While data about chemicals is increasingly being housed in structured databases, the rich information about the effects of chemicals on biological systems largely remains in the unstructured text of the biomedical and biochemical literature. The EPA’s Center for Computational Toxicology has developed the PubMed Abstract Sifter, a publicly available literature mining tool that facilitates the task of searching the millions of publication records, triaging the results, and extracting relevant information from them. The tool uses NCBI APIs to query and retrieve from PubMed. Clowder based APIs are used to facilitate the extraction of substance MeSH terms from the returned corpus of articles, and finally EPA’s API calls can take a list of chemicals and search for them on the DSSTox database and return data on properties, structure, and <i>in vitro</i> testing. The toxicity literature for the resulting set of chemicals can be retrieved and chemicals ranked on the results. The Abstract Sifter and the EPA’s Chemicals Dashboard are available at comptox.epa.gov/dashboard.

PubMed abstract sifter: an API-driven literature mining tool for biomedical and biochemical research

Fall 2022 abstracts, posters, and presentations will launch in mid-September.

ACS Fall 2022

The official archive and repository for all ACS Meetings & Expositions abstracts and select posters or presentations.