, Paul Cook:
What Can We Get From 1000 Tokens? A Case Study of Multilingual POS Tagging For Resource-Poor Languages. EMNLP 2014: 886-897 - [c31]Bahadorreza Ofoghi, Guillermo López-Campos, Fernando José Martín-Sánchez, Karin Verspoor:
Mapping Biomedical Vocabularies: A Semi-Automated Term Matching Approach. ICIMTH 2014: 16-19 - [c30]Simone Romano, James Bailey, Xuan Vinh Nguyen, Karin Verspoor:
Standardized Mutual Information for Clustering Comparisons: One Step Further in Adjustment for Chance. ICML 2014: 1143-1151 - [c29]Denis Burnham, Dominique Estival, Steve Cassidy, P. Sefton, Karin Verspoor:
Two platforms for research in Human Communication Science: The AusTalk corpus and the Alveo Virtual Laboratory. O-COCOSDA 2014: 1-6 - [c28]Patrick Cheong-Iao Pang, Shanton Chang, Jon M. Pearce, Karin Verspoor:
Online Health Information seeking Behaviour: Understanding Different Search Approaches. PACIS 2014: 229 - [c27]Karin Verspoor:
Practice-based Evidence in Medicine: Where Information Retrieval Meets Data Mining. MedIR@SIGIR 2014: 4 - [c26]Patrick Cheong-Iao Pang, Karin Verspoor, Shanton Chang, Jon M. Pearce:
Designing for Health Exploratory Seeking Behaviour. MedIR@SIGIR 2014: 5-8 - [c25]Miji Choi, Karin Verspoor, Justin Zobel:
Evaluation of Coreference Resolution for Biomedical Text. MedIR@SIGIR 2014: 9-11 - [p1]Andreas Holzinger, Johannes Schantl, Miriam Schroettner, Christin Seifert, Karin Verspoor:
Biomedical Text Mining: State-of-the-Art, Open Problems and Future Challenges. Interactive Knowledge Discovery and Data Mining in Biomedical Informatics 2014: 271-300 - [i2]Antonio Jimeno-Yepes, Karin Verspoor:
Mutation extraction tools can be combined for robust recognition of genetic variants in the literature. F1000Research 3: 18 (2014) - 2013
- [j19]Donald C. Comeau, Rezarta Islamaj Dogan, Paolo Ciccarese, Kevin Bretonnel Cohen, Martin Krallinger, Florian Leitner, Zhiyong Lu, Yifan Peng, Fabio Rinaldi, Manabu Torii, Alfonso Valencia, Karin Verspoor, Thomas C. Wiegers, Cathy H. Wu, W. John Wilbur:
BioC: a minimalist approach to interoperability for biomedical text processing. Database J. Biol. Databases Curation 2013 (2013) - [j18]Karin Verspoor, Antonio Jimeno-Yepes, Lawrence Cavedon, Tara McIntosh, Asha Herten-Crabb, Zoë Thomas, John-Paul Plazzer:
Annotating the biomedical literature for the human variome. Database J. Biol. Databases Curation 2013 (2013) - [j17]Kevin M. Livingston, Michael Bada, Lawrence E. Hunter, Karin Verspoor:
Representing annotation compositionality and provenance for the Semantic Web. J. Biomed. Semant. 4: 38 (2013) - [j16]Artem Sokolov, Christopher S. Funk, Kiley Graim, Karin Verspoor, Asa Ben-Hur:
Combining heterogeneous data sources for accurate functional annotation of proteins. BMC Bioinform. 14(S-3): S10 (2013) - [j15]Thomas Lippincott, Laura Rimell, Karin Verspoor, Anna Korhonen:
Approaches to verb subcategorization for biomedicine. J. Biomed. Informatics 46(2): 212-227 (2013) - [j14]Laura Rimell, Thomas Lippincott, Karin Verspoor, Helen L. Johnson, Anna Korhonen:
Acquisition and evaluation of verb subcategorization resources for biomedicine. J. Biomed. Informatics 46(2): 228-237 (2013) - [c24]Tatyana Shmanina, Ingrid Zukerman, Antonio Jimeno-Yepes, Lawrence Cavedon, Karin Verspoor:
