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Using the PubMed Abstract Sifter for Computational Modeling of Complex Biological Processes
Citation:
Baker, Nancy C. AND T. Knudsen. Using the PubMed Abstract Sifter for Computational Modeling of Complex Biological Processes. Interagency Modeling and Analysis Group (IMAG) webinar, NA (virtual), NC, August 11, 2022. https://doi.org/10.23645/epacomptox.21758597
Impact/Purpose:
Invited as a mini-webinar and tutorial by the Interagency Modeling and Analysis Group (IMAG) Multiscale Modeling (MSM) Consortium Working Group in August 2022 to hear more about the EPA PubMed Abstract Sifter as a tool for rapid model construction.
Description:
Modeling complex biological processes can require retrieving, organizing, and extracting entities and relationships from thousands of PubMed citations. The USEPA’s Center for Computational Toxicology and Exposure’s Virtual Tissue project team has developed an Excel-based literature mining tool called the PubMed Abstract Sifter that facilitates each literature task in complex biological modeling. We will demonstrate how the publicly available tool can be used to identify gene and protein participants in a biological process, to build out a network of gene relationships, and to identify the chemical stressors that can be used to perturb that network to produce adverse outcomes. DISCLAIMER: does not necessarily reflect Agency policy.
URLs/Downloads:
DOI: Using the PubMed Abstract Sifter for Computational Modeling of Complex Biological Processes
BAKER_ABSTRACTSIFTER_MODELING_AUG11.PDF (PDF, NA pp, 413.734 KB, about PDF)