AndreaBozzo/ceres-open-data-index huggingface dataset:
Analysis of proportional data in reproductive and developmental toxicity studies: comparison of logit transformation, arcsine square root transformation, and nonparametric analysis

We conducted power calculations to compare different approaches (nonparametric, arcsine square root-transformed, logit-transformed, untransformed) for analyzing litter-based proportional data.  A reproductive toxicity study with a control and one treated group provided data for two endpoints: prenatal loss, and fertility by in utero insemination (IUI).  Type I error and power were estimated by 10,000 simulations based on two-sample one-tailed t-tests with varying numbers of litters per group.  To further compare the different approaches, we conducted additional analyses with the mean proportions shifted toward zero  to produce illustrative scenarios.  Analyses based on logit-transformed proportions had greater power than those based on untransformed or arcsine square root-transformed proportions, or nonparametric procedures.

Tags: arcsine-square-root-transformation, developmental-toxicity, logit-transformation, proportional-data, statistical-power
Organization: U.S. Environmental Protection Agency
Climate damages and adaptation potential across diverse sectors of the United States

In this research paper, we summarize results from sectoral impact models applied within 
a consistent modelling framework to project how climate change will affect 22 impact sectors of the United States, including effects on human health, infrastructure and agriculture. Citation information for this dataset can be found in the EDG's Metadata Reference Information section and Data.gov's References section.

Tags: adaptation, climate, damage, impact, sector
Organization: U.S. Environmental Protection Agency
North Carolina Blood Lead and Education Data

The Children's Environmental Health Initiative (CEHI) at Rice University provided access to blood lead data from the North Carolina Childhood Lead Poisoning Prevention Program surveillance registry; data on end-of-grade standardized achievement tests in reading and mathematics from the North Carolina Education Research Data Center (NCERDC); and birth certificate data from the North Carolina Department of Health and Human Services. Test score, blood lead, and birth certificate data were linked using a common child identifier created by CEHI for matching purposes. 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 data was made available by the Children's Environmental Health Initiative (CEHI) at Rice University. Contact Claire Osgood (ceo1@rice.edu), CEHI's Data Manager, to learn how the data can be accessed. Format: The Children's Environmental Health Initiative (CEHI) at Rice University provided access to blood lead data from the North Carolina Childhood Lead Poisoning Prevention Program surveillance registry; data on end-of-grade standardized achievement tests in reading and mathematics from the North Carolina Education Research Data Center (NCERDC); and birth certificate data from the North Carolina Department of Health and Human Services. Test score, blood lead, and birth certificate data were linked using a common child identifier created by CEHI for matching purposes. Citation information for this dataset can be found in the EDG's Metadata Reference Information section and Data.gov's References section.

Tags: blood-lead, cognitive-development, education, school-children
Organization: U.S. Environmental Protection Agency
Data_averages_6-24-15_ESS_PEM_PFO_3_good_months

Summary of all field data collected for wetlands denitrification project in Tampa Bay Watershed including denitrification enzyme activity potential rates, soil and pore water characteristics, and land use/cover percentages in upstream drainage basins.  DEA are averages for 3 different months where we had valid DEA incubations while soil and water are from single date. 

This dataset is associated with the following publication:
Russell, M., R. Fulford, K. Murphy, C. Lane, J. Harvey, D. Dantin, F. Alvarez, J. Nestlerode, A. Teague, M. Harwell, and A. Almario. Relative importance of landscape versus local wetland characteristics for estimating wetland denitrification potential.   WETLANDS. The Society of Wetland Scientists, McLean, VA, USA, 39(1): 127-137, (2019).

Tags: coastal-wetlands, communities, denitrification, denitrification-enzyme-activity, ecological-production-functions, ecosystem-services, land-use, tampa-bay
Organization: U.S. Environmental Protection Agency
Limited chemical structural diversity found to modulate thyroid hormone receptor in the Tox21 chemical library

The Tox21 chemical library (8,305 unique structures) was screened in a quantitative high-throughput, cell-based reporter gene assay for TR agonist or antagonist activity. Active compounds were further characterized using additional orthogonal assays, including mammalian one-hybrid assays, coactivator recruitment assays, and a high-throughput, fluorescent imaging, nuclear receptor translocation assay.  Results for the library are available at https://tripod.nih.gov/tox21/samples. 

This dataset is associated with the following publication:
Paul-Friedman, K., M. Martin, K. Crofton, C. Hsu, S. Sakamuru, J. Zhao, M. Xia, R. Huang, D. Stevreva, V. Soni, L. Varticovski, R. Raziuddin, G. Hager, and K. Houck. Limited chemical structural diversity found to modulate thyroid hormone receptor in the Tox21 chemical library.   ENVIRONMENTAL HEALTH PERSPECTIVES. National Institute of Environmental Health Sciences (NIEHS), Research Triangle Park, NC, USA, 127(9): 1-16, (2019).

Tags: endocrine-disruption, high-throughput-screening, high-throughput-toxicology, thyroid-hormone-receptors, tox21, toxcast
Organization: U.S. Environmental Protection Agency
Campy STICS data

Campy STICS data. 

This dataset is associated with the following publication:
Lye, D., I. Struewing, T. Gruber, K. Oshima, E. Villegas, and J. Lu. A Gallus gallus Model for Determining Infectivity of Zoonotic Campylobacter.   Frontiers in Microbiology. Frontiers, Lausanne,  SWITZERLAND, 10: 2292, (2019).

Tags: avian, campylobacter, chick-model, colonization, gull, infectivity
Organization: U.S. Environmental Protection Agency
Respirometry, Biochemistry and Carbonate Chemistry

Data includes water quality and carbonate chemistry parameters measured during the experiment (temperature, salinity, dissolved oxygen, pH, total alkalinity and pCO2), oxygen consumption rates of fish (respirometry) as well as several biochemical endpoints related to anaerobic metabolism (Lactate Dehydrogenase), oxidative stress (protein carbonyl formation, Superoxide dismutase and Catalase), and acid-base homeostasis (Carbonic Anhydrase and Na+/K+ ATPase activity). 

This dataset is associated with the following publication:
Enzor, L., C. Hankins, M. Frazier, E. Moso, S. Raimondo, and M. Barron. Elevated pCO2 and hypoxia alter the acid-base regulation of developing sheepshead minnows Cyprinodon variegatus.   MARINE ECOLOGY PROGRESS SERIES. Inter-Research, Luhe,  GERMANY, 636: 157-168, (2020).

Tags: acid-base-balance, acidification, hypoxia, oxygen-consumption, sheepshead-minnow
Organization: U.S. Environmental Protection Agency
PiSCES Dataset

The Piscine Stream Community Estimation System (PiSCES) provides users with a hypothesized fish community for any stream reach in the conterminous United States using information obtained from Nature Serve, the US Geological Survey (USGS), StreamCat, and the Peterson Field Guide to Freshwater Fishes of North America for over 1000 native and non-native freshwater fish species. PiSCES can filter HUC8-based fish assemblages based on species-specific occurrence models; create a community abundance/biomass distribution by relating relative abundance to mean body weight of each species; and allow users to query its database to see ancillary characteristics of each species (e.g., habitat preferences and maximum size). Future efforts will aim to improve the accuracy of the species distribution database and refine/augment increase the occurrence models. The PiSCES tool is accessible at the EPA's Quantitative Environmental Domain (QED) website at https://qed.epacdx.net/pisces/. 

This dataset is associated with the following publication:
Cyterski, M., C. Barber, M. Galvin, R. Parmar, J. Johnston, D. Smith, A. Ignatius, L. Prieto, and K. Wolfe. PiSCES: Pi(scine) Stream Community Estimation System.   ENVIRONMENTAL MODELLING & SOFTWARE. Elsevier Science, New York, NY,   127: 104703, (2020).

Tags: community-size-spectra, community-structure, fish-community-bioassessment-data, fish-distributions, web-services
Organization: U.S. Environmental Protection Agency
Datasets for manuscript: A Thermodynamic Feasibility Model for Optimal Struvite Production as a Technology for Nutrient Recovery from Livestock Waste

The data set contains data required to obtain the composition probability density distribution results of digestate composition, model validation, Monte Carlo simulation samples for digestate composition of Magnesium (Mg), Calcium (Ca), alkalinity, and their influence in struvite formation. Also, the model prediction results of struvite formation for Mg, Ca, and alkalinity values. 

This dataset is associated with the following publication:
Martín-Hernández, E., G.J. Ruiz-Mercado, and M. Martín. Model-driven spatial evaluation of nutrient recovery from livestock leachate for struvite production.   JOURNAL OF ENVIRONMENTAL MANAGEMENT. Elsevier Science Ltd, New York, NY, USA, 271: 110967, (2020).

Tags: energy-recovery, harmful-algal-bloom-hab, manure, modeling-and-optimization, multi-criterion-decision-making-analysis, nutrient-pollution, nutrient-removal-recovery, organic-waste, quantitative-indicators, struvite, supply-chain, sustainability-analysis, thermodynamic
Organization: U.S. Environmental Protection Agency
Assessment of NO2 observations during DISCOVER-AQ and KORUS-AQ field campaigns

These data include three-dimensional meteorological (WRF) and air quality (CMAQ) model output for 4-km and 2-km domains covering the San Joaquin Valley (SJV) of California for January and February of 2013. The WRF and CMAQ parameters used in the analysis presented in the research effort are listed in the attached spreadsheet. The WRF/CMAQ data themselves are located on EPA's asm tape archive in the directories below. These data are available upon request from the authors, specifically K. Wyat Appel (appel.wyat@epa.gov).

/asm/MOD3EVAL/DISCOVERAQ/SJV/DISCOVERAQ_SJV_4km_CMAQv52_Jul19_CB6_NewEmis
/asm/MOD3EVAL/DISCOVERAQ/SJV/output_sf_SJV_2km_CMAQv52_CB6_Jul192017rel_NewEmis. 

This dataset is associated with the following publication:
Choi, S., L. Lok, J. Joiner, N. Krotkov, M. Follette-Cook, W. Swartz, K. Pickering, C. Loughner, K.W. Appel, G. Pfister, P. Saide, R. Cohen, A.  Weinheimer, and J. Herman. Assessment of NO2 Observations during DISCOVER-AQ and KORUS-AQ Field Campaigns.   Atmospheric Measurement Techniques. Copernicus Publications, Katlenburg-Lindau,  GERMANY, 13(5): 2523–2546, (2020).

Tags: air-quality, air-quality-model-applicaiton, cmaq, discover-aq, fine-scale-modeling, korus-aq, model-evaluation, no, no2, nox, ozone, pm2-5, urban-scale-modeling, wrf
Organization: U.S. Environmental Protection Agency
A Visualization and Control Strategy for Dynamic Minimization of Chemical Process Releases. Performance indicator, process variables, and time for case a study of fermentation for bioethanol production. All data are computer simulation results.

The dataset files contain the dynamic (time sets) chemical process simulation results (mass flows, temperature profiles), performance indicators, concentration profiles of different components for the production of bio-ethanol (2 case studies of a fermentation process with different dilution rates) with and without a novel process control strategy for releases reduction. The datasets show all data values used to generate each of the figures. 

This dataset is associated with the following publication:
Li, S., G.J. Ruiz-Mercado, and F.V. Lima. A Visualization and Control Strategy for Dynamic Sustainability of Chemical Processes.   Processes. MDPI AG, Basel,  SWITZERLAND, 8(3): 310, (2020).

Tags: chemical-manufacturing, chemical-safety-for-sustainability, emission-control-strategies, life-cycle-environmental-assessment, life-cycle-inventory, quantitative-indicators, time-activity
Organization: U.S. Environmental Protection Agency
Data Package from Benchmarking a Toyota A25A-FKS Engine at EPA NVFEL

Data generated from this project are collected from a 4-cylinder, 2.5-liter, naturally aspirated, Atkinson Cycle engine with cooled exhaust gas recirculation (cEGR). The engine was tested by the National Center for Advanced Technology (NCAT), part of EPA’s National Vehicle and Fuel Emissions Laboratory (NVFEL) in Ann Arbor, Michigan, using laboratory test equipment and methods to characterize engine controls, fuel consumption, and emissions. Data from this engine are part of a benchmarking and testing project to assess the effectiveness of numerous advanced low emitting and low fuel consuming light-duty vehicles, engines and transmissions. Citation information for this dataset can be found in the EDG's Metadata Reference Information section and Data.gov's References section.

Tags: a25a-fks, atkinson, benchmarking, co2, co2-reduction, cooled-egr, efficiency-map, engine, fuel-saving, ghg, mpg, ncat
Organization: U.S. Environmental Protection Agency
ScID_A-d51q_Biochemical effects of nano copper in HepG2 cells_kitchin

transformed raw data of biochemical paramiters. 

This dataset is associated with the following publication:
Kitchin, K., J. Richards, B. Robinette, K. Wallace, N.H. Coates, B. Castellon, E. Grulke, J. Kou, and R. Varma. Biochemical Effects of Silver Nanomaterials in Human Hepatocellular Carcinoma (HepG2) Cells.   Journal of Nanoscience and Nanotechnology. American Scientific Publishers, VALENCIA, CA, USA, 20(9): 5833-5858, (2020).

Tags: cu, cuo, hepg2, liver, nanomaterial, nanoparticle, oxidative-stress
Organization: U.S. Environmental Protection Agency
Figure 2: Associations between cytokines assessed in EBC and the outcomes of Death, Pneumonia, and Sepsis.

Associations between cytokines assessed in EBC and the outcomes of Death, Pneumonia, and Sepsis. An odds ratio greater than 1 is indicative of a positive association between the cytokine and the outcome; an odds ratio equal to 1 indicates that the cytokine and the outcome are independent of one another; an odds ratio of less than 1 is indicative of a negative correlation between the cytokine and the outcome. 

Tags: cytokines, exhaled-breath-condensate, intensive-care-unit, mechanically-ventilated, sepsis
Organization: U.S. Environmental Protection Agency
Datasets for manuscript: Logistics Network Management of Livestock Waste for Spatiotemporal Control of Nutrient Pollution in Water Bodies

The data set contains data required to run the logistics network, nutrient fate and transport, and algae growth models: geographical nodes, nutrient and product demand data, nutrient limit  in agricultural land, nutrient emission factor of waste, technology design and capacity data, nutrient source inventory location and capacity, algae cell data, waterbody reservoir temperature profile, weather data, and other parameters described in the manuscript's Figure 5 (data flow of the modeling framework). 

This dataset is associated with the following publication:
Hu, Y., A.M. Sampat, G.J. Ruiz-Mercado, and V.M. Zavala. Logistics Network Management of Livestock Waste for Spatiotemporal Control of Nutrient Pollution in Water Bodies.   ACS Sustainable Chemistry & Engineering. American Chemical Society, Washington, DC, USA, 7(22): 18359-18374, (2019).

Tags: energy-recovery, harmful-algal-bloom-hab, modeling-and-optimization, multi-criterion-decision-making-analysis, nutrient-pollution, organic-waste, quantitative-indicators, supply-chain, sustainability-analysis
Organization: U.S. Environmental Protection Agency
National Greenhouse Gas Industry Attribution Model

The National Greenhouse Gas Industry Attribution Model is dynamic model that attributes US Greenhouse Gas (GHG) emissions as reported in the US GHG Inventory [1] to industry sectors as classified by the Bureau of Economic Analysis in the 2012 detail benchmark input-output tables [2]. The model is valid for years 2010-2016 and uses the EPA GHG Inventory published in 2018. Data quality score associated with the EPA DQ system [3] for data reliability and technological correlation are assigned as described in Yang et al. 2017, Supporting Information 1 [4]. This model builds upon the USEEIO v1.1 GHG satellite table [5] and the Yale Center for Industrial Ecology USEEIO extensions v2.1 [6]. See the Documentation sheet in the file for a summary table describing the industry attribution approach to each USEPA GHGI emission item.

References
1. USEPA, 2020. Inventory of U.S. Greenhouse Gas Emissions and Sinks: 1990-2018. https://www.epa.gov/ghgemissions/inventory-us-greenhouse-gas-emissions-and-sinks-1990-2016
2. BEA, 2019a. Input-Output Accounts Data. https://www.bea.gov/industry/input-output-accounts-data
3. USEPA. 2016. Guidance on Data Quality Assessment for Life Cycle Inventory Data (Report). US Environmental Protection Agency, National Risk Management Research Laboratory, Life Cycle Assessment Research Center. https://cfpub.epa.gov/si/si_public_record_report.cfm?dirEntryId=321834
4. Yang, Y., Ingwersen, W.W., Hawkins, T.R., Srocka, M., Meyer, D.E., 2017. USEEIO: A New and Transparent United States Environmentally-Extended Input-Output Model. Journal of Cleaner Production 158, 308–318. https://doi.org/10.1016/j.jclepro.2017.04.150
5. Ingwersen, W.W., Yang, Y., Gilkey, K., Li, M., 2017. USEEIOv1.1 - Satellite Tables. https://doi.org/10.23719/1365565
6. Berrill, P., Miller, T.R., 2019. CIE USEEIO extensions v2.1. https://doi.org/10.5281/zenodo.3386529. 

This dataset is associated with the following publication:
Ingwersen, W., and M. Li. Supply Chain Greenhouse Gas Emission Factors for US Industries and Commodities. U.S. Environmental Protection Agency, Washington, DC, USA, 2020.

Tags: input-output-data, life-cycle-assessment, life-cycle-inventory-data, sustainability
Organization: U.S. Environmental Protection Agency
Reported photolysis products (DB-J-ENV and DB-EFSA-ENV)

The dataset file contains a list of parent compound names and standardized SMILES strings for both the parent compounds and reported transformation products.  The data in the DB-J-ENV tab was compiled from journal publications, and the data in the DB-EFSA-ENV tab was compiled from European Food Safety Authority (EFSA) reports. 

This dataset is associated with the following publication:
Yuan, C., C. Stevens, and E. Weber. Reaction Library to Predict Direct Photochemical Transformation Products of Environmental Organic Contaminants in Sunlit Aquatic Systems.   ENVIRONMENTAL SCIENCE & TECHNOLOGY. American Chemical Society, Washington, DC, USA, 54(12): 7271–7279, (2020).

Tags: cheminformatics, environmental-transformations, photochemical, photolysis, phototransformations, predictive-models, reaction-library
Organization: U.S. Environmental Protection Agency
Estimating Arctic Temperature Impacts from Select European Residential Heating Appliances and Mitigation Strategies: Repository Data for all Tables and Figures

Data for all Tables and Figures - Estimating Arctic Temperature Impacts from Select European Residential Heating Appliances and Mitigation Strategies. Citation information for this dataset can be found in the EDG's Metadata Reference Information section and Data.gov's References section.

Tags: arctic-climate-change, black-carbon, emissions-factors, residential-heating, short-lived-climate-forcers, wood-stoves
Organization: U.S. Environmental Protection Agency
Alapaty-MPAS-cloud modeling data

This data generated by the MPAS model contains cloud macrophysical properties simulated by two scale-aware convective cloud schemes. This dataset is not publicly accessible because: This huge volume of data owned by NCAR and thus it is a non-EPA data. It can be accessed through the following means: contact the first author at NCAR, laura@ucar.edu. Format: netCDF data generated by the MPAS model

Tags: deep-convection, next-generation-atmospheric-modeling, precipitation-cloud-life-cloud-cover, scale-awareness
Organization: U.S. Environmental Protection Agency
Rubbertown Passive VOC Dataset

Rubbertown Passive VOC Dataset. 

This dataset is associated with the following publication:
Mukerjee, S., L. Smith, E. Thoma, D. Whitaker, K. Oliver, R. Duvall, and T. Cousett. Spatial analysis of volatile organic compounds using passive samplers in the Rubbertown industrial area of Louisville, Kentucky, USA.   Atmospheric Pollution Research. Turkish National Committee for Air Pollution Research and Control, Izmir,  TURKEY, issue}: 81-86, (2020).

Tags: 1-3-butadiene, air-quality, benzene, epa-method-325, louisville, passive-sampler, volatile-organic-compounds
Organization: U.S. Environmental Protection Agency
Linking Water Quality to Ae. aegypti nutrient and Zika

This dataset contains the nutrient analysis (carbon, nitrogen, stable isotopes) for estuary water, leaf detritus, container habitat water, larvae within containers, and adult mosquitos, as well as the results of viral analysis for adult mosquitos collected in June 2016.  Adult mosquitos were collected and analyzed in June 2017. 

This dataset is associated with the following publication:
Yee, S., D. Yee, R. DeJesus-Crespo, A. Oczkowski, F. Bai, and S. Friedman. Linking Water Quality to Aedes aegypti and Zika in Flood-Prone Neighborhoods.   EcoHealth. Springer, New York, NY, USA, 16: 191-209, (2019).

Tags: aedes-aegypti, carbon, nitrogen, stable-isotopes, zika
Organization: U.S. Environmental Protection Agency
FL_Estuaries.zip and FL_Optics_data

Hyperspectral optical data for satellite remote sensing. 

This dataset is associated with the following publication:
Casey, K.A., C.S. Rousseaux, W.W. Gregg, E. Boss, A.P. Chase, S.E. Craig, C.B. Mouw, R.A. Reynolds, D. Stramski, S.G. Ackleson, A. Bricaud, B. Schaeffer, M.R. Lewis, and S. Maritorena. A global compilation of in situ aquatic high spectral resolution inherent and apparent optical property data for remote sensing applications.   Earth System Science Data. Copernicus Publications, Katlenburg-Lindau,  GERMANY, 12(2): 1123–1139, (2020).

Tags: hyperspectral, ocean-colour, remote-sensing, satellite, water-quality
Organization: U.S. Environmental Protection Agency
Data for Particle and Volatile Organic Compound Emissions from a 3D Printer Filament Extruder

Data for Particle and Volatile Organic Compound Emissions from a 3D Printer Filament Extruder. 

This dataset is associated with the following publication:
Byrley, P., A. Wallace, W. Boyes, and K. Rogers. Particle and volatile organic compound emissions from a 3D printer filament extruder.   SCIENCE OF THE TOTAL ENVIRONMENT. Elsevier BV, AMSTERDAM,  NETHERLANDS, 736: 139604, (2020).

Tags: 3d-printer, extruder, plastics, ultrafine, vocs
Organization