Impact of Corpus Diversity and Complexity on NER Performance. ALTA 2013: 91-95 - [c23]Karin Verspoor, Jeremy Nicholson:
e-Learning with Kaggle in Class: Adapting the ALTA Shared Task 2013 to a Class Project. ALTA 2013: 142-145 - [c22]Pawel Matykiewicz, Kevin Bretonnel Cohen, Katherine D. Holland, Tracy A. Glauser, Shannon M. Standridge, Karin M. Verspoor, John Pestian:
Earlier Identification of Epilepsy Surgery Candidates Using Natural Language Processing. BioNLP@ACL 2013: 1-9 - [c21]Andrew MacKinlay, David Martínez, Antonio Jimeno-Yepes, Haibin Liu, W. John Wilbur, Karin Verspoor:
Extracting Biomedical Events and Modifications Using Subgraph Matching with Noisy Training Data. BioNLP@ACL (Shared Task) 2013: 35-44 - [c20]Haibin Liu, Karin Verspoor, Donald C. Comeau, Andrew MacKinlay, W. John Wilbur:
Generalizing an Approximate Subgraph Matching-based System to Extract Events in Molecular Biology and Cancer Genetics. BioNLP@ACL (Shared Task) 2013: 76-85 - [c19]Karin Verspoor, Andrew MacKinlay, Judith D. Cohn, Michael E. Wall:
Detection of Protein Catalytic Sites in the Biomedical Literature. Pacific Symposium on Biocomputing 2013: 433-444 - [e2]Sarvnaz Karimi, Karin Verspoor:
Proceedings of the Australasian Language Technology Association Workshop, ALTA 2013, Brisbane, Australia, December 4-6, 2013. ACL 2013 [contents] - 2012
- [j13]Haibin Liu, Tom Christiansen, William A. Baumgartner Jr., Karin Verspoor:
BioLemmatizer: a lemmatization tool for morphological processing of biomedical text. J. Biomed. Semant. 3: 3 (2012) - [j12]K. E. Ravikumar, Haibin Liu, Judith D. Cohn, Michael E. Wall, Karin Verspoor:
Literature mining of protein-residue associations with graph rules learned through distant supervision. J. Biomed. Semant. 3(S-3): S2 (2012) - [j11]Michael Bada, Miriam Eckert, Donald Evans, Kristin Garcia, Krista Shipley, Dmitry Sitnikov, William A. Baumgartner Jr., K. Bretonnel Cohen, Karin Verspoor, Judith A. Blake, Lawrence E. Hunter:
Concept annotation in the CRAFT corpus. BMC Bioinform. 13: 161 (2012) - [j10]Karin Verspoor, Kevin Bretonnel Cohen, Arrick Lanfranchi, Colin Warner, Helen L. Johnson, Christophe Roeder, Jinho D. Choi, Christopher S. Funk, Yuriy Malenkiy, Miriam Eckert, Nianwen Xue, William A. Baumgartner Jr., Michael Bada, Martha Palmer, Lawrence E. Hunter:
A corpus of full-text journal articles is a robust evaluation tool for revealing differences in performance of biomedical natural language processing tools. BMC Bioinform. 13: 207 (2012) - [c18]Haibin Liu, Vlado Keselj, Christian Blouin, Karin Verspoor:
Subgraph Matching-Based Literature Mining for Biomedical Relations and Events. AAAI Fall Symposium: Information Retrieval and Knowledge Discovery in Biomedical Text 2012 - [c17]Karin Verspoor, Kevin M. Livingston:
Towards Adaptation of Linguistic Annotations to Scholarly Annotation Formalisms on the Semantic Web. LAW@ACL 2012: 75-84 - [c16]Andrew D. MacKinlay, Karin M. Verspoor:
Extracting structured information from free-text medication prescriptions using dependencies. DTMBIO@CIKM 2012: 35-40 - [c15]David Martínez, Andrew MacKinlay, Diego Mollá Aliod, Lawrence Cavedon, Karin Verspoor:
Simple Similarity-based Question Answering Strategies for Biomedical Text. CLEF (Online Working Notes/Labs/Workshop) 2012 - 2011
