W. John Wilbur
According to our database1,
W. John Wilbur
authored at least 151 papers
between 1984 and 2024.
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Bibliography
2024
AgentMD: Empowering Language Agents for Risk Prediction with Large-Scale Clinical Tool Learning.
CoRR, 2024
2023
MedCPT: Contrastive Pre-trained Transformers with large-scale PubMed search logs for zero-shot biomedical information retrieval.
Bioinform., October, 2023
Comprehensively identifying Long Covid articles with human-in-the-loop machine learning.
Patterns, January, 2023
BioCPT: Contrastive Pre-trained Transformers with Large-scale PubMed Search Logs for Zero-shot Biomedical Information Retrieval.
CoRR, 2023
2022
J. Biomed. Informatics, 2022
Comprehensive identification of Long Covid articles with human-in-the-loop machine learning.
CoRR, 2022
2021
Measuring the relative importance of full text sections for information retrieval from scientific literature.
Proceedings of the 20th Workshop on Biomedical Language Processing, 2021
Proceedings of the AMIA 2021, American Medical Informatics Association Annual Symposium, San Diego, CA, USA, October 30, 2021, 2021
2020
Deep learning with sentence embeddings pre-trained on biomedical corpora improves the performance of finding similar sentences in electronic medical records.
BMC Medical Informatics Decis. Mak., April, 2020
J. Am. Medical Informatics Assoc., 2020
Navigating the landscape of COVID-19 research through literature analysis: A bird's eye view.
CoRR, 2020
2019
Nucleic Acids Res., 2019
PDC - a probabilistic distributional clustering algorithm: a case study on suicide articles in PubMed.
CoRR, 2019
PubMed Text Similarity Model and its application to curation efforts in the Conserved Domain Database.
Database J. Biol. Databases Curation, 2019
Proceedings of the 10th ACM International Conference on Bioinformatics, 2019
2018
BMC Bioinform., 2018
Database J. Biol. Databases Curation, 2018
Proceedings of the BioNLP 2018 workshop, Melbourne, Australia, July 19, 2018, 2018
Proceedings of the BioNLP 2018 workshop, Melbourne, Australia, July 19, 2018, 2018
Proceedings of the 2018 ACM International Conference on Bioinformatics, 2018
2017
Bridging the gap: Incorporating a semantic similarity measure for effectively mapping PubMed queries to documents.
J. Biomed. Informatics, 2017
The BioC-BioGRID corpus: full text articles annotated for curation of protein-protein and genetic interactions.
Database J. Biol. Databases Curation, 2017
2016
CoRR, 2016
<i>Meshable</i>: searching PubMed abstracts by utilizing MeSH and MeSH-derived topical terms.
Bioinform., 2016
Database J. Biol. Databases Curation, 2016
BioCreative V BioC track overview: collaborative biocurator assistant task for BioGRID.
Database J. Biol. Databases Curation, 2016
Proceedings of the Joint International Conference on Biological Ontology and BioCreative, 2016
Proceedings of the 15th Workshop on Biomedical Natural Language Processing, 2016
2015
BMC Bioinform., December, 2015
Extracting drug-drug interactions from literature using a rich feature-based linear kernel approach.
J. Biomed. Informatics, 2015
BMC Bioinform., 2015
Proceedings of the 2015 Conference on Empirical Methods in Natural Language Processing, 2015
2014
Database J. Biol. Databases Curation, 2014
Assisting manual literature curation for protein-protein interactions using BioQRator.
Database J. Biol. Databases Curation, 2014
Finding abbreviations in biomedical literature: three BioC-compatible modules and four BioC-formatted corpora.
Database J. Biol. Databases Curation, 2014
Natural language processing pipelines to annotate BioC collections with an application to the NCBI disease corpus.
Database J. Biol. Databases Curation, 2014
Proceedings of the AMIA 2014, 2014
2013
Database J. Biol. Databases Curation, 2013
An overview of the BioCreative 2012 Workshop Track III: interactive text mining task.
Database J. Biol. Databases Curation, 2013
Proceedings of the BioNLP Shared Task 2013 Workshop, Sofia, 2013
Extracting Biomedical Events and Modifications Using Subgraph Matching with Noisy Training Data.
Proceedings of the BioNLP Shared Task 2013 Workshop, Sofia, 2013
Generalizing an Approximate Subgraph Matching-based System to Extract Events in Molecular Biology and Cancer Genetics.
Proceedings of the BioNLP Shared Task 2013 Workshop, Sofia, 2013
Proceedings of the AMIA 2013, 2013
2012
Nucleic Acids Res., 2012
J. Biomed. Informatics, 2012
J. Biomed. Semant., 2012
PIE <i>the search</i>: searching PubMed literature for protein interaction information.
Bioinform., 2012
Improving links between literature and biological data with text mining: a case study with GEO, PDB and MEDLINE.
Database J. Biol. Databases Curation, 2012
Prioritizing PubMed articles for the Comparative Toxicogenomic Database utilizing semantic information.
Database J. Biol. Databases Curation, 2012
Classifying Gene Sentences in Biomedical Literature by Combining High-Precision Gene Identifiers.
Proceedings of the 2012 Workshop on Biomedical Natural Language Processing, 2012
Proceedings of the Information Retrieval and Knowledge Discovery in Biomedical Text, 2012
Proceedings of the Information Retrieval and Knowledge Discovery in Biomedical Text, 2012
2011
Nucleic Acids Res., 2011
Machine learning with naturally labeled data for identifying abbreviation definitions.
BMC Bioinform., 2011
Improving a gold standard: treating human relevance judgments of MEDLINE document pairs.
BMC Bioinform., 2011
The Protein-Protein Interaction tasks of BioCreative III: classification/ranking of articles and linking bio-ontology concepts to full text.
BMC Bioinform., 2011
BMC Bioinform., 2011
Extraction of data deposition statements from the literature: a method for automatically tracking research results.
Bioinform., 2011
Proceedings of the 10th International Conference on Machine Learning and Applications and Workshops, 2011
Proceedings of the 10th International Conference on Machine Learning and Applications and Workshops, 2011
Proceedings of the 2011 Workshop on Biomedical Natural Language Processing, 2011
Automatic extraction of data deposition statements: where do the research results go?
Proceedings of the 2011 Workshop on Biomedical Natural Language Processing, 2011
2010
Nucleic Acids Res., 2010
Proceedings of the Ninth International Conference on Machine Learning and Applications, 2010
2009
J. Biomed. Informatics, 2009
J. Biomed. Informatics, 2009
J. Assoc. Inf. Sci. Technol., 2009
J. Am. Medical Informatics Assoc., 2009
Inf. Retr., 2009
Inf. Retr., 2009
Proceedings of the 2009 Joint International Conference on Digital Libraries, 2009
Proceedings of the BioNLP Workshop, BioNLP@HLT-NAACL 2009, 2009
2008
Research Paper: Optimal Training Sets for Bayesian Prediction of MeSH<sup>®</sup> Assignment.
J. Am. Medical Informatics Assoc., 2008
Inf. Process. Manag., 2008
BMC Bioinform., 2008
Multi-dimensional classification of biomedical text: Toward automated, practical provision of high-utility text to diverse users.
Bioinform., 2008
Proceedings of the AMIA 2008, 2008
2007
Using MEDLINE as a knowledge source for disambiguating abbreviations and acronyms in full-text biomedical journal articles.
J. Biomed. Informatics, 2007
Syntactic sentence compression in the biomedical domain: facilitating access to related articles.
Inf. Retr., 2007
BMC Bioinform., 2007
Features generated for computational splice-site prediction correspond to functional elements.
BMC Bioinform., 2007
Proceedings of The Sixteenth Text REtrieval Conference, 2007
Characterizing RNA Secondary-Structure Features and Their Effects on Splice-Site Prediction.
Proceedings of the Workshops Proceedings of the 7th IEEE International Conference on Data Mining (ICDM 2007), 2007
Proceedings of the Biological, translational, and clinical language processing, 2007
2006
A large scale, corpus-based approach for automatically disambiguating biomedical abbreviations.
ACM Trans. Inf. Syst., 2006
New directions in biomedical text annotation: definitions, guidelines and corpus construction.
BMC Bioinform., 2006
Finding Relevant Passages in Scientific Articles: Fusion of Automatic Approaches vs. an Interactive Team Effort.
Proceedings of the Fifteenth Text REtrieval Conference, 2006
A Feature Generation Algorithm for Sequences with Application to Splice-Site Prediction.
Proceedings of the Knowledge Discovery in Databases: PKDD 2006, 2006
Proceedings of the Workshop on Linking Natural Language and Biology, 2006
Proceedings of the AMIA 2006, 2006
2005
BMC Bioinform., 2005
Fusion of Knowledge-Intensive and Statistical Approaches for Retrieving and Annotating Textual Genomics Documents.
Proceedings of the Fourteenth Text REtrieval Conference, 2005
Proceedings of the ACL-ISMB Workshop on Linking Biological Literature, 2005
Proceedings of the AMIA 2005, 2005
2004
GeneWays: a system for extracting, analyzing, visualizing, and integrating molecular pathway data.
J. Biomed. Informatics, 2004
J. Bioinform. Comput. Biol., 2004
J. Assoc. Inf. Sci. Technol., 2004
Comput. Biol. Chem., 2004
Knowledge-Intensive and Statistical Approaches to the Retrieval and Annotation of Genomics MEDLINE Citations.
Proceedings of the Thirteenth Text REtrieval Conference, 2004
Using MEDLINE as a Knowledge Source for Disambiguating Abbreviations in Full-Text Biomedical Journal Articles.
Proceedings of the 17th IEEE Symposium on Computer-Based Medical Systems (CBMS 2004), 2004
2003
2002
J. Biomed. Informatics, 2002
Proceedings of the 7th Pacific Symposium on Biocomputing, 2002
Proceedings of the AMIA 2002, 2002
Proceedings of the AMIA 2002, 2002
Proceedings of the ACL 2002 Workshop on Natural Language Processing in the Biomedical Domain, 2002
2001
J. Inf. Sci., 2001
J. Assoc. Inf. Sci. Technol., 2001
Proceedings of the AMIA 2001, 2001
2000
J. Am. Medical Informatics Assoc., 2000
Comput. Chem., 2000
Genes, Themes, and Microarrays: Using Information Retrieval for Large-Scale Gene Analysis.
Proceedings of the Eighth International Conference on Intelligent Systems for Molecular Biology, 2000
Proceedings of the AMIA 2000, 2000
Proceedings of IEEE Advances in Digital Libraries 2000 (ADL 2000), 2000
1999
Proceedings of the AMIA 1999, 1999
1998
A Comparison of Group and Individual Performance Among Subject Experts and Untrained Workers at the Document Retrieval Task.
J. Am. Soc. Inf. Sci., 1998
1996
J. Am. Soc. Inf. Sci., 1996
Inf. Process. Manag., 1996
An analysis of statistical term strength and its use in the indexing and retrieval of molecular biology texts.
Comput. Biol. Medicine, 1996
1994
J. Inf. Sci., 1994
Inf. Process. Manag., 1994
1993
1992
J. Am. Soc. Inf. Sci., 1992
1984
Nucleic Acids Res., 1984