AndreaBozzo/ceres-open-data-index huggingface dataset:
PROPS model output for individual species

There are two datasets. First, a dataset for the PROPS models (i.e. “US-PROPS_v2_models_May30_2019.xlsx,” which describe the parameters for the PROPS models for the 1503 species that were included in the study. Metadata for this data is provided in the excel spreadsheet. Second, is a spreadsheet of the “critical load functions” (CLF) that are derived from the PROPS models (i.e. “PROPS-CLF_results_May30_2019.xlsx”). Metadata for this dataset are also provided in the spreadhseet. 

Tags: biodiversity, climate-change, critical-loads, naaqs, native-plants, nitrogen-deposition, sulfur-deposition
Organization: U.S. Environmental Protection Agency
Growth inhibition of algae and X-ray diffractions of ZnO

The XRD text files show counts per second of X-ray diffraction as a function of diffraction angle for four nanomaterials: industrial ZnO, sunscreen ZnO, industrial ZnO after algae toxicity test, sunscreen ZnO after algae toxicity test. Figure 2 in ZnO paper shows the raw data for the inhibition (%) as a function of time (h) for the nanomaterials at 10 mg/L and 50 mg/L concentrations. 

This dataset is associated with the following publication:
Spisni, E., S. Seo, S.H. Joo, and C. Su. Release and toxicity comparison between industrial- and sunscreen-derived nano-ZnO particles.   International Journal of Environmental Science and Technology. Springer, Heidelburg,  GERMANY, 13: 2485-2494, (2016).

Tags: aggregation, commercial-zno, ecotoxicity, thalassiosira-pseudonana
Organization: U.S. Environmental Protection Agency
ENM final

The data is the total number of manuscripts that were evaluated in each category.  The data helped develop figure 2 and 3. 

This dataset is associated with the following publication:
Tolaymat , T., A. El Badawy, A. Genaidy, W. Abdelraheem, and R. Sequeira. Analysis of Metallic and Metal Oxide Nanomaterial Environmental Emissions.  J.Klemes and R. Lozano  JOURNAL OF CLEANER PRODUCTION. Elsevier Science Ltd, New York, NY, USA, 143: 401-412, (2017).

Tags: emissions, metal-oxides, metals, nanomaterials
Organization: U.S. Environmental Protection Agency
X-Ray diffraction of titanium dioxide nanoparticles and their inhibition of marine diatom growth

The XRD text files show counts per second of X-ray diffraction as a function of diffraction angle for six nanomaterials: industrial TiO2, toothpaste TiO2, sunscreen TiO2 and these materials after algae toxicity test. Figure 1 in TiO2 paper shows the raw data for the inhibition (%) as a function of time (h) for the nanomaterials at 5 mg/L concentration. 

This dataset is associated with the following publication:
Galletti, A., S. Seo, S.H. Joo, C. Su, and P. Blackwelder. Effects of titanium dioxide nanoparticles derived from consumer products on the marine diatom Thalassiosira pseudonana.   ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH. Ecomed Verlagsgesellschaft AG, Landsberg,  GERMANY, 23: 21113-21122, (2016).

Tags: environments-toxicity-exposure-algae, marine, nanoproducts-commercial-tio2
Organization: U.S. Environmental Protection Agency
Pollen and honeybee neonicotinoid exposure data and analyses

Data on the presence of corn seed treatment insecticides in bee-collected pollen and increased honey bee mortality associated with corn planting, persistence of the insecticides inside honey bee colonies, and long-term growth of these colonies in central Ohio. We also constructed spatial models, based on empirical data of honey bee foraging and dispersion patterns of planter dust, and landscape compositions, to simulate hypothesized exposure routes via contamination of foraging resources and aerial exposure resulting from flight through localized dust plumes from planters and diffuse dust in the landscape over all resulting from widespread planting activity. Insecticide concentrations under different hypothesized exposure routes were then compared with the observed levels of contamination to evaluate these hypotheses. 

This dataset is associated with the following publication:
Kuan, C., G. DeGrandi-Hoffman, R. Curry, K. Garber, A. Kanarek, M. Snyder, K. Wolfe, and T. Purucker. Sensitivity analyses for simulating pesticide impacts on honey bee colonies.   ENVIRONMENTAL MODELLING AND SOFTWARE. Elsevier Science Ltd, New York, NY, USA, 376: 15-27, (2018).

Tags: honeybees, neonicotinoids
Organization: U.S. Environmental Protection Agency
AWG and Bottled Water source data and results files

Dataset of different AWG units and bottled water units for different scales were provided.  The LCA results of the different systems were provided as well. 

This dataset is associated with the following publication:
Absar, M., S. Cashman, X. Ma, J. Garland, and M. Jahne. Life Cycle and Cost Assessments of Atmospheric Water Generation Technologies and Alternative Potable Water Emergency Response Options. U.S. Environmental Protection Agency, Washington, DC, USA.

Tags: alternative-potable-water-source, atmopheric-water-generation, bottled-water, life-cycle-assessment-lca, life-cycle-cost
Organization: U.S. Environmental Protection Agency
Kidney injury biomarkers and urinary creatinine

The original dataset contains identification information for the sample subjects and all of their descriptors including age, gender, race, and medical screening information.   The analyzed data cannot be made publicly available. This dataset is not publicly accessible because: EPA cannot release personally identifiable information regarding living individuals, according to the Privacy Act and the Freedom of Information Act (FOIA). This dataset contains information about human research subjects. Because there is potential to identify individual participants and disclose personal information, either alone or in combination with other datasets, individual level data are not appropriate to post for public access. Restricted access may be granted to authorized persons by contacting the party listed. It can be accessed through the following means: The analyzed data cannot be made publicly available. Format: The original dataset contains identification information for the sample subjects and all of their descriptors including age, gender, race, and medical screening information.   The analyzed data cannot be made publicly available. 

This dataset is associated with the following publication:
Stiegel, M., J. Pleil , J. Sobus , M. Angriish, and M. Morgan. Kidney injury biomarkers and urinary creatinine variability in nominally healthy adults.   BIOMARKERS. Taylor & Francis, Inc., Philadelphia, PA, USA, 20: 436-452, (2015).

Tags: biomarker-measurements, creatinine, excretion-rate, gas-chromatography-mass-spectrometry-gc-ms, human-exposure, kidney-injury-protein, non-targeted-analysis, summary-statistics, thermal-desorption, volatile-organic-compounds-vocs
Organization: U.S. Environmental Protection Agency
Reconnaissance of Mixed Organic and Inorganic Chemicals in Private and Public Supply Tapwaters at Selected Residential and Workplace Sites in the United States

In vitro bioactivity concentrations and chemical concentrations of estrogens, androgens, and glucocorticoids from a pilot study of US tapwaters. In vitro bioassays include T47D-Kbluc, MDA-kb2, and a CV-1 cell line transduced with human glucocorticoid receptor. 

This dataset is associated with the following publication:
Bradley, P., D. Kolpin, K. Romanok, K. Smalling, M. Focaszio, J. Brown, M. Cardon, K. Carpenter, S. Corsi, L. DeCicco, J. Dietze, N. Evans, E. Furlong, C. Givens, J. Gray, D. Griffin, C. Higgins, M. Hladik, L. Iwanowicz, C. Journey, K. Kuivila, J. Masoner, C. McDonough, M. Meyer, J. Orlando, M. Strynar, C. Weis, and V. Wilson. Reconnaissance of Mixed Organic and Inorganic Chemicals in Private and Public Supply Tapwaters at Selected Residential and Workplace Sites in the United States.   Environmental Science & Technology Letters. American Chemical Society, Washington, DC, USA,  13972-13985, (2018).

Tags: bioassay, contaminant-mixtures, point-of-use-drinking-water, tapwater
Organization: U.S. Environmental Protection Agency
Fetal and Postnatal Cortical Thyroid Hormone Levels and Bioindicators

thyroid hormones in serum and in brain were measured in fetal and neonatal rat cortex after graded levels of a thyroid hormone synthesis inhibitor were administered to pregnant rat dams. A number of gene targets were assessed to look for measures of thyroid hormone action in these same tissues. 

This dataset is associated with the following publication:
OShaughnessy, K., C. Wood, R. Ford, P. Kosian, M. Hotchkiss, S. Degitz, and M. Gilbert. Thyroid hormone disruption in the fetal and neonatal rat: Predictive hormone measures and bioindicators of hormone action in the developing cortex- ToxSci.   TOXICOLOGICAL SCIENCES. Society of Toxicology, RESTON, VA,   163-179, (2018).

Tags: brain-developoment, molecular-markers, thyroid
Organization: U.S. Environmental Protection Agency
TracMyAir data

This dataset consists of input and output data for sensitivity analysis of the model. 

This dataset is associated with the following publication:
Breen, M., C. Seppanen, V. Isakov, S. Arunachalam, M. Breen, J. Samet, and H. Tong. Development of TracMyAir Smartphone Application for Modeling Exposures to Ambient PM2.5 and Ozone.   International Journal of Environmental Research and Public Health. Molecular Diversity Preservation International, Basel,  SWITZERLAND, 16(18): 3468, (2019).

Tags: fine-particulate-matter-pm2-5, human-exposure-modeling, ozone
Organization: U.S. Environmental Protection Agency
Time series analysis of wintertime O3 and NOx formation

Concentrations of 11 species are reported from continuous measurements taken during a wintertime field study in Utah. Time series data for measured species generally displayed strong diurnal patterns. Six species show a diurnal pattern of daytime maximums (NO, NOy, O3, H2O2, CH2O2, and Cl2), while five species show a diurnal pattern of night time maximums (NO2, HONO, ClNO2, HNO3, and N2O5). Vector autoregression analyses were completed to better understand important species influencing the formation of O3 and NOx. For the species studied, r2 values of predicted versus measured concentrations ranged from 0.82–0.99. Fitting parameters for the autoregressive matrix, Pi, indicated the importance of species precursors. In addition, values of fitting parameters for Pi were relatively insensitive to data size, with variations generally <10%. Variable causation was quantified using the Granger causation method. Assuming O3 and NOx behave as chemical products, reactants (in order of importance) are as follows: H2O2, N2O5, HONO, and ClNO2. 

This dataset is associated with the following publication:
Olson, D., T. Riedel, R. Long, J. Offenberg, M. Lewandowski, and T. Kleindienst. Time series analysis of wintertime O3 and NOx formation using vector autoregressions.   ATMOSPHERIC ENVIRONMENT. Elsevier Science Ltd, New York, NY, USA, 218: 116988, (2019).

Tags: air-quality, air-toxics, machine-learning, nox, ozone, secondary-organic-aerosol, time-series-analysis
Organization: U.S. Environmental Protection Agency
Datasets used in ORD-023417: Identification of Androgen Receptor Modulators in a Prostate Cancer Cell Line Microarray Compendium

Datasets used in ORD-023417: Identification of Androgen Receptor Modulators in a Prostate Cancer Cell Line Microarray Compendium. 

This dataset is associated with the following publication:
Rooney, J., B. Chorley, N. Kleinstreuer, and C. Corton. Identification of Androgen Receptor Modulators in a Prostate Cancer Cell Line Microarray Compendium.   TOXICOLOGICAL SCIENCES. Society of Toxicology, RESTON, VA,  166(1): 146-162, (2018).

Tags: androgen-receptor, androgens, antiandrogens, cancer, endocrine-disruption, gene-expression-omnibus-accession-numbers, high-throughput-transcriptomic-screening, micorarray, prostate-cancer-cell-lines
Organization: U.S. Environmental Protection Agency
Datasets used in ORD-023401: Activation of Nrf2 in the Liver is Associated with Suppression of the Growth Hormone-Regulated STAT5b Transcription Factor

Datasets used in ORD-023401: Activation of Nrf2 in the Liver is Associated with Suppression of the Growth Hormone-Regulated STAT5b Transcription Factor. 

This dataset is associated with the following publication:
Rooney, J., K. Oshida, N. Vasani, B. Vallanat, N. Ryan, B. Chorley, X. Wang, D. Bell, K. Wu, L. Aleksunes, C. Klaassen, T. Kensler, and C. Corton. Activation of Nrf2 in the Liver is Associated with Suppression of the Growth Hormone-Regulated STAT5b Transcription Factor.   PLoS ONE. Public Library of Science, San Francisco, CA, USA, 13(8): 1-30, (2018).

Tags: gene-expression-omnibus-accession-numbers, genomics, growth-hormone, microarray, nrf2, oxidative-stress, sex-differences
Organization: U.S. Environmental Protection Agency
Ambient Particulate Matter and Acrolein Co-Exposure Increases Myocardial Dyssynchrony in Mice via TRPA1

We have examined the potential for interactive cardiovascular effects of repeated, intermittent co-exposure to concentrated ambient particulate matter (CAPs) and acrolein, and the potential role of transient receptor potential cation channel A1 (TRPA1), which we previously linked to air pollution-induced cardiac arrhythmogenesis. Chemical and source characteristics of collected particles was evaluated, as well as wind and weather patterns during exposure. Female B6129 mice and Trpa1-/- mice (n=6) were exposed to filtered air (FA), CAPs (46 µg/m3 of PM2.5 approximately 160 nm diameter), Acrolein (0.42 ppm) or CAPs+Acrolein for 3hrs/day, 2days/week, for 4 weeks. Cardiac strain data, heart function and dimensions, and transmitral blood flow were investigated with echocardiography (40 MHz) before exposures, 1 day after the first exposure, and 1 day after the final exposure. Several other biological endpoints were evaluated but the key findings from ultrasound echocardiography assessments were: elapsed time between peak strain in adjacent wall segments (i.e. myocardial strain delay), a measure of myocardial dyssynchrony, increased by ~5-fold in B6129 mice after the final exposure to CAPs+Acrolein when compared to strain delay in B6129 mice exposed to FA, CAPs, or Acrolein alone, and when compared to strain delay in Trpa1-/- mice exposed to CAPs+Acrolein. There were no changes after the first exposure in any group. 

This dataset is associated with the following publication:
Thompson, L., L. Walsh, B. Martin, J. Mcgee, C. Wood, K. Kovalcik, P. Pancras, N. Coates, A. Ledbetter, D. Davies, W. Cascio, M. Higuchi, M. Hazari, and A. Farraj. Ambient Particulate Matter and Acrolein Co-Exposure Increases Myocardial Dyssynchrony in Mice: Evidence for TRPA1 Involvement.   TOXICOLOGICAL SCIENCES. Society of Toxicology, RESTON, VA,  167(2): 559-572, (2019).

Tags: acrolein, air-pollution-exposure, ambient-air-quality, co-exposure, echocardiography, fine-particulate-matter, heart-function, multiple-pollutants, myocardial-dyssynchrony, myocardial-synchrony, trpa1
Organization: U.S. Environmental Protection Agency
Commercial Waste National Totals by NAICS and US Satellite Tables for USEEIO

Three tables are provided of US commercial waste generation by NAICS codes  for (1) Commercial non-hazardous waste (non-construction),
(2) Commercial non-hazardous waste from construction, and
(3) Commercial RCRA hazardous waste.
The unique waste types within these three tables are defined in referenced sources. 

These national totals by NAICS are mapped to BEA (NAICS-based) detailed industries (388 total) from the BEA 2007 benchmark input-output tables. A crosswalk table is provided. 

Three satellite tables for the USEEIO model are provided using the mapped national waste totals and the industry gross output for the data year for that BEA industry after it has been adjusted to 2013 USD using the BEA industry-specific chain price index. See the associated manuscript for more details. The satellite table files are formatted for use in the USEEIO modeling framework (http://github.com/USEPA/useeio/) to incorporate into a USEEIO model. 

This dataset is associated with the following publication:
Meyer, D.E., M. Li, and W.W. Ingwersen. Analyzing economy-scale solid waste generation using the United States environmentally-extended input-output model.   Resources, Conservation and Recycling. Elsevier Science BV, Amsterdam,  NETHERLANDS, 157: 104795, (2020).

Tags: commercial-waste-generation, industry-waste-generation, input-output-data, life-cycle-assessment, life-cycle-inventory-data, sustainability
Organization: U.S. Environmental Protection Agency
Manuscript Data

The current data set provides all of the data that was used to generate the figures produced in the manuscript. 

This dataset is associated with the following publication:
Clar, J.G., W. Platten III, E. Baumann, A. Remsen, S.M. Harmon, K. Rogers, T.A. Thomas, J. Matheson, and T.P. Luxton. Release and transformation of ZnO nanoparticles used in outdoor surface coatings for UV protection.   SCIENCE OF THE TOTAL ENVIRONMENT. Elsevier BV, AMSTERDAM,  NETHERLANDS, 670: 78-86, (2019).

Tags: consumer-products, engineered-nanoparticles, exposure, speciation, transfomation, xafs, zinc-oxide
Organization: U.S. Environmental Protection Agency
Silica disrupts iron homeostasis in alveolar macrophages to impact a biological effect

Cell investigation into mechanism of particle-related biological effect. 

This dataset is associated with the following publication:
Ghio, A., J. Soukup, J. Stonehuerner , H. Tong, J. Richards, M. Gilmour, M. Madden, Z. Shen, and S.P. Kantrow. Quartz disrupts iron homeostasis in alveolar macrophages to impact a pro-inflammatory effect.   CHEMICAL RESEARCH IN TOXICOLOGY. American Chemical Society, Washington, DC, USA, 32(9): 1737-1747, (2019).

Tags: particulate-matter-pm
Organization: U.S. Environmental Protection Agency
ToxCast bioactivity data and model predictions for the ER and AR pathways for p,p'-DDD and analogues

ToxCast bioactivity data and model predictions for the estrogen receptor (ER) and androgen receptor (AR) pathways were obtained from the inks provided. 

This dataset is associated with the following publication:
Lizarraga, L., J. Dean, J. Kaiser, S. Wesselkamper, J. Lambert, and J. Zhao. A Case Study on the Application of An Expert-driven Read-Across Approach in Support of Quantitative Risk Assessment of p,p’-Dichlorodiphenyldichloroethane.   REGULATORY TOXICOLOGY AND PHARMACOLOGY. Elsevier Science Ltd, New York, NY, USA, 103: 301-313, (2019).

Tags: in-vitro-high-throughput-screening, quantitative-risk-assessment, read-across, toxicokinetics
Organization: U.S. Environmental Protection Agency
Datasets in Gene Expression Omnibus used in the study ORD-022075: Chemical Activation of the Constitutive Activated Receptor (CAR) Leads to Activation of Oxidant-Induced Nrf2

Gene Expression Omnibus (GEO) accession numbers of studies used in the analysis. 

This dataset is associated with the following publication:
Rooney, J., K. Oshida, R. Kumar, W. Baldwin, and C. Corton. Chemical Activation of the Constitutive Androstane Receptor Leads to Activation of Oxidant-Induced Nrf2.   TOXICOLOGICAL SCIENCES. Society of Toxicology, RESTON, VA,  167(1): 172-189, (2019).

Tags: aryl-hydrocarbon-receptor, constitutive-activated-receptor-car, gene-expression-omnibus-accession-numbers, liver, microarray, oxidative-stress, peroxisome-proliferator-activated-receptor-alpha
Organization: U.S. Environmental Protection Agency
ToxCast bioactivity data for p,p'-DDD and analogues

Bioactivity data for p,p'-DDD and analogues from ToxCast assays conducted in liver cells were sourced from the EPA’s CompTox Chemistry Dashboard. The links also provide access to the ToxCast assay information and annotation data user guide. 

This dataset is associated with the following publication:
Lizarraga, L., J. Dean, J. Kaiser, S. Wesselkamper, J. Lambert, and J. Zhao. A Case Study on the Application of An Expert-driven Read-Across Approach in Support of Quantitative Risk Assessment of p,p’-Dichlorodiphenyldichloroethane.   REGULATORY TOXICOLOGY AND PHARMACOLOGY. Elsevier Science Ltd, New York, NY, USA, 103: 301-313, (2019).

Tags: in-vitro-high-throughput-screening, quantitative-risk-assessment, read-across, toxicokinetics
Organization: U.S. Environmental Protection Agency
Analogue search results for p,p'-DDD

The dataset contains the outputs for the analogue searches conducted for the chemical of interest, p,p'-DDD. 

This dataset is associated with the following publication:
Lizarraga, L., J. Dean, J. Kaiser, S. Wesselkamper, J. Lambert, and J. Zhao. A Case Study on the Application of An Expert-driven Read-Across Approach in Support of Quantitative Risk Assessment of p,p’-Dichlorodiphenyldichloroethane.   REGULATORY TOXICOLOGY AND PHARMACOLOGY. Elsevier Science Ltd, New York, NY, USA, 103: 301-313, (2019).

Tags: in-vitro-high-throughput-screening, quantitative-risk-assessment, read-across, toxicokinetics
Organization: U.S. Environmental Protection Agency
Exposure-response arrays for noncancer and cancer endpoints for p,p'-DDD and analogues

Data for the exposure-response arrays comparing effect levels for non-cancer and cancer endpoints for p,p'-DDD and analogues were sourced from the links provided. 

This dataset is associated with the following publication:
Lizarraga, L., J. Dean, J. Kaiser, S. Wesselkamper, J. Lambert, and J. Zhao. A Case Study on the Application of An Expert-driven Read-Across Approach in Support of Quantitative Risk Assessment of p,p’-Dichlorodiphenyldichloroethane.   REGULATORY TOXICOLOGY AND PHARMACOLOGY. Elsevier Science Ltd, New York, NY, USA, 103: 301-313, (2019).

Tags: in-vitro-high-throughput-screening, quantitative-risk-assessment, read-across, toxicokinetics
Organization: U.S. Environmental Protection Agency
Data used in multi-media lead (Pb) meta-analyses.

These data were extracted from published literature reporting lead (Pb) concentrations in multiple environmental media (soil, dust, air, water, and food) in the United States from 1996-2016. These data were used in research synthesis efforts. 

This dataset is associated with the following publication:
Frank, J., A. Poulakos, R. Tornero-Velez, and J. Xue. Systematic review and meta-analyses of lead (Pb) concentrations in environmental media (soil, dust, water, food, and air) reported in the United States from 1996 to 2016.   SCIENCE OF THE TOTAL ENVIRONMENT. Elsevier BV, AMSTERDAM,  NETHERLANDS, 694: 133489, (2019).

Tags: childrens-environmental-health, heavy-metals, meta-analysis, multimeda-exposure-assessment, random-effects-model-lead-pb, systematic-review
Organization: U.S. Environmental Protection Agency