- [j9]Yoshinobu Kano, Jari Björne, Filip Ginter, Tapio Salakoski, Ekaterina Buyko, Udo Hahn, K. Bretonnel Cohen, Karin Verspoor, Christophe Roeder, Lawrence E. Hunter, Halil Kilicoglu, Sabine Bergler, Sofie Van Landeghem, Thomas Van Parys, Yves Van de Peer, Makoto Miwa, Sophia Ananiadou, Mariana L. Neves, Alberto D. Pascual-Montano, Arzucan Özgür, Dragomir R. Radev, Sebastian Riedel, Rune Sætre, Hong-Woo Chun, Jin-Dong Kim, Sampo Pyysalo, Tomoko Ohta, Jun'ichi Tsujii:
U-Compare bio-event meta-service: compatible BioNLP event extraction services. BMC Bioinform. 12: 481 (2011) - [j8]Zhiyong Lu, Hung-Yu Kao, Chih-Hsuan Wei, Minlie Huang, Jingchen Liu, Cheng-Ju Kuo, Chun-Nan Hsu, Richard Tzong-Han Tsai, Hong-Jie Dai, Naoaki Okazaki, Han-Cheol Cho, Martin Gerner, Illés Solt, Shashank Agarwal, Feifan Liu, Dina Vishnyakova, Patrick Ruch, Martin Romacker, Fabio Rinaldi, Sanmitra Bhattacharya, Padmini Srinivasan, Hongfang Liu, Manabu Torii, Sérgio Matos, David Campos, Karin Verspoor, Kevin M. Livingston, W. John Wilbur:
The gene normalization task in BioCreative III. BMC Bioinform. 12(S-8): S2 (2011) - [j7]K. Bretonnel Cohen, Karin Verspoor, Helen L. Johnson, Christophe Roeder, Philip V. Ogren, William A. Baumgartner Jr., Elizabeth K. White, Hannah J. Tipney, Lawrence Hunter:
High-Precision Biological Event Extraction: Effects of System and of Data. Comput. Intell. 27(4): 681-701 (2011) - [c14]K. Bretonnel Cohen, Tom Christiansen, William A. Baumgartner Jr., Karin Verspoor, Lawrence Hunter:
Fast and simple semantic class assignment for biomedical text. BioNLP@ACL 2011: 38-45 - [c13]Haibin Liu, Ravikumar Komandur Elayavilli, Karin Verspoor:
From Graphs to Events: A Subgraph Matching Approach for Information Extraction from Biomedical Text. BioNLP@ACL (Shared Task) 2011: 164-172 - [c12]K. E. Ravikumar, Haibin Liu, Judith D. Cohn, Michael E. Wall, Karin Verspoor:
Pattern Learning through Distant Supervision for Extraction of Protein-Residue Associations in the Biomedical Literature. ICMLA (2) 2011: 59-65 - 2010
- [j6]Christophe Roeder, Clément Jonquet, Nigam H. Shah, William A. Baumgartner Jr., Karin Verspoor, Lawrence Hunter:
A UIMA wrapper for the NCBO annotator. Bioinform. 26(14): 1800-1801 (2010) - [j5]K. Bretonnel Cohen, Helen L. Johnson, Karin Verspoor, Christophe Roeder, Lawrence Hunter:
The structural and content aspects of abstracts versus bodies of full text journal articles are different. BMC Bioinform. 11: 492 (2010) - [j4]Karin Verspoor, Christophe Roeder, Helen L. Johnson, K. Bretonnel Cohen, William A. Baumgartner Jr., Lawrence Hunter:
Exploring Species-Based Strategies for Gene Normalization. IEEE ACM Trans. Comput. Biol. Bioinform. 7(3): 462-471 (2010) - [c11]Carsten Görg, Hannah J. Tipney, Karin Verspoor, William A. Baumgartner Jr., K. Bretonnel Cohen, John T. Stasko, Lawrence Hunter:
Visualization and Language Processing for Supporting Analysis across the Biomedical Literature. KES (4) 2010: 420-429 - [c10]K. Bretonnel Cohen, Christophe Roeder, William A. Baumgartner Jr., Lawrence Hunter, Karin Verspoor:
Test Suite Design for Biomedical Ontology Concept Recognition Systems. LREC 2010 - [c9]Kevin M. Livingston, Helen L. Johnson, Karin Verspoor, Lawrence Hunter:
Leveraging Gene Ontology Annotations to Improve a Memory-Based Language Understanding System. ICSC 2010: 40-45
