Watford_Novel_application__NPMI_Biomedlit_genesets_usecase_breast_cancer

We present a novel use of normalized pointwise mutual information (NPMI) to mine biomedical literature for gene associations with biological concepts as represented by Medical Subject Headings (MeSH terms) in PubMed.

This dataset is associated with the following publication: Watford, S., R. Grashow, V. De La Rosa, R. Rudel, K. Paul-Friedman, and M. Martin. Novel application of normalized pointwise mutual information (NPMI) to mine biomedical literature for gene sets associated with disease: Use case in breast carcinogenesis. Computational Toxicology. Elsevier B.V., Amsterdam, NETHERLANDS, 7: 46-57, (2018).

Data and Resources

Field Value
accessLevel public
bureauCode {020:00}
catalog_conformsTo https://project-open-data.cio.gov/v1.1/schema
identifier https://doi.org/10.23719/1502465
license https://pasteur.epa.gov/license/sciencehub-license.html
modified 2018-10-15
programCode {020:095}
publisher U.S. EPA Office of Research and Development (ORD)
publisher_hierarchy U.S. Government > U.S. Environmental Protection Agency > U.S. EPA Office of Research and Development (ORD)
references {https://doi.org/10.1016/j.comtox.2018.06.003}
resource-type Dataset
source_datajson_identifier true
source_hash d12e68b7728ed5b9bbc8d005518da13e1eb10a6f
source_schema_version 1.1
Groups
  • AmeriGEOSS
  • National Provider
  • North America
Tags
  • AmeriGEO
  • AmeriGEOSS
  • CKAN
  • GEO
  • GEOSS
  • National
  • North America
  • United States
  • actor
  • biomedical-literature
  • breast-carcinogenesis
  • chemical-exposures
  • data-integration
  • genes
  • literature-mining
isopen False
license_id other-license-specified
license_title other-license-specified
maintainer Richard Judson
maintainer_email judson.richard@epa.gov
metadata_created 2025-09-24T05:12:57.406034
metadata_modified 2025-09-24T05:12:57.406045
notes We present a novel use of normalized pointwise mutual information (NPMI) to mine biomedical literature for gene associations with biological concepts as represented by Medical Subject Headings (MeSH terms) in PubMed. This dataset is associated with the following publication: Watford, S., R. Grashow, V. De La Rosa, R. Rudel, K. Paul-Friedman, and M. Martin. Novel application of normalized pointwise mutual information (NPMI) to mine biomedical literature for gene sets associated with disease: Use case in breast carcinogenesis. Computational Toxicology. Elsevier B.V., Amsterdam, NETHERLANDS, 7: 46-57, (2018).
num_resources 3
num_tags 15
title Watford_Novel_application__NPMI_Biomedlit_genesets_usecase_breast_cancer