datasets
RDF version of the data from Choi, JS. et al. Towards a generalized toxicity prediction model for oxide nanomaterials using integrated data from different sources (2018)
- Date: 2021-11-30
- License: CC-BY 4.0
- Project: NanoSolveIT
- URL: https://zenodo.org/record/5743204
- DOI: 10.5281/zenodo.5743204
Original Study Abstract
A generalized toxicity classification model for 7 different oxide nanomaterials is presented in this study. A data set extracted from multiple literature sources and screened by physicochemical property based quality scores were used for model development. Moreover, a few more preprocessing techniques, such as synthetic minority over-sampling technique, were applied to address the imbalanced class problem in the data set. Then, classification models using four different algorithms, such as generalized linear model, support vector machine, random forest, and neural network, were developed and their performances were compared to find the best performing preprocessing methods as well as algorithms. The neural network model built using the balanced data set was identified as the model with best predictive performance, while applicability domain was defined using k-nearest neighbours algorithm. The analysis of relative attribute importance for the built neural network model identified dose, formation enthalpy, exposure time, and hydrodynamic size as the four most important attributes. As the presented model can predict the toxicity of the nanomaterials in consideration of various experimental conditions, it has the advantage of having a broader and more general applicability domain than the existing quantitative structure-activity relationship model. [Source: https://doi.org/10.1038/s41598-018-24483-z]
Data Sample
| material | core_size | hydro_size | surf_charge | surf_area | Hsf | Ec | Ev | MeO | assay | cell_line | cell_species | cell_origin | cell_type | time | dose | viability | toxicity |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Al2O3 | 39.7 | 267 | 36.3 | 64.7 | -17.345 | -1.51 | -9.81 | 5.67 | MTT | HCMEC | Human | Blood | Normal | 24 | 0.001 | 92.5258 | nonToxic |
| Al2O3 | 39.7 | 267 | 36.3 | 64.7 | -17.345 | -1.51 | -9.81 | 5.67 | MTT | HCMEC | Human | Blood | Normal | 24 | 0.01 | 96.134 | nonToxic |
| Al2O3 | 39.7 | 267 | 36.3 | 64.7 | -17.345 | -1.51 | -9.81 | 5.67 | MTT | HCMEC | Human | Blood | Normal | 24 | 0.1 | 93.5567 | nonToxic |
| Al2O3 | 39.7 | 267 | 36.3 | 64.7 | -17.345 | -1.51 | -9.81 | 5.67 | MTT | HCMEC | Human | Blood | Normal | 24 | 1 | 97.6804 | nonToxic |
Data Summary
| Group | count |
|---|---|
| # of Materials | 41 |
| # of Assays | 59 |
| # of Measurement groups | 90 |
| # of Endpoints | 1239 |
| # of Nanomaterial types | 7 |
| # of Assay types | 9 |
| # of Endpoint types | 11 |
| # of Units | 7 |
| # of Species | 2 |