sbd-data-book

allDatasets.rq

Code examples: curl

SPARQL

PREFIX sbd:     <https://www.sbd4nano.eu/rdf/#>
PREFIX foaf:   <http://xmlns.com/foaf/0.1/> 
PREFIX rdfs:   <http://www.w3.org/2000/01/rdf-schema#> 

SELECT ?dataset ?datasetLabel WHERE {
  ?dataset_ a sbd:Dataset ;
           rdfs:label ?datasetLabel .
  OPTIONAL { ?dataset_ foaf:page ?dataset }
} ORDER BY ?dataset

run

Output

dataset

All NanoPUZZLES ISA-TAB-Nano datasets

Quasi-QSAR for predicting the cell viability of human lung and skin cells exposed to different metal oxide nanomaterials

A unified in silico model based on perturbation theory for assessing the genotoxicity of metal oxide nanoparticles

Ecotoxicological read-across models for predicting acute toxicity of freshly dispersed versus medium-aged NMs to Daphnia magna

Computational ecotoxicology: Simultaneous prediction of ecotoxic effects of nanoparticles under different experimental conditions

Modelling the toxicity of a large set of metal and metal oxide nanoparticles using the OCHEM platform

Use of size-dependent electron configuration fingerprint to develop general prediction models for nanomaterials

Computational enrichment of physicochemical data for the development of a ζ-potential read-across predictive model with Isalos Analytics Platform

Quasi-SMILES-Based Nano-Quantitative Structure–Activity Relationship Model to Predict the Cytotoxicity of Multiwalled Carbon Nanotubes to Human Lung Cells

Prediction of Plant Uptake and Translocation of Engineered Metallic Nanoparticles by Machine Learning

Screening Priority Factors Determining and Predicting the Reproductive Toxicity of Various Nanoparticles

Learning from the Machine: Uncovering Sustainable Nanoparticle Design Rules

Meta-Analysis of Nanoparticle Cytotoxicity via Data-Mining the Literature

Computational Tool for Risk Assessment of Nanomaterials: Novel QSTR-Perturbation Model for Simultaneous Prediction of Ecotoxicity and Cytotoxicity of Uncoated and Coated Nanoparticles under Multiple Experimental Conditions

Protein Corona Fingerprinting Predicts the Cellular Interaction of Gold and Silver Nanoparticles

Computer-aided nanotoxicology: assessing cytotoxicity of nanoparticles under diverse experimental conditions by using a novel QSTR-perturbation approach

Classifying and predicting the electron affinity of diamond nanoparticles using machine learning

Cytotoxicity analysis of nanoparticles by association rule mining

Machine learning predicts the functional composition of the protein corona and the cellular recognition of nanoparticles

A Molecular‐Based Model for Prediction of Solubility of C₆₀Fullerene in Various Solvents

Probing the toxicity of nanoparticles: a unified in silico machine learning model based on perturbation theory

A Meta-Analysis of Carbon Nanotube Pulmonary Toxicity Studies-How Physical Dimensions and Impurities Affect the Toxicity of Carbon Nanotubes

Quantitative Structure–Activity Relationship Models for Predicting Inflammatory Potential of Metal Oxide Nanoparticles

Predicting In Vitro Neurotoxicity Induced by Nanoparticles Using Machine Learning

Predicting Cytotoxicity of Metal Oxide Nanoparticles Using Isalos Analytics Platform

A Machine Learning Tool to Predict the Antibacterial Capacity of Nanoparticles

Predicting cytotoxicity of PAMAM dendrimers using molecular descriptors

Development of Generalized QSAR Models for Predicting Cytotoxicity and Genotoxicity of Metal Oxides Nanoparticles

Construction of a web-based nanomaterial database by big data curation and modeling friendly nanostructure annotations

Towards a generalized toxicity prediction model for oxide nanomaterials using integrated data from different sources

AOP-Wiki AOP-AO dataset

AOP-Wiki AOP-KE dataset

AOP-Wiki MIE-KE dataset

Bayesian Network Resource for Meta-Analysis: Cellular Toxicity of Quantum Dots

NANoREG - eNanoMapper database

Toxicogenomic assessment of engineered nanomaterials

Status quo in data availability and predictive models of nano-mixture toxicity

Raw data and metadata of SiO2 NP physicochemical characterisation, in vitro investigations and in silico predictions on protein corona formation

NanoReg2 - eNanoMapper database

BAM reference data: XPS raw data of Al-coated titania nanoparticles (JRCNM62001a and JRCNM62002a)

RDF version of the data from Anastasios G. et al. Computational enrichment of physicochemical data for the development of a zeta-potential read-across predictive model with Isalos Analytics Platform. NanoImpact (2021)

RDF version of the data from Hagar I. Labouta et al. Meta-Analysis of Nanoparticle Cytotoxicity via Data-Mining the Literature. NanoImpact (2019)

Data & code repository for the article "An ancestral molecular response to nanomaterial particulates"

