AndreaBozzo/ceres-open-data-index huggingface dataset:
Effects of an Environmentally-relevant Mixture of Pyrethroid Insecticides on Spontaneous Activity in Primary Cortical Networks on Microelectrode Arrays

This manuscript tests the hypothesis of dose additivity of an environmental mixture of pyrethriod insecticides at the level of network function, in vitro. The results demonstrate that permethrin, deltamethrin, esfenvalerate, cypermethrin and beta-cyfluthrin all change the activity of networks as measured by microelectrode arrays, and that the effects of an environmental-relevant mixture of these 5 compounds can be predicted based on a dose-additivity model.
These results are consistent with results from in vivo experiments that examined motor activity. This study supports the Office of Pesticides decision to regulate mixtures of pyrethroids based on dose additivity. 

This dataset is associated with the following publication:
Johnstone , A., J. Strickland, K. Crofton , C. Gennings, and T. Shafer. Effects of an Environmentally-relevant Mixture of Pyrethroid Insecticides on Spontaneous Activity in Primary Cortical Networks on Microelectrode Arrays.   NEUROTOXICOLOGY. Elsevier B.V., Amsterdam,  NETHERLANDS, 60(16): 234-239, (2017).

Tags: dose-additivity, in-vitro, microelectrode-array, mixtures, neurotoxicity, pyrethroids
Organization: U.S. Environmental Protection Agency
Figure 4, Cropland Reallocation

This is a netCDF formatted data file.  All data values are reported as grid cell area percent (%).  Since all simulation grid cells are of uniform area.  Reallocation in terms of hectares can be computed as (variable _value*14400).  Data values may be displayed spatially using any number of viewers including VERDI which is open source software that can be downloaded free of charge from http://www.cmascenter.com.
Each data file contains 29 data layers for each of 30 reallocation variables (crops).  We assume there is no irrigated CRP land area (variable 30).  Each variable value represents the simulation grid cell area that is reallocated from one crop (data layer) to that variable. 

This dataset is associated with the following publication:
Cooter, E., R. Dodder, J. Bash, A. Elobeid, L. Ran, V. Benson, and D. Yuan. Exploring a United States Maize Cellulose Biofuel Scenario Using an Integrated Energy and Agricultural Markets Solution Approach.   Annals of Agricultural & Crop Sciences. Austin Publishing Group, Jersey City, NJ, USA, 2(2): 1031, (2017).

Tags: air-quality, cmaq, epic, hypoxia, integrated-multimedia-systems-modeling, land-quality, markal, mississippi-river-basin, national, northern-gulf-of-mexico, scenarios, water-quality
Organization: U.S. Environmental Protection Agency
Cali2014data

meteorology from onsite sonic at Woodside and distributions of observed concentrations from GMAP mobile monitoring at Woodside. 

This dataset is associated with the following publication:
Isakov, V., A. Venkatram, R. Baldauf, P. Deshmukh, and M. Zhang. Evaluation and development of tools to quantify the impacts of roadside vegetation barriers on near-road air quality..   INTERNATIONAL JOURNAL OF ENVIRONMENT AND POLLUTION. Inderscience Enterprises Limited, Geneva,  SWITZERLAND, 62(2): 127-135, (2017).

Tags: barriers, dispersion, mobile-monitoring, models, roadways, vegetation
Organization: U.S. Environmental Protection Agency
Data for Barron et al. "Photoenhanced toxicity of weathered crude oil in sediment and water to larval zebrafish" submitted to the Bulletin of Environmental Contamination and Toxicology

The dataset contains fish mortality associated with various treatment of oil and dispersants in water accommodated fractions and sediment. The dataset also contains analytical chemistry associated with each experimental treatment. 

This dataset is associated with the following publications:
Barron, M. Photoenhanced Toxicity of Petroleum to Aquatic Invertebrates and Fish.   ARCHIVES OF ENVIRONMENTAL CONTAMINATION AND TOXICOLOGY. Springer, New York, NY, USA, 73(1): 40-46, (2017).
Barron, M., J. Kryzwa, C. Lilavois, and S. Raimondo. Photoenhanced toxicity of weathered crude oil in sediment and water to larval zebrafish.   BULLETIN OF ENVIRONMENTAL CONTAMINATION AND TOXICOLOGY. Springer, New York, NY, USA, 100(1): 49-53, (2018).

Tags: dispersants, mortality, oil, phototenhanced-toxicity, zebrafish
Organization: U.S. Environmental Protection Agency
Size-selective performance evaluation of candidate aerosol inlets using polydisperse aerosols

Presented are detailed techniques for the generation, collection, and analysis of polydisperse calibration aerosols for wind tunnel evaluation of size-selective aerosol samplers. 

This dataset is associated with the following publication:
Dart, A., J. Krug, C. Witherspoon, J. Gilberry, Q. Malloy, S. Kaushik, and R. Vanderpool. Development of polydisperse aerosol generation and measurement procedures for wind tunnel evaluation of size-selective aerosol samplers.   AEROSOL SCIENCE AND TECHNOLOGY. Taylor & Francis, Inc., Philadelphia, PA, USA, 52(9): 957-970, (2018).

Tags: aerosol, particulate, polydisperse, samplers, sampling, wind-tunnel
Organization: U.S. Environmental Protection Agency
Eastern Redcedar Seedling Assessment

Eastern redcedar tree seedling growth in response to various soil, nitrogen, and photosynthetic radiation characteristics. 

This dataset is associated with the following publication:
Ganguli, A., D. Engle, P. Mayer , and L. Salo. Influence of resource availability on Juniperus virginiana expansion in a forest–prairie ecotone.   Ecosphere. ESA Journals,    7(8): e01433, (2016).

Tags: cross-timbers, cross-timbers-eastern-redcedar-invasion-seedlings-soil-texture-tallgrass-prairie-upland-oak-for, eastern-redcedar, invasion, seedlings, soil-texture, tallgrass-prairie, upland-oak-forest
Organization: U.S. Environmental Protection Agency
Adverse outcome pathway

cell culture information with toxicity and proteomic changes. 

This dataset is associated with the following publication:
VanEmon, J., P. Pan, and F. Van Breukelen. Effects of chlorpyrifos and trichloropyridinol on HEK 293 human embryonic kidney cells.   CHEMOSPHERE. Elsevier Science Ltd, New York, NY, USA, 191: 537-547, (2018).

Tags: adverse-outcome-pathway, apoptosis, biomarker-of-exposure, chlorpyrifos, cpf, human-embryonic-kidney-cells, interleukin, tcp
Organization: U.S. Environmental Protection Agency
Mutagenic atmospheres resulting from the photooxidation of aromatic hydrocarbon and NOx mixtures

Although many volatile organic compounds (VOCs) are regulated to limit air pollution and the consequent health effects, the photooxidation products generally are not. Thus, we examined the mutagenicity in Salmonella TA100 of photochemical atmospheres generated in a steady-state atmospheric simulation chamber by irradiating mixtures of single aromatic VOCs, NOx, and ammonium sulfate seed aerosol in air. The 10 VOCs examined were benzene; toluene; ethylbenzene; o-, m-, and p-xylene; 1,2,4- and 1,3,5-trimethylbenzene; m-cresol; and naphthalene. Salmonella were exposed at the air-agar interface to the generated atmospheres for 1, 2, 4, 8, or 16 h. Dark-control exposures produced non-mutagenic atmospheres, illustrating that the gas-phase precursor VOCs were not mutagenic at the concentrations tested. Under irradiation, all but m-cresol and naphthalene produced mutagenic atmospheres, with potencies ranging from 2.0 (p-xylene) to 10.4 (ethylbenzene) revertants m3 mgC-1 h-1. The mutagenicity was due exclusively to direct-acting late-generation products of the photooxidation reactions. Gas-phase chemical analysis showed that a number of oxidized organic chemical species enhanced during the irradiated exposure experiments correlated (r ≥ 0.81) with the mutagenic potencies of the atmospheres. Molecular formulas assigned to these species indicated that they likely contained peroxy acid, aldehyde, alcohol, and other functionalities. 

This dataset is associated with the following publication:
Riedel, T., D. DeMarini, S. Warren, E. Corse, J. Offenberg, T. Kleindienst, M. Lewandowski, and J. Zavala. Mutagenic atmospheres resulting from the photooxidation of aromatic hydrocarbon and NOx mixtures.   ATMOSPHERIC ENVIRONMENT. Elsevier Science Ltd, New York, NY, USA, 178: 164-172, (2018).

Tags: air-quality, air-toxics, aromatic-compounds, mutagenicity, ozone, salmonella-ta100, secondary-organic-aerosol
Organization: U.S. Environmental Protection Agency
data for aromatase 3D qsar modeling

computational chemistry data (very complex; need to be an expert to understand and use. 

This dataset is associated with the following publication:
Lee, S., and M. Barron. 3D-QSAR Study of Steroidal and Azaheterocyclic Human Aromatase Inhibitors using Quantitative Profile of Protein-Ligand Interactions.   Journal of Cheminformatics. Springer, New York, NY, USA, 10(2): 1-13, (2018).

Tags: 3d-qsar, adverse-outcome-pathway, aromatase-inhibitor, azaheterocycle, dual-descriptor, hydrophobic-contact, nitrogen-heme-iron-coordination, steroid
Organization: U.S. Environmental Protection Agency
EPA Nanorelease Dataset

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).

Tags: carbon-nanotubes, inter-laboratory-comparision, lab-prototcol, mwcnt
Organization: U.S. Environmental Protection Agency
Manitowoc R UVDOC data 2011

Manitowoc R UVDOC data 2011. 

This dataset is associated with the following publication:
Williamson, C., S. Madronich, A. Lal, R. Zepp, R. Lucas, E. Overholt, K. Rose, S.G. Schladow, and J. Lee-Taylor. Altmetric: 165More detail
Article | OPEN

Climate change-induced increases in precipitation are reducing the potential for solar ultraviolet radiation to inactivate pathogens in surface waters.   Scientific Reports. Nature Publishing Group, London,  UK, 7: 13033, (2017).

Tags: climate-change, lake-michigan, pathogens, surface-waters, waterborne-pathogens
Organization: U.S. Environmental Protection Agency
Data for Suspect Screening and Non-Targeted Analysis of Drinking Water Using Point-Of-Use Filters

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: drinking-water, exposome, high-resolution-mass-spectrometry, non-target-analysis, suspect-screening
Organization: U.S. Environmental Protection Agency
Genetic Targets of Acute Toluene Inhalation in Drosophila melanogaster: DGRP activity, overlapping human orthologs, pathway analyses, GWAS results

We used the Drosophila Genetics Reference Panel (DGRP), a collection of ~200 homozygous lines of fruit flies whose genomes have been sequenced. We quantified toluene-induced suppression of motor activity in 123 lines of these flies during exposure to toluene, a volatile organic compound known to induce narcosis in mammals via its effects on neuronal ion channels. We then applied genome-wide association analyses on this effect of toluene using the DGRP web portal (http://dgrp2.gnets.ncsu.edu), which identified polymorphisms in candidate genes associated with the variation in response to toluene exposure. We tested ~2 million variants and found 82 polymorphisms located in or near 66 candidate genes that were associated with phenotypic variation for sensitivity to toluene at P < 5 x 10-5, and human orthologs for 52 of these candidate Drosophila genes. None of these orthologs are known to be involved in canonical pathways for mammalian neuronal ion channels, including GABA, glutamate, dopamine, glycine, serotonin, and voltage sensitive calcium channels. 

This dataset is associated with the following publications:
Bushnell, P., W. Ward, T. Morozova, W. Oshiro, M. Lin, R. Judson, S. Hester, J. Mckee, and M. Higuchi. Editor's Highlight: Genetic Targets of Acute Toluene Inhalation in Drosophila melanogaster.   TOXICOLOGICAL SCIENCES. Society of Toxicology,     230-239, (2017).
Tatum-Gibbs, K.R., J. Mckee , M. Higuchi , and P. Bushnell. Effects of Toluene, Acrolein and Vinyl Chloride on Motor Activity of Drosophila Melanogaster.   NEUROTOXICOLOGY AND TERATOLOGY. Elsevier Science Ltd, New York, NY, USA, 47: 114-24, (2015).

Tags: dgrp, fly-genome, fruit-fly, motor-activity, toluene, volatile-organic-compound
Organization: U.S. Environmental Protection Agency
Oxidative C-H activation of amines using protuberant lychee-like goethite

Goethite with protuberant lychee morphology has been synthesized that accomplishes C-H activation of N-methylanilines to generate α-aminonitriles; the catalyst takes oxygen from air and uses it as a co-oxidant in the process. 

This dataset is associated with the following publication:
Verma, S., R.B.N. Baig, R. Varma, and M. Nadagouda. Oxidative C-H activation of amines using protuberant lychee-like goethite.   Nature Communications. Nature Publishing Group, London,  UK, 8: 2024, (2018).

Tags: amines, aminonitriles, oxidative-c-h-activation, protuberant-lychee-like-goethite
Organization: U.S. Environmental Protection Agency
Deposition, critical loads, and exceedances for 1800-2025

This data includes gridded estimates of: (1) decadally averaged total N and S deposition for the conterminous US from 1800-2025, (2) critical loads from the National Critical Loads Database, and (3) exceedances  of critical loads from atmospheric deposition of N and/or S. 

This dataset is associated with the following publication:
Clark, C., J. Phelan, P. Doraiswamy, J. Buckley, J. Cajka, R. Dennis , J. Lynch, C. Nolte, and T. Spero. Atmospheric Deposition and Exceedances of Critical Loads from 1800-2025 for the Coterminous United States.   BULLETIN OF THE ECOLOGICAL SOCIETY OF AMERICA. Ecological Society of America, Ithaca, NY, USA,  978-1002, (2018).

Tags: acid-rain, aquatic-ecosystems, biodiversity, critical-loads, naaqs, nitrogen, nitrogen-deposition, sulfur, sulfur-deposition, terrestrial-ecosystems
Organization: U.S. Environmental Protection Agency
Concentrations of Indicator Organisms

It is a compilation of organism concentrations of 16 sampling events conducted between July 2015 and February 2016. It also includes statistical analysis such as mean, standard deviation, etc.  also, probability graphs are included. 

This dataset is associated with the following publication:
Selvakumar, A., and T. OConnor. Organism Detection in Permeable Pavement Parking Lot Infiltrates at the Edison Environmental Center, NJ.   WATER ENVIRONMENT RESEARCH. Water Environment Federation, Alexandria, VA, USA, 90(1): 21-29, (2018).

Tags: indicator-organisms, pervious-concrete, porous-asphalt, stormwater-runoff
Organization: U.S. Environmental Protection Agency
Datasets in Gene Expression Omnibus used in the study ORD-020969: Genomic effects of androstenedione and sex-specific liver cancer susceptibility in mice

Datasets in Gene Expression Omnibus used in the study ORD-020969: Genomic effects of androstenedione and sex-specific liver cancer susceptibility in mice. 

This dataset is associated with the following publication:
Rooney, J., N. Ryan, B. Chorley, S. Hester, E. Kenyon, J. Schmid, B. George, M. Hughes, Y. Sey, A. Tennant, D. MacMillan, J. Simmons, C. McQueen, A. Pandiri, C. Wood, and C. Corton. Genomic effects of androstenedione and sex-specific liver cancer susceptibility in mice.   TOXICOLOGICAL SCIENCES. Society of Toxicology,    160(1): 15–29, (2017).

Tags: androgen-receptor, androstenedione, childrens-health, estrogen-receptor, ethinyl-estradiol, gene-expression-omnibus-accession-numbers, glucococorticoid-receptor, microarray, prednisone
Organization: U.S. Environmental Protection Agency
St Francis Hydro, Soils data

We collected data 2012-2016 covering spatially-explicit, soil layering, bulk density, drainage rate (2012, 2015) infiltration into rain garden mulch and mineral soil layers; and full water cycle monitoring data. Links for the latter are given in the SDM document. 

This dataset is associated with the following publication:
Shuster, W., R. Darner, L. Schifman, and D. Herrmann. Factors contributing to the hydrologic effectiveness of a rain garden network (Cincinnati OH USA).   Infrastructures. MDPI AG, Basel,  SWITZERLAND, 2(3): 11, (2017).

Tags: bulk-density, combined-sewer-system, drainage-rate, green-infrastructure, hydrologic-monitoring, infiltration-rate, soil-layering, stormwater-detention, wastewater
Organization: U.S. Environmental Protection Agency
Methodological Details and Full Bibliography

This dataset has several components, The first part describes fully our literature review, providing details not included in the text. The second part provides all the information we used for our literature review, including the weights assigned to each relevant article and the full bibliography. 

This dataset is associated with the following publication:
DeJesus-Crespo, R., and R. Fulford. Eco-Health Linkages: Assessing the Role of Ecosystem Goods and Services on Human Health Using Causal Criteria Analysis.   International Journal of Public Health. Springer Basel AG, Basel,  SWITZERLAND, 63(1): 81-92, (2018).

Tags: causal-criteria-analysis, eco-evidence-scoring, ecosystem-goods-and-services, full-bibliography, green-space, human-health, literature-review-process
Organization: U.S. Environmental Protection Agency
Screening silver nanoparticles for potential neurotoxicity using cortical neurons grown on microelectrode arrays

the zip files contain outputs from the R-analysis for the nanosilver experiments. 

This dataset is associated with the following publication:
Strickland, J., W. LeFew, J. Crooks, D. Hall, J. Ortenzio , K. Dreher , and T. Shafer. In vitro screening of silver nanoparticles and ionic silver using neural networks yields differential effects on spontaneous activity and pharmacological responses..   TOXICOLOGY. Elsevier Science Ltd, New York, NY, USA, 355(11): 1-8, (2016).

Tags: high-throughput-screening, microelectrode-array, nanoparticle, nanosilver, neurotoxicity
Organization: U.S. Environmental Protection Agency
Factors Affecting Annual Zostera

Dataset for figures in text and supplementary materials for a manuscript describing the influence of microtopographic variation and macroalgal cover on morphometrics and survival of the annual form of eelgrass (Zostera marina). 

This dataset is associated with the following publication:
Nelson, W., and G. Sullivan. Effects of microtopographic variation and macroalgal cover on morphometrics and survival of the annual form of eelgrass (Zostera marina).   AQUATIC BOTANY. Elsevier Science Ltd, New York, NY, USA, 145: 37-44, (2018).

Tags: annual-eelgrass, annual-zostera-marina, macroalgae-impact, microtopography, recruitment, seagrass
Organization: U.S. Environmental Protection Agency
Investigation clogging dynamic of permeable pavement systems using embeded sensors

Permeable pavement is a stormwater control measure commonly selected in both new and retrofit applications. However, there is limited information about the clogging mechanism of these systems that effects the infiltration. A permeable pavement site located at the Seitz Elementary School, on Fort Riley, Kansas was selected for this study. An 80-space parking lot was built behind the school as part of an EPA collaboration with the U.S. Army. The parking lot design includes a permeable interlocking concrete pavement section along the downgradient edge. This study monitored the clogging progress of the pavement section using twelve water content reflectometers and three buried tipping bucket rain gauges. This clogging dynamic investigations was divided into three stages namely pre-clogged, transitional, and clogged. Recorded initial relative water content of all three stages were significantly and negatively correlated to antecedent dry weather periods with stronger correlations during clogged conditions. The peak relative water content correlation with peak rainfall 10-min intensity was significant for the water content reflectometers located on the western edge away from the eastern edge; this correlation was strongest during transition stage. Once clogged, rainfall measurements no longer correlated with the buried tipping bucket rain gauges. Both water content reflectometers and buried tipping bucket rain gauges showed the progress of surface clogging. For every 6mm of rain clogging advanced 1 mm across the surface. The results generally support the hypothesis that the clogging progresses from the upgradient to the downgradient edge. The magnitude of the contributing drainage area and rainfall characteristics are effective factors on rate and progression of clogging. 

This dataset is associated with the following publication:
Razzaghmanesh, M., and M. Borst. Investigation clogging dynamic of permeable pavement systems using embedded sensors.   JOURNAL OF HYDROLOGY. Elsevier Science Ltd, New York, NY, USA, 557: 887-896, (2018).

Tags: clogging, green-infrastructure, permeable-pavement, tipping-bucket-rain-gauge, water-content-reflectometer
Organization: U.S. Environmental Protection Agency
GIS dataset of candidate terrestrial ecological restoration areas for the United States

A vector GIS dataset of candidate areas for terrestrial ecological restoration based on landscape context.  The dataset was created using NLCD 2011 (www.mrlc.gov) and morphological spatial pattern analysis (MSPA) (http://forest.jrc.ec.europa.eu/download/software/guidos/mspa/).  There are 13 attributes for the polygons in the dataset, including presence and length of roads, candidate area size, size of surround contiguous natural areas, soil productivity, presence and length of road, areas suitable for wetland restoration, and others. 

This dataset is associated with the following publication:
Wickham, J., K. Riiters, P. Vogt, J. Costanza, and A. Neale. An inventory of continental U.S. terrestrial candidate ecological restoration areas based on landscape context.   RESTORATION ECOLOGY. Blackwell Publishing, Malden, MA, USA, 25(6): 894-902, (2017).

Tags: biodiversity, ecosystem-services, landscape-ecology, nlcd, road-ecology, water-quality
Organization: U.S. Environmental Protection Agency