Abstract Sifter version 8: Focus on the chemical literature.

Authors

Nancy C Baker, Thomas B Knudsen, Antony J Williams

Published in

F1000Research. Volume 14. Epub Jun 06, 2026.

Abstract

Effective research depends on building on the knowledge found in the scientific literature. Designed to streamline literature tasks, the EPA's Abstract Sifter literature tool, now at version 8, has been continually extended and enhanced since its introduction in 2017[1]. Early enhancements to the tool have primarily focused on core tasks common to all researchers. For example, citation retrieval from PubMed has been made faster and the returned citation threshold increased to 10,000. Features that allow deeper examination of the literature have been introduced as well. A functionality called Term-mapping allows for fast, dynamic relevancy ranking of returned citations. MeSH substances, such as proteins, genes, and chemicals, can now be extracted from a retrieved corpus of citations, ranked by frequency and explored through the MeSHMine functionality. Features that facilitate user engagement with publications have also been improved: formatting and colorization ease reviewing of the abstract text and the tagging and noting citations functionality has been streamlined. Version 8 introduced multiple features that break new ground in working with chemical literature. For example, chemical entity extraction from scientific publications has been streamlined through download of PDFs and automated table extraction. Following entity extraction, the chemical names can be used as inputs to retrieve EPA's chemical identifiers, the DSSTox (Distributed Structure-Searchable Toxicity) chemical IDs (DTXSIDs). Once these identifiers have been retrieved, a wealth of chemical information is available through built-in functions accessing EPA's Computational Toxicology and Exposure application programming interface (CTX-APIs) [2]. This new functionality allows researchers to build on the EPA's efforts in chemical data assembly and curation. The Abstract Sifter version 8 is a valuable tool for researchers endeavoring to understand chemicals and their effects on the environment and biological systems.

PMID:
42723675
Bibliographic data and abstract were imported from PubMed on 11 Sep 2026.

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