A Curated Gene and Biological System Annotation of Adverse Outcome Pathways Related to Human Health

Photodegradation of phenol (τOH) by TiO2-based nanophotocatalysts determined in line with the SAPNet methodology

Predictive nano-QSAR modeling of the cytotoxicity using epithelial cells obtained from Chinese hamster ovary (CHO-K1 cell line) for hybrid TiO2-based nanomaterials

The influence of the properties of inorganic solvents on the hydrodynamic diameter of TiO2 nanoparticles

Identification of factors determining the process of aggregation/agglomeration of metal oxide nanoparticles in a biological medium

Influence of protein corona on cytotoxicity of metal oxide nanoparticles against human keratinocyte cell line (HaCaT)

Adsorption free energies and potentials of mean-force for interactions between amino acids, lipid fragments, and nanoparticles

Curated dataset on protein's properties and post-translational modification protein properties

Occupational exposure dataset for TiO2, carbon black and TiO2 and Ag;X

MOESM1 of Role of chemical composition and redox modification of poorly soluble nanomaterials on their ability to enhance allergic airway sensitisation in mice

MOESM2 of Role of chemical composition and redox modification of poorly soluble nanomaterials on their ability to enhance allergic airway sensitisation in mice

NanoWiki 6

NanoPUZZLES ISA-TAB-Nano dataset: Data extracted from NanoCare project final scientific report

Heatmap of the overall HTS database

Effect of cell passage number on gene expression in NR8383 macrophages

Transcriptomic study of NR8383 rat macrophages cells following exposure to Printex90

Transcriptomic study of NR8383 rat macrophages cells in control condition (DMEM culture medium supplemented with 10% of fetal bovine serum)

Transcriptomic study of NR8383 rat macrophages cells in control condition (water, H2O)

Transcriptomic study of NR8383 rat macrophages cells in submerged condition (control)

Transcriptomic study of NR8383 rat macrophages cells following exposure to TiO2 (NM105, p25 anatase/rutile)

Transcriptomic study of NR8383 rat macrophages cells following exposure to NM403 carbon nanotubes

Transcriptomic study of NR8383 rat macrophages cells following exposure to TiO2 (NRCWE001)

Transcriptomic study of NR8383 rat macrophages cells following exposure to multi-walled carbon nanotubes (NRCWE006)

Transcriptomic study of NR8383 rat macrophages cells following exposure to NiZnFe2O4.

Transcriptomic study of NR8383 rat macrophages cells following exposure to Fe2O3 (NRCWE018).

Transcriptomic study of NR8383 rat macrophages cells following exposure to zinc iron oxide (ZnFe2O4, NRCWE021)

Transcriptomic study of NR8383 rat macrophages cells following exposure to COOH-functionalized carbon nanotubes (NRCWE042)

Transcriptomic study of NR8383 rat macrophages cells following exposure to NH2-functionalized carbon nanotubes (NRCWE049)

Transcriptomic study of NR8383 rat macrophages cells following exposure to pristine single-walled carbon nanotubes (NRCWE055)

Transcriptomic study of NR8383 rat macrophages cells following exposure to carbon black (Printex 90)

Transcriptomic study of NR8383 rat macrophages cells following exposure to ZnO 4 µg/mL and ZnO 16 µg/mL

Transcriptomic study of NR8383 cells following exposure to zinc oxide nanoparticles NM110

Transcriptomic study of PMA-differentiated THP-1 cells following exposure to zinc oxide nanoparticles NM110

TiO2-induced gene expression profiles in rat lung: a subacute inhalation study

Using the Isalos platform to develop a QSAR model that predicts metal oxide toxicity utilizing facet-based electronic, image analysis-based, and periodic table derived properties as descriptors