2000 – 2009
- 2009
- [j3]Karin Verspoor, Daniel Dvorkin, K. Bretonnel Cohen, Lawrence Hunter:
Ontology quality assurance through analysis of term transformations. Bioinform. 25(12) (2009) - [j2]Karin Verspoor, K. Bretonnel Cohen, Lawrence Hunter:
The textual characteristics of traditional and Open Access scientific journals are similar. BMC Bioinform. 10 (2009) - [c8]K. Bretonnel Cohen, Karin Verspoor, Helen L. Johnson, Christophe Roeder, Philip V. Ogren, William A. Baumgartner Jr., Elizabeth K. White, Lawrence Hunter:
High-precision biological event extraction with a concept recognizer. BioNLP@HLT-NAACL (Shared Task) 2009: 50-58 - 2008
- [c7]Shou-De Lin, Karin Verspoor:
A Semantics-Enhanced Language Model for Unsupervised Word Sense Disambiguation. CICLing 2008: 287-298 - [c6]Cliff A. Joslyn, Patrick R. Paulson, Karin Verspoor:
Exploiting Term Relations for Semantic Hierarchy Construction. ICSC 2008: 42-49 - [i1]Alaa Abi-Haidar, Jasleen Kaur, Ana Gabriela Maguitman, Predrag Radivojac, Andreas Rechtsteiner, Karin Verspoor, Zhiping Wang, Luis M. Rocha:
Uncovering protein interaction in abstracts and text using a novel linear model and word proximity networks. CoRR abs/0812.1029 (2008) - 2007
- [c5]Cliff A. Joslyn, Karin Verspoor, Damian Gessler:
Knowledge Integration in OpenWorlds: Utilizing the Mathematics of Hierarchical Structure. ICSC 2007: 105-112 - 2006
- [c4]Ana Gabriela Maguitman, Andreas Rechtsteiner, Karin Verspoor, Charlie E. M. Strauss, Luis M. Rocha:
Large-Scale Testing of Bibliome Informatics Using Pfam Protein Families. Pacific Symposium on Biocomputing 2006: 76-87 - [e1]Karin Verspoor, Kevin Bretonnel Cohen, Ben Goertzel, Inderjeet Mani:
Proceedings of the Workshop on Linking Natural Language and Biology, BioNLP@NAACL-HLT 2006, New York, NY, USA, June 8, 2006. Association for Computational Linguistics 2006 [contents] - 2005
- [j1]Karin Verspoor, Judith D. Cohn, Cliff A. Joslyn, Susan M. Mniszewski, Andreas Rechtsteiner, Luis M. Rocha, Tiago Simas:
Protein annotation as term categorization in the gene ontology using word proximity networks. BMC Bioinform. 6(S-1) (2005)
1990 – 1999
- 1998
- [c3]Stephen Wan, Cornelia Verspoor:
Automatic English-Chinese Name Transliteration for Development of Multilingual Resources. COLING-ACL 1998: 1352-1356 - [c2]Robert Dale, Stephen J. Green, Maria Milosavljevic, Cécile Paris, Cornelia Verspoor, Sandra Williams:
Dynamic Document Delivery: Generating Natural Language Texts on Demand. DEXA Workshop 1998: 131-136 - [c1]Cornelia Maria Verspoor:
Predictivity vs. Stipulativity in the Lexicon. PACLIC 1998: 152-162
Coauthor Index
[i34] [c129] [i31] [j76] [c126] [c119] [i28] [i27] [j68] [c118] [c117] [c114] [c113] [c111] [c110] [c108] [c107] [c106] [c105] [i22] [i21] [i19] [i18] [j63] [c100] [c99] [c97] [c96] [c95] [c94] [c91] [i16] [c90] [c89] [c88] [c87] [c86] [c85] [c84] [c83] [i15] [i14] [c82] [i10] [j48] [c72] [c67] [c59] [c44] [c42]
Lawrence Hunter
aka: Lawrence E. Hunter
aka: Lawrence E. Hunter
Antonio Jimeno-Yepes
aka: Antonio José Jimeno-Yepes
aka: Antonio José Jimeno-Yepes
Hung-Thinh Truong
aka: Thinh Hung Truong
aka: Thinh Hung Truong
manage site settings
To protect your privacy, all features that rely on external API calls from your browser are turned off by default. You need to opt-in for them to become active. All settings here will be stored as cookies with your web browser. For more information see our F.A.Q.
Unpaywalled article links
Add open access links from 
to the list of external document links (if available).
Privacy notice: By enabling the option above, your browser will contact the API of unpaywall.org to load hyperlinks to open access articles. Although we do not have any reason to believe that your call will be tracked, we do not have any control over how the remote server uses your data. So please proceed with care and consider checking the Unpaywall privacy policy.
Archived links via Wayback Machine
For web page which are no longer available, try to retrieve content from the 
of the Internet Archive (if available).
Privacy notice: By enabling the option above, your browser will contact the API of archive.org to check for archived content of web pages that are no longer available. Although we do not have any reason to believe that your call will be tracked, we do not have any control over how the remote server uses your data. So please proceed with care and consider checking the Internet Archive privacy policy.
Reference lists
Add a list of references from 
, 
, and 
to record detail pages.
load references from crossref.org and opencitations.net
Privacy notice: By enabling the option above, your browser will contact the APIs of crossref.org, opencitations.net, and semanticscholar.org to load article reference information. Although we do not have any reason to believe that your call will be tracked, we do not have any control over how the remote server uses your data. So please proceed with care and consider checking the Crossref privacy policy and the OpenCitations privacy policy, as well as the AI2 Privacy Policy covering Semantic Scholar.
Citation data
Add a list of citing articles from and to record detail pages.
load citations from opencitations.net
Privacy notice: By enabling the option above, your browser will contact the API of opencitations.net and semanticscholar.org to load citation information. Although we do not have any reason to believe that your call will be tracked, we do not have any control over how the remote server uses your data. So please proceed with care and consider checking the OpenCitations privacy policy as well as the AI2 Privacy Policy covering Semantic Scholar.
OpenAlex data
Load additional information about publications from 
.
Privacy notice: By enabling the option above, your browser will contact the API of openalex.org to load additional information. Although we do not have any reason to believe that your call will be tracked, we do not have any control over how the remote server uses your data. So please proceed with care and consider checking the information given by OpenAlex.
last updated on 2026-10-10 21:50 CEST by the dblp team
all metadata released as open data under CC0 1.0 license
see also: Terms of Use | Privacy Policy | Imprint
dblp was originally created in 1993 at:
since 2018, dblp has been operated, funded, and maintained by:
Schloss Dagstuhl - Leibniz Center for Informatics is a member of the Leibniz Association and is funded by the federal government of Germany and the states of Germany, especially Saarland and Rhineland‑Palatinate.
