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2012
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SR4GN: a species recognition software tool for gene normalization, Wei et al.,
PLoS One, 2012
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An improved corpus of disease mentions in PubMed citations, Dogan and Lu,
BioNLP, 2012
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Systematic Identification of Pharmacogenomics Information from Clinical Trials, Li and Lu,
JBI, 2012
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System Description for the BioCreative 2012 Triage Task, Kim et al.,
BioCreative 2012 Workshop
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Overview of BioCreative Curation Workshop Track II: Curation Workflows, Lu and Hirschman,
BioCreative 2012 Workshop
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PubTator: A PubMed-like interactive curation system for document triage and literature
curation, Wei et al.,
BioCreative 2012 Workshop
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Automatic Identification and Normalization of Dosage Forms in Drug Monographs, Li and Lu,
BMC Med Inform Decis Mak, 2012
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Database resources of the National Center for Biotechnology Information, Sayers et al.,
Nucleic Acids Research, 2012
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Linking multiple disease-related resources through UMLS, Neveol et al.,
ACM IHI 2012.
2011
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Extraction of data deposition statements from the literature: a method for automatically tracking research results, Neveol et al.,
Bioinformatics, 2011
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Recommending MeSH terms for annotating biomedical articles, Huang et al.,
JAMIA, 2011
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Automatic extraction of data deposition statements: where do the research results go?, Neveol et al.,
BioNLP, 2011
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A context-blocks model for identifying clinical relationships in patient records, Dogan et al.,
BMC Bioinformatics, 2011
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The Gene Normalization Task in BioCreative III, Lu et al.,
BMC Bioinformatics, 2011
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The Protein-Protein Interaction tasks of BioCreative III: classification/ranking of articles and linking bio-ontology concepts to full text., Karllinger et al.,
BMC Bioinformatics, 2011
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BioCreative III Interactive Task: an Overview, Arighi et al.,
BMC Bioinformatics, 2011
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Overview of the BioCreative III Workshop, Arighi et al.,
BMC Bioinformatics, 2011
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Review
PubMed and beyond: a survey of web tools for searching biomedical literature,
Database, 2011
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Database resources of the National Center for Biotechnology Information, Sayers et al.,
Nucleic Acids Research, 2011
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Semi-automatic semantic annotation of PubMed Queries: a study on quality, efficiency, satisfaction, Neveol et al.,
J Biomed Inform 2011.
2010
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Click-words: Learning to predict document keywords from a user perspective, Dogan & Lu,
Bioinformatics 2010.
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Overview of BioCreative III Gene Normalization, Lu & Wilbur,
BioCreative III, 2010.
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Identifying protein-protein interactions in biomedical articles, Dogan et al.,
BioCreative III, 2010.
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Automatically integration of drug indictions from multiple ehealth records, Neveol & Lu,
IHI 2010.
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A novel textual representation scheme for identifying clinical relationships in patients records, Dogan et al.,
ICMLA 2010.
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Author keywords in biomedical journal articles, Neveol et al.,
AMIA 2010.
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Learning to annotate scientific publications, Huang & Lu,
Coling 2010.
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Extracting Rx Information from Clinical Narrative, Mork et al.,
JAMIA, 2010
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Database resources of the National Center for Biotechnology Information, Sayers et al.,
Nucleic Acids Research, 2010
2009
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Understanding PubMed user search behavior through log analysis, Dogan et al.,
Database, 2009.
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Identifying related journals through log analysis, Lu et al.,
Bioinformatics, 2009.
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Finding query suggestions for PubMed, Lu et al.,
AMIA, 2009.
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Towards Automatic Generation of Gene Summary, Jin et al.,
BioNLP 2009.
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Exploring two biomedical text genres for disease recognition, Neveol et al.,
BioNLP 2009.
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Summarizing Documents by Measuring the Importance of a Subset of Vertices within a Graph, Chen et al.
WI-IAT, 2009.
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Evaluation of Query Expansion Using MeSH in PubMed, Lu et al.,
Information Retrievel, 2009.
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Evaluating Relevance Ranking Strategies for MEDLINE Retrieval, Lu et al.,
JAMIA, 2009.
2008
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Improving accuracy for identifying related PubMed queries by an integrated approach, Lu & Wilbur,
J Biomed Inform, 2008.
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Overview of BioCreative II Gene Normalization, Morgan et al.,
Genome Biology, 2008
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Concept recognition for extracting protein interaction relations from biomedical text, Baumgartner et al.,
Genome Biology, 2008.
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Semantic Role Labeling for Protein Transport Predicates, Bethard et al.,
BMC Bioinformatics, 2008.
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OpenDMAP: An open-source ontology-driven concept analysis engine, with applications to capturing knowledge regarding protein transport, protein interaction, and cell-specific gene expression, Hunter et al.,
BMC Bioinformatics, 2008.
2007
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An integrated approach to concept recognition in biomedical text, Baumgartner et al.,
BioCreative II, 2007.
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GeneRIF Quality Assurance as Summary Revision, Lu et al.,
PSB 2007.
2006
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Concept Recognition, Information Retrieval, and Machine Learning in Genomics Question-Answering, Caporaso et al.,
TREC Genomics, 2006.
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Improving Biomedical Corpus Annotation Guidelines, Lu et al.,
ISMB BioLink SIG, 2006.
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Finding GeneRIFs via Gene Ontology Terms, Lu et al.,
PSB, 2006.
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Evaluation of Lexical Methods for Detecting Relationships Between Concepts From Multiple Ontologies, Johnson et al.,
PSB, 2006.
2005
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GO Molecular Function Terms are Predictive of Subcellular Localization, Lu and Hunter,
PSB, 2005.
2004
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Proteome Analyst: custom predictions with explanations in a web-based tool for high-throughput proteome annotations, Szafron et al.,
Nucleic Acids Research 2004.
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Predicting subcellular localization of proteins using machine-learned classifiers, Lu et al.,
Bioinformatics. 2004.
2003
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Proteome Analyst: Transparent High-throughput Protein Annotation: Function, Localization and Custom Predictors, Szafron et al.,
ICML Workshop on Machine Learning in Bioinformatics, 2003.
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Automatic Extraction of Clusters from Hierarchical Clustering Representations, Sander et al.,
PAKDD, 2003.