HepaRG_NOAEL_JRC_run19-21

HepaRG_NOAEL_JRC_run22-24

22. LEITAT-20190820_MWCNT_NB;

23. LEITAT-20190820_tent_NB

24. LEITAT-20190806_TiO2_FCCCO_VP

25. LEITAT-20190820_ink_NB

26. LEITAT-20190820_AgNPs_VP

27. LEITAT-20190820_AgNWs_L_VP

28. LEITAT-20190820_AgNWs_s_VP

33. 20190820_SC_NB-E-TiO2

34. 20190820_SC_NB-E-Zn

35. LEITAT-20190806_TiO2_INOTEX_VP

36. Vienna-Dissolution-screening-test2017_NanoFASE_v2

21. NanoFASE-template_revised - For Burkhard

07. Vrije University - NanoFASE-template_Enchytraeids_Dorset

08. Vrije University - NanoFASE-template_Enchytraeids_Lufa

09. Vrije University - NanoFASE-template_Enchytraeids_Woburn

10. Vrije University - NanoFASE-template_Springtails_Dorset

11. Vrije University - NanoFASE-template_Springtails_Lufa

12. Vrije University - NanoFASE-template_Springtails_North Wales

13. Vrije University - NanoFASE-template_Springtails_Woburn

SmartNanoTox

14. NanoFASE-template_Venice DLS - TiO2 Uncoated

15. NanoFASE-template_Venice DLS - TiO2 PVP

16. NanoFASE-template_Venice DLS - Kaolinite

17. Ljubljana - NanoFASE-template_revised-Single Species - Lufa 2.2

18. Ljubljana - NanoFASE-template_revised-Single Species - North Wales

19. Ljubljana - NanoFASE-template_revised-Single Species - Woburn

20. Aveiro-NanoFASE-template_Dissolution_SG

01. NanoFASE-template_Mesocosm_Plymouth

05. EAWAG_Pyrolysis_data_Final

06. EAWAG - Ce_incineration_data

Synthesis of PVP-capped nanoMILE nanomaterials

Application of Bayesian networks in determining nanoparticle-induced cellular outcomes using transcriptomics

Machine learning predictions of concentration-specific aggregate hazard scores of inorganic nanomaterials in embryonic zebrafish

Application of Bayesian networks for hazard ranking of nanomaterials to support human health risk assessment

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)

RDF version of the data from Anastasios G. Papadiamantis et al. Predicting Cytotoxicity of Metal Oxide Nanoparticles Using Isalos Analytics Platform (2020)

RDF version of the data from Saarimaki et al. Manually curated transcriptomics data collection for toxicogenomic assessment of engineered nanomaterials (Version 1.0.0) [Zenodo Dataset] (2020)

Raw data of in vitro investigations on immune activation by bare and surface-functionalized SiO2 NP-allergen conjugates using human monocyte-derived dendritic cells as model antigen-presenting cells. Data repository for Punz B. et al., 2022

Extracting interpretable rules with Bayesian Networks. A case study of intrinsic human hazardous properties of silver nanoforms for the Safety Dimension of Safe and Sustainable by design paradigm

RDF version of the supplementary data from Shin, Hyun Kil and Seo et al. Meta-analysis of Daphnia magna nanotoxicity experiments in accordance with test guidelines (2018)

Physico-chemical characterization of sterilized ZnO nanoparticles by XPS / HAXPES / SEM

Physico-chemical characterization of sterilized Co1.5Fe1.5O4 nanoparticles by XPS / HAXPES / SEM

Physico-chemical characterization of sterilized Co2.25Fe0.75O4 nanoparticles by XPS / HAXPES / SEM

Physico-chemical characterization of sterilized Co0.75Fe2.25O4 nanoparticles by XPS / HAXPES / SEM

Physico-chemical characterization of sterilized Fe2O3 nanoparticles by XPS / HAXPES / SEM

Physico-chemical characterization of sterilized Co3O4 nanoparticles by XPS / HAXPES / SEM

Physico-chemical characterization of sterilized CeO2 nanoparticles by XPS / HAXPES / SEM

Physico-chemical characterization of sterilized TiO2 nanoparticles by XPS / HAXPES / SEM

Physico-chemical characterization of sterilized TiO2 D540 nanoparticles by XPS / HAXPES / SEM

Physico-chemical characterization of sterilized Ce0.5Zr0.5O2 nanoparticles by XPS / HAXPES / SEM

Physico-chemical characterization of sterilized ZrO2 nanoparticles by XPS / HAXPES / SEM

Physico-chemical characterization of sterilized Ce0.1Zr0.9O2 nanoparticles by XPS / HAXPES / SEM

Physico-chemical characterization of sterilized Ce0.75Zr0.25O2 nanoparticles by XPS / HAXPES / SEM

Physico-chemical characterization of sterilized Ce0.25Zr0.75O2 nanoparticles by XPS / HAXPES / SEM

Physico-chemical characterization of sterilized AlOOH nanoparticles by XPS / HAXPES / SEM

Physico-chemical characterization of sterilized TiO2 PVP nanoparticles by XPS / HAXPES / SEM

Physico-chemical characterization of Ce0.9Zr0.1O2 nanoparticles by XPS / HAXPES / SEM

Physico-chemical characterization of CeO2/Co3O4 nanoparticles by XPS / HAXPES / SEM

Physico-chemical characterization of Fe3O4 nanoparticles by XPS / HAXPES / SEM

Physico-chemical characterization of sterile ZnO nanoparticles by XPS / HAXPES / SEM

Physico-chemical characterization of sterile citrated stabilized Au nanoparticles by XPS / HAXPES / SEM

Physico-chemical characterization of sterile Fe3O4 nanoparticles by XPS / HAXPES / SEM

Code examples

curl

curl -s https://raw.githubusercontent.com/h2020-sbd4nano/sbd-data-book/master/sparql/allDatasets.rq | sed 's+<lang/>+en+' > allDatasets.rq

curl -H "Accept: text/tab-separated-values" -G https://sbd4nanolandscape.rdf.bigcat-bioinformatics.org/sparql --data-urlencode query@allDatasets.rq

This SPARQL query is available under CCZero.