AndreaBozzo/ceres-open-data-index huggingface dataset:
Small Footprint Solar/Wind-powered CASTNET System Dataset

In this Research Effort “Small Footprint Solar/Wind-Powered CASTNET System” there are two data sets. One data set contains  atmospheric  concentration measurements,  at the standard CASTNET site at Cowetta, NC (COW005)  and the special CASTNET  site at Screwdriver Knob, Cowetta, NC (COW137);  the other data set contains test data used to evaluate the small footprint monitoring systems  operating  conditions/limits.  The measurement parameters for the atmospheric concentrations are: Site ID,   Year, Dates , SO2 ug/m3, SO4= ug/m3, HNO3 ug/m3, NO3- ug/m3, NH4+ ug/m3, Total NO3- ug/m3,  Ca++ ug/m3,  K+ ug/m3, Mg++ ug/m3, Na+ ug/m3, Cl- ug/m3.  The test data set contains the Site ID, the Date and Time,  Battery Voltage (Volts), Flow Rate (lpn), Temp (C), Solar Output (watts), and Wind Output (watts). 

This dataset is associated with the following publication:
Baumgardner, R., C. Rogers, M. Puchalski, J. Walker, T. Lavery, and K. Mishole. Small Footprint Solar/Wind Powered CASTNET System. U.S. Environmental Protection Agency, Washington, DC, USA, 2017.

Tags: acidic-deposition, and-wind-output-watts, battery-voltage-volts, ca-ug-m3, cl-ug-m3-the-test-data-set-contains-the-site-id, dates, flow-rate-lpn, hno3-ug-m3, k-ug-m3, mg-ug-m3, na-ug-m3, nh4-ug-m3, nitrogen-pollutants, no3-ug-m3, secondary-standard, so2-ug-m3, so4-ug-m3, solar-output-watts, solar-wind-powered, sulfur-polluants, temp-c, the-date-and-time, the-measurement-parameters-for-the-atmospheric-concentrations-are-site-id, total-no3-ug-m3, year
Organization: U.S. Environmental Protection Agency
Drinking Water Earthquake Resilience Paper Data

Data for the 9 figures contained in the paper, A SOFTWARE FRAMEWORK FOR ASSESSING THE RESILIENCE OF DRINKING WATER SYSTEMS TO DISASTERS WITH AN EXAMPLE EARTHQUAKE CASE STUDY. 

This dataset is associated with the following publication:
Klise, K., M. Bynum, D. Moriarty, and R. Murray. A SOFTWARE FRAMEWORK FOR ASSESSING THE RESILIENCE OF DRINKING WATER SYSTEMS TO DISASTERS WITH AN EXAMPLE EARTHQUAKE CASE STUDY.   ENVIRONMENTAL MODELLING & SOFTWARE. Elsevier Science, New York, NY,   95: 420-431, (2017).

Tags: disasters, drinking-water, earthquake, epanet, hydraulics, modeling, resilience, systems-modeling, water-quality, water-security
Organization: U.S. Environmental Protection Agency
Newton SSANTA Dr Water using POU filters dataset

This dataset contains information about all the features extracted from the raw data files, the formulas that were assigned to some of these features, and the candidate compounds that correspond to those formulas.  Data sources, bioactivity, exposure estimates, functional uses, and predicted and observed retention times are available for all candidate compounds. 

This dataset is associated with the following publication:
Newton, S., R. McMahen, J. Sobus, K. Mansouri, A. Williams, A. McEachran, and M. Strynar. Suspect Screening and Non-Targeted Analysis of Drinking Water Using Point-Of-Use Filters.   ENVIRONMENTAL POLLUTION. Elsevier Science Ltd, New York, NY, USA, 234: 297-306, (2018).

Tags: candidate-compounds, database-match, drinking-water, molecular-feature, non-targeted-analysis, per-and-polyfluorinated, suspect-screening, time-of-flight-mass-spectrometry
Organization: U.S. Environmental Protection Agency
The Acute Toxicity of Major Ion Salts to Ceriodaphnia dubia. III. Mathematical models for mixture toxicity

This dataset concerns the development of models for describing the acute toxicity of major ions to Ceriodaphnia dubia using data from single salt tests and binary mixture tests described in two other datasets under this research effort.  It provides the data used in model development in the associated journal article.  It also provides concentration-response data and associated general chemistry conditions for 3 experiments consisting of 14 toxicity tests on more complex mixtures of major ions based on data regarding elevated major ions in effluents and receiving waters, which was used for testing the models. . 

This dataset is associated with the following publication:
Erickson, R., D. Mount, T. Highland, R. Hockett, D. Hoff, T. Norberg-King, and K.  Peterson. The acute toxicity of major ion salts to Ceriodaphnia dubia: III.  Mathematical models for mixture toxicity.   ENVIRONMENTAL TOXICOLOGY AND CHEMISTRY. Society of Environmental Toxicology and Chemistry, Pensacola, FL, USA,  1-13, (2017).

Tags: acute-toxicity, ceriodaphnia-dubia, complex-mixtures, freshwater, major-ion-toxicity, modeling
Organization: U.S. Environmental Protection Agency
Enterovirus species and serotype distributions in monthly municipal wastewater samples

This dataset contains the enterovirus genome copies measured per liter of sample and read counts obtained from amplicon sequencing of the VP1 and VP4 genes. 

This dataset is associated with the following publication:
Brinkman , N., S. Fout , and S. Keely. Retrospective Surveillance of Wastewater To Examine Seasonal Dynamics of Enterovirus Infections.   mSphere. American Society for Microbiology, Washington, DC, USA, 2(3): e00099-17, (2017).

Tags: enteric-virus, enterovirus, high-throughput-sequencing, wastewater-surveillance
Organization: U.S. Environmental Protection Agency
Experimental data obtained by the characterization and leaching of industrially lead contaminated soil projected to the stored in a repository.

The data set contains the elemental composition, pH, and surface area, TOC, IC and bulk density of the soils to be deposited in a repository. Additionally, contains the leaching results of the TCLP, SPLP, and a Controlled Acidity Leaching Protocol and the results of the sequential extraction performed with such soils. 

This dataset is associated with the following publication:
Pinto, P., and S. Al-Abed. Assessing Metal Mobilization from Industrially Lead-Contaminated Soils Located at an Urban Site.  W. Berry Lyons, Christopher B. Gardner, and David T. Long  APPLIED GEOCHEMISTRY. Elsevier Science Ltd, New York, NY, USA, 83: 31-40, (2017).

Tags: arsenic, industrial-soil, lead, metal-leaching, soil-remediation
Organization: U.S. Environmental Protection Agency
Porous nitrogen-enriched carbonaceous material from marine waste: chitosan-derived layered CNX catalyst for aerial oxidation of 5-hydroxymethylfurfural (HMF) to 2,5-furandicarboxylic acid

Chitosan-derived, porous and layered nitrogen-enriched carbonaceous CNx catalyst (PLCNx) has been synthesized from marine waste and its use demonstrated in a metal-free heterogeneous selective oxidation of 5-hydroxymethyl-furfural (HMF) to 2,5-furandicarboxylic acid (FDCA) using aerial oxygen under mild reaction conditions. 

This dataset is associated with the following publication:
Varma, R., M. Nadagouda, and S. Verma. Porous nitrogen-enriched carbonaceous material from marine waste: chitosan-derived layered CNX catalyst for aerial oxidation of 5-hydroxymethylfurfural (HMF) to 2,5-furandicarboxylic acid.   Scientific Reports. Nature Publishing Group, London,  UK, 7(13596): 1-6, (2017).

Tags: 5-hydroxymethylfurfural-hmf, aerial-oxidation, chitosan-derived-layered-cnx-catalyst, furandicarboxylic-acid, marine-waste, porous-nitrogen-enriched-carbonaceous-material
Organization: U.S. Environmental Protection Agency
Measuring and modeling surface sorption dynamics of organophosphate flame retardants on impervious surfaces

The data presented in this data file is a product of a journal publication. The dataset contains measured and model predicted OPFRs gas-phase and surface-phase concentrations in small and micro chambers. 

This dataset is associated with the following publication:
Liang, Y., X. Liu, and M. Allen. Measuring and Modeling Surface Sorption Dynamics of  Organophosphate Flame Retardants in Chambers.   CHEMOSPHERE. Elsevier Science Ltd, New York, NY, USA, 193: 754-762, (2018).

Tags: chamber-testing, fate-and-transport-model, freundlich-isotherm, langmuir-isotherm, organophosphate-flame-retardants-opfrs, sink-effect, surface-adsorption, surface-sorption, svocs
Organization: U.S. Environmental Protection Agency
Cardiopulmonary changes in humans with coronary artery disease associated with exposure to ambient concentrations of ozone.

The dataset contains a list of cardiac and vascular biomarkers that were obtained on each day a participant visited the EPA Human Studies Facility.  It also contains ozone concentrations on those days, which are publicly available on the EPA AirNow website. This dataset is not publicly accessible because: The dataset pertains to human research. It can be accessed through the following means: Requests to access data should be sent to Robert Devlin at devlin.robert@epa.gov. Format: The metadata are in the form of spreadsheets with health endpoints listed in columns and each human participant listed as a row.
Similar spreadsheets contain exposure information in columns and participants in rows. 

This dataset is associated with the following publication:
Mirowsky, J., M. Carraway, R. Dhingra, H. Tong, L. Neas, D. Diaz-Sanchez, W. Cascio, M. Case, J. Crooks, E. Hauser, E. Dowdy, W. Krause, and R. Devlin. Ozone exposure is associated with acute changes in inflammation, fibrinolysis, and endothelial cell function in coronary artery disease patients.   ENVIRONMENTAL HEALTH. Academic Press Incorporated, Orlando, FL, USA, 16: 126, (2017).

Tags: air-pollution, cardiovascular, epidemiology, heart-disease, ozone-concentrations
Organization: U.S. Environmental Protection Agency
Oregon Tidal Wetland vegetation and edaphic data 2010 - 2012

Data includes edaphic and vegetation field data from four Oregon tidal wetlands. National Wetlands Inventory (NWI) classification: low marsh, high marsh, and palustrine tidal marsh are included for each of the sites as a means of comparing parameters between the NWI classes and actual field data. Vegetation data include number and types of plant assemblages, non-native plant cover, and species richness. Edaphic data include pore water salinity,  sediment carbon and nitrogen content, grain size and marsh surface elevation. 

This dataset is associated with the following publication:
Janousek, C.N., and C. Folger. Does National Wetland Inventory class consistently identify vegetation and edaphic differences in Oregon tidal wetlands?.   Wetlands Ecology and Management. Springer Science and Business Media B.V;Formerly Kluwer Academic Publishers B.V.,   GERMANY, 26(3): 315-329, (2018).

Tags: ecosystem-indicators, emergent-marsh, national-wetlands-inventory, plant-composition, sediment-carbon, wetland-classification
Organization: U.S. Environmental Protection Agency
Data for human cell spheroid model of embryonic tissue fusion in vitro.

Epithelial-mesenchymal interactions drive embryonic fusion events during development and upon perturbation can result in birth defects. Cleft palate and neural tube defects can result from genetic defects or environmental exposures during development, yet very little is known about the effect of chemical exposures on fusion defects in humans because of the lack of relevant and robust human in vitro assays of developmental fusion behavior. Given the etiology and prevalence of cleft palate and the relatively simple architecture and composition of the embryonic palate, we sought to develop a three-dimensional culture system that could be used to study fusion behavior in vitro using human cells. We engineered human Wharton’s Jelly stromal cell (HWJSC) spheroids of defined size and established that 7 days of culture in osteogenesis differentiation medium was sufficient to promote an osteogenic phenotype consistent with embryonic palatal mesenchyme. HWJSC spheroids supported the attachment of human epidermal keratinocyte progenitor cells on the outer spheroid surface likely through deposition of collagens I and IV, fibronectin, and laminin, and co-cultured spheroids exhibited fusion behavior that was dependent on epidermal growth factor signaling and fibroblast growth factor signaling in agreement with palate fusion literature. The method described here may broadly apply to the generation of three-dimensional epithelial-mesenchymal co-cultures to study developmental fusion events in a format that is amenable to predictive toxicology applications. 

This dataset is associated with the following publication:
Belair, D., C. Wolf, C. Wood, H. Ren, R. Grindstaff, W. Padgett, A. Swank, D. MacMillan, A. Fisher, W. Winnik, and B. Abbott. Engineering human cell spheroids to model embryonic tissue fusion in vitro..   PLoS ONE. Public Library of Science, San Francisco, CA, USA,  N/A, (2017).

Tags: 2d-dige, alkaline-phosphatase, cell-spheroids, confocal-microscopy, epithelial-cells, morphogenetic-fusion, osteogenesis, palate-fusion, qrt-pcr, rnaseq, stromal-cells
Organization: U.S. Environmental Protection Agency
Occurrence and in vitro bioactivity of estrogen, androgen, and glucocorticoid compounds in a nationwide screen of United States stream waters

In vitro bioactivity concentrations and chemical concentrations of estrogens, androgens, and glucocorticoids from a nationwide screen of United States stream water samples.  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:
Conley, J., N. Evans, M. Cardon, L. Rosenblum, L. Iwanowicz, P. Hartig, K. Schenck, P. Bradley, and V. Wilson. Occurrence and in vitro bioactivity of estrogen, androgen, and glucocorticoid compounds in a nationwide screen of United States stream waters.   ENVIRONMENTAL SCIENCE & TECHNOLOGY. American Chemical Society, Washington, DC, USA,  4781-4791, (2017).

Tags: androgen, bioassay, effect-based-analysis, endocrine-disruption, estrogen, glucocorticoid, in-vitro-biomonitoring, in-vitro-screening, multiple-stressors, surface-water, water-quality
Organization: U.S. Environmental Protection Agency
Quantitative Adverse Outcome Pathway for Neurodevelopmental Effects of Thyroid Peroxidase-Induced Thyroid Hormone Synthesis Inhibition

Adequate levels of thyroid hormones (TH) are needed for proper brain development, deficiencies may lead to adverse neurological outcomes in humans and animal models. Environmental chemicals have been linked to TH disruption, yet the relationship between developmental exposures and decline in serum TH resulting in neurodevelopmental impairment is poorly understood. The present study developed a quantitative adverse outcome pathway (qAOP) where serum thyroxin (T4) reduction following inhibition of thyroperoxidase in the thyroid gland are described and related to deficits in fetal brain TH and the development of a brain malformation, subcortical band heterotopia. Pregnant dams were exposed to 6-propylthiouracil (PTU  0, 0.1, 0.5, 1, 2, or 3 ppm) from gestational day 6-20, increasing PTU concentrations in maternal thyroid gland and serum as well as in fetal serum. Dams exposed to 0.5 ppm PTU and higher exhibited dose-dependent decreases in thyroidal T4. Serum T4 levels in the dam were significantly decreased with exposure to 2 and 3 ppm PTU. In the fetus, T4 decrements were first observed at a lower dose of 0.5 ppm PTU. Based on these data, fetal brain T4 levels were estimated from published literature sources, and quantitatively linked to increases in the size of the heterotopia present in the brains of offspring. These data show the potential of in vivo assessments and computational descriptions of biological responses to predict the development of this structural brain malformation and use of qAOP approach to evaluate brain deficits that may result from exposure to other TH disruptors. 

This dataset is associated with the following publication:
Hassan, I., H. El-Masri, P. Kosian, J. Ford, S. Degitz, and M. Gilbert. Neurodevelopment and Thyroid Hormone Synthesis Inhibition in the Rat: Quantitative Understanding Within the Adverse Outcome Pathway Framework.   TOXICOLOGICAL SCIENCES. Society of Toxicology,     57-73, (2017).

Tags: aops, brain-development, developmental-hypothyroidism, thyroid-hormone, thyroperoxidase
Organization: U.S. Environmental Protection Agency
Impaired swim bladder inflation in early-life stage fathead minnows exposed to a deiodinase inhibitor, iopanoic acid

The present study investigated whether inhibition of deiodinase, the enzyme which converts thyroxine (T4) to the more biologically-active form, 3,5,3'-triiodothyronine (T3), would impact inflation of the posterior and/or anterior chamber of the swim bladder, processes previously demonstrated to be thyroid-hormone regulated.  Two experiments were conducted using a model deiodinase inhibitor, iopanoic acid (IOP). In the first study, fathead minnow (Pimephales promelas) embryos were exposed to 0.6, 1.9, or 6.0 mg IOP/L or control water in a flow-through system until reaching 6 days post-fertilization (dpf) at which time posterior swim bladder inflation was assessed.  To examine effects on anterior swim bladder inflation, a second study was conducted with 6 dpf larvae exposed to the same IOP concentrations until reaching 21 dpf.  Fish from both studies were sampled for T4/T3 measurements, gene transcription analyses, and thyroid histopathology.  In the embryo study, incidence and length of inflated posterior swim bladders were significantly reduced in the 6.0 mg/L treatment at 6 dpf.  Incidence of inflation and length of anterior swim bladder in larval fish were significantly reduced in all IOP treatments at 14 dpf, but inflation recovered by 18 dpf.  Throughout the larval study, whole body T4 concentrations were significantly increased and T3 concentrations were significantly decreased in all IOP treatments.  Consistent with hypothesized compensatory responses, significant up-regulation of deiodinase-2 mRNA was observed in the larval study, and down-regulation of thyroperoxidase mRNA was observed in all IOP treatments in both studies.  Taken together, these results support the hypothesized adverse outcome pathways linking inhibition of deiodinase activity to impaired swim bladder inflation. 

This dataset is associated with the following publication:
Cavallin, J., G. Ankley, B. Blackwell, C. Blanksma, K. Fay, K. Jensen, M. Kahl, D. Knapen, P. Kosian, S. Poole, E. Randolph, A. Schroeder, L. Vergauwen, and D. Villeneuve. Impaired swim bladder inflation in early-life stage fathead minnows exposed to a deiodinase inhibitor, iopanoic acid (article).   ENVIRONMENTAL TOXICOLOGY AND CHEMISTRY. Society of Environmental Toxicology and Chemistry, Pensacola, FL, USA, 36(11): 2942-2952, (2017).

Tags: adverse-outcome-pathway, aquatic-ecosystems, ecotoxicology, endocrine-disruption, fish-early-lifestage, screening-and-prioritization, thyroid
Organization: U.S. Environmental Protection Agency
A DEVICE THAT ALLOWS RODENTS TO BEHAVIORALLY THERMOREGULATE WHEN HOUSED IN VIVARIUMS  - DATA

Laboratories and vivariums are maintained at ambient temperatures (Ta) of 20-24 ⁰C and it is widely accepted that mice maintained under these conditions are cold stressed. When mice are inactive and sleeping in the daytime, their zone of thermoneutrality associated with a basal metabolic rate is 30-32 ⁰C. If given a choice, mice will use thermoregulatory behavior to seek out thermoneutral temperatures during the daytime. The cold stress of a vivarium can be problematic to researchers requiring an animal model that is not stressed metabolically. However, it may not be practical or economically feasible to maintain an animal vivarium at thermoneutral temperatures. One problem with raising the Ta of a vivarium is that personnel wearing protective equipment will be subject to considerable heat stress. In this paper, we present plans for the construction and operation of a device that allows mice to utilize a refuge with a heated floor maintained at an approximate thermoneutral temperatures (30-32 ⁰C). The device is made of inexpensive, readily available materials and utilizes a disposable hand warmer (HotHands®) as a heat source. One hand warmer provides a thermoneutral environment for approximately 12 hours. This device is easily adapted to a standard mouse or rat cage and requires brief maintenance each day to change the heating pad.  With this device in a standard cage, mice can select an environment associated with thermoneutral conditions during the daytime when inactive and sleeping. At night, the mice are more active, have a higher metabolic rate, and prefer cooler Ta’s. Egress from the warmed plate allows mice to seek cooler Ta’s at night. 

This dataset is associated with the following publication:
Gordon, C., E. Puckett, E. Repasky, and A. Johnstone. A DEVICE THAT ALLOWS RODENTS TO BEHAVIORALLY THERMOREGULATE WHEN HOUSED IN VIVARIUMS.   COMPARATIVE MEDICINE. American Association for Laboratory Animal Science, Memphis, TN, USA,  173-176, (2017).

Tags: behavioral-thermoregulation, cold-stress, mouse, thermoneutral
Organization: U.S. Environmental Protection Agency
ACTIVE VERSUS SEDENTARY LIFESTYLE FROM WEANING TO ADULTHOOD AND SUSCEPTIBILITY TO OZONE IN RATS

The prevalence of a sedentary (SED) life style combined with calorically rich diets has spurred the rise in childhood obesity which, in turn, translates to adverse health effects in adulthood. Obesity and lack of active (ACT) lifestyle may increase susceptibility to air pollutants. We housed 22 day-old female Long-Evans rats in a cage without (SED) or with a running wheel (ACT). After 10 weeks the rats ran 310 ± 16.3 km (SEM).  Responses of SED and ACT rats to whole-body O3 (0, 0.25, 0.5, or 1.0 ppm; 5 hr/day for 2 days) was assessed. Glucose tolerance (GTT) was performed following the first day of O3. ACT rats had less body fat and an improved glucose tolerance (GTT).  Ventilatory function (plethysmography) of SED and ACT groups was similarly impaired by O3. Bronchoalveolar lavage fluid (BALF) was collected after the second O3 exposure. SED and ACT rats were hyperglycemic following 1.0 ppm O3.  GTT was impaired by O3 in both groups; however, ACT rats exhibited improved recovery to 0.25 and 1.0 ppm O3. BALF cell neutrophils and total cells were similarly increased in ACT and SED groups exposed to 1.0 ppm O3. O3-induced increase in eosinophils was exacerbated in SED rats. Chronic exercise from post-weaning to adulthood improved some of the metabolic and pulmonary responses to O3 (GTT and eosinophils) but several other parameters were unaffected. The reduction in O3-induced rise in BALF eosinophils in ACT rats suggests a possible link between a SED lifestyle and incidence of asthma-related symptoms from O3.  . 

This dataset is associated with the following publication:
Gordon, C., P. Phillips, A. Ledbetter, S. Snow, M. Schladweiler, A. Johnstone, and U. Kodavanti. ACTIVE VS. SEDENTARY LIFESTYLE FROM WEANING TO ADULTHOOD AND SUSCEPTIBILITY TO OZONE IN RATS.   INHALATION TOXICOLOGY. Informa Healthcare USA, New York, NY, USA,  L100-L109, (2017).

Tags: childhood, childrens-environmental-health, exercise, obesity, ozone
Organization: U.S. Environmental Protection Agency