• Publications
  • Influence
A gene expression database for the molecular pharmacology of cancer
We used cDNA microarrays to assess gene expression profiles in 60 human cancer cell lines used in a drug discovery screen by the National Cancer Institute. Using these data, we linked bioinformaticsExpand
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Overview of BioCreative II gene mention recognition
Nineteen teams presented results for the Gene Mention Task at the BioCreative II Workshop. In this task participants designed systems to identify substrings in sentences corresponding to gene nameExpand
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GENETAG: a tagged corpus for gene/protein named entity recognition
TLDR
We describe the construction and annotation of GENETAG, a corpus of 20K MEDLINE® sentences for gene/protein name NER. Expand
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EDGAR: extraction of drugs, genes and relations from the biomedical literature.
TLDR
We report a system, EDGAR (Extraction of Drugs, Genes and Relations) that extracts information about drugs and genes relevant to cancer from the biomedical literature. Expand
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Tagging gene and protein names in biomedical text
TLDR
We propose to approach the detection of gene and protein names in scientific abstracts as part-of-speech tagging, the most basic form of linguistic corpus annotation. Expand
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UvA-DARE ( Digital Academic Repository ) Overview of BioCreative II gene mention recognition
Nineteen teams presented results for the Gene Mention Task at the BioCreative II Workshop. In this task participants designed systems to identify substrings in sentences corresponding to gene nameExpand
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MedMiner: an Internet text-mining tool for biomedical information, with application to gene expression profiling.
TLDR
We present an Internet-based hypertext program, MedMiner, which filters and organizes large amounts of textual and structured information returned from public search engines like GeneCards and PubMed. Expand
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Tagging gene and protein names in full text articles
  • L. Tanabe, W. Wilbur
  • Computer Science
  • ACL Workshop on Natural Language Processing in…
  • 11 July 2002
TLDR
We apply a gene and protein name tagger trained on Medline abstracts (ABGene) to a randomly selected set of full text journal articles in the biomedical domain. Expand
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Evaluation of text-mining systems for biology: overview of the Second BioCreative community challenge
Background:Genome sciences have experienced an increasing demand for efficient text-processing tools that can extract biologically relevant information from the growing amount of publishedExpand
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Fusion of Knowledge-Intensive and Statistical Approaches for Retrieving and Annotating Textual Genomics Documents
TLDR
This paper represents a continuation of research into the retrieval and annotation of textual genomics documents (both MEDLINE ® citations and full text articles) for the purpose of satisfying biologists’ real information needs. Expand
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