This dataset is associated with the manuscript "Translating nanoEHS data using EPA NaKnowBase and the Resource Description Framework" mortensen h, Williams A, Beach B, Slaughter W, Senn J and Boyes W submitted 8/3/2023 to F1000:Nanotoxicology. The dataset includes and RDF mapping of EPA NaKnowBase (NKB), the OntoSearcher code used to produce the file NKB RDF, as well as training materials and example files for the user. Portions of this dataset are inaccessible because: this data includes partner data and old code that has been modified since 2021. They can be accessed through the following means: OntoSearcher_Training_Materials.zip. Format: The file entitled "OntoSearcher_Training_Materials.zip" includes updated materials as of 07/11/23. These files include the Ontosearcher tool materials, sample NKB dataset and corresponding training documentation on how to run the tool with the sample dataset, and apply to the users own data. This directory also includes the current RDF mapping of the NKB (NKB_RDF_V3.ttl).

NaKnowBase 11202020 version submitted with Boyes et al., 2022. This dataset is associated with the following publication: Harten, P., H. Helgen, W. Melendez, B. Beach, W. Boyes, I. Sotiropoulos, P. Karatzas, H. Sarimveis , and H. Mortensen. Mining, refining, and QSAR analysing the nanoinformatics in EPA NaKnowBase. Environmental Science: Nano. Royal Society of Chemistry, Cambridge, UK, 2262-2274, (2024).

Engineered nanomaterials (generally defined as being 1-100 nm is size) take on unique activities due to their small size, reactivity, and high surface area to mass ratio. While these properties can be highly desirable for the intended function of the materials and the products produced from them, they may also cause undesirable activity in environmental or biological systems. EPA program offices, faced with applications for novel engineered nanomaterials, need access to relevant data to help predict potential environmental/biological interactions of nanomaterials based on their physio-chemical properties and the intended uses of novel materials. We have developed a relational database containing the results from the Office of Research and Development (ORD) regarding the actions of engineered nanomaterials in environmental and biological systems. The database captures the chemical and physical parameters of the materials tested, the assays in which they were tested, and the measured results. The database is designed to enable selective searches of nanomaterials based on physical/chemical parameters such as composition, size, coatings, etc, the system in which they were tested, and the quantitative results obtained. For example, a user would be able to access information on materials of similar composition, size range, reactivity, or other properties measured, and see what results were observed. For example, users can implement observed results for modeling and prediction for similar nanomaterials using quantitative structure activity relationships and other sophisticated modeling approaches.

EPA Nanorelease Dataset. This dataset is associated with the following publication: Wohlleben, W., C. Kingston, J. Carter, E. Sahle-Demessie, S. Vazquez-Campos, B. Acrey, C. Chen, E. Walton, H. Egenolf, P. Muller, and R. Zepp. NanoRelease: Pilot interlaboratory comparison of a weathering protocol applied to resilient and labile polymers with and without embedded carbon nanotubes. CARBON. Pergamon Press Ltd., New York, NY, USA, 113: 346-360, (2017).

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.

Data that was used to construct the table and figures associated with the manuscript. This dataset is associated with the following publication: Peloquin, D.M., E.J. Baumann Jr., and T.P. Luxton. Multi-method assessment of PVP-coated silver nanoparticles and artificial sweat mixtures (journal). CHEMOSPHERE. Elsevier Science Ltd, New York, NY, USA, 249: 126173, (2020).

Data files representing each of the Figures and Tables published in Al-Abed et al., Environ. Sci.: Nano, 2016, 3, 593. The data file names identify the Figure or Table and each file contains an internal set of data definitions. This dataset is associated with the following publication: Al-Abed, S.R., J. Virkutyte, J. Ortenzio , R.M. McCarrick, L. Degn, R. Zucker , N. Coates , K. Cleveland, H. Ma, S. Diamond, K. Dreher , and W. Boyes. Environmental aging alters AI(OH)3 coating of TiO2 nanoparticles enhancing their photocatalytic and phototoxicity activities. Environmental Science: Nano. RSC Publishing, Cambridge, UK, N/A, (2016).

The data set includes the data used to generated figures in the publication Clar, J. G.; Platten, W. E.; Baumann, E.; Remsen, A.; Harmon, S.; Rodgers, K.; Thomas, T.; Matheson, J.; Luxton, T. P., Transformation and release of nanoparticle additives & byproducts from commercially available surface coatings on pressure treated lumber via dermal contact. Sci. Total Environ. 2019, 694, 9. This dataset is associated with the following publication: Clar, J.G., W.E. Platten III, E. Baumann, A. Remsen, S. Harmon, K. Rogers, T. Thomas, J. Matheson, and T.P. Luxton. Transformation and release of nanoparticle additives & byproducts from commercially available surface coatings on pressure treated lumber via dermal contact. SCIENCE OF THE TOTAL ENVIRONMENT. Elsevier BV, AMSTERDAM, NETHERLANDS, 694: 133669, (2019).