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    • CSS.3.2.2.1 NaKnowBase

    Metadata Updated: September 17, 2023

    Product CSS.3.2.2 includes three inter-related components, the delivery of which completes this product. This product represents updates to the NaKnowBase database, which has been cleared under STICS Public accessibility for NaKnowBase ORD-043098.

    The first component is a tool to automate formatting of ENM data into the standard and universally accepted ISO-TAB Nano format. We have written this code to both WRITE (export) NKB data in ISO-TAB Nano format, as well as READ (input) external data already in the ISO-TAB Nano format for potential inclusion into NKB. The code and corresponding documentation for this tool are made available to the public via the EPA Office of Research and Development at: https://gaftp.epa.gov/EPADataCommons/ORD/NaKnowBase/.

    The second component is an application, entitled “OntoSearcher”, that automates ontological term mapping for a given ENM dataset. We have developed this code to read in external partner ENM data, and map those data to ontological terms with reported diagnostics on speed and accuracy. This is the first step in the development of a common language for ENMs, aims to minimize necessary human curation time and is critical to EPA efforts to integrate across Federal ENM datasets in a FAIR (Findable, Accessible, Interoperable, Accessible) way. The code and corresponding documentation for this application are made available to the public via the EPA Office of Research and Development at: https://gaftp.epa.gov/EPADataCommons/ORD/NaKnowBase/. The third component is the integration of NaKnowBase ENM data with the EPA Chemistry Dashboard. Currently, we have 373 chemical structure mapped on the Dashboard at https://comptox.epa.gov/dashboard/chemical_lists/NAKNOWBASE. This collaborative, intra-Agency effort between CCTE and CPHEA continues as we update NKB ENMs, establish web-services to update NKB-Dashboard integration with the NKB application, build on our EPA standard nomenclature for ENMs (Beach et al.(2021)), and continue our semantic mapping efforts with Federal and International collaborators.

    Access & Use Information

    Public: This dataset is intended for public access and use. License: See this page for license information.

    Downloads & Resources

    Dates

    Metadata Created Date October 10, 2021
    Metadata Updated Date September 17, 2023

    Metadata Source

    Harvested from EPA ScienceHub

    Other Data Resources

    Additional Metadata

    Resource Type Dataset
    Metadata Created Date October 10, 2021
    Metadata Updated Date September 17, 2023
    Publisher U.S. EPA Office of Research and Development (ORD)
    Maintainer
    Identifier https://doi.org/10.23719/1523156
    Data Last Modified 2021-09-23
    Public Access Level public
    Bureau Code 020:00
    Schema Version https://project-open-data.cio.gov/v1.1/schema
    Data Dictionary https://pasteur.epa.gov/uploads/10.23719/1523156/documents/NKB%20Data%20Dictionary%20-%20version%201.0.xlsx
    Data Dictionary Type application/vnd.openxmlformats-officedocument.spreadsheetml.sheet
    Harvest Object Id 78142279-64ac-4032-8fa6-d6a0d5f0175e
    Harvest Source Id 04b59eaf-ae53-4066-93db-80f2ed0df446
    Harvest Source Title EPA ScienceHub
    License https://pasteur.epa.gov/license/sciencehub-license.html
    Program Code 020:000
    Publisher Hierarchy U.S. Government > U.S. Environmental Protection Agency > U.S. EPA Office of Research and Development (ORD)
    Source Datajson Identifier True
    Source Hash 95cfce44bafbf98326b873444c79c5bc5a2c9fc6f19297af2453095f7467092e
    Source Schema Version 1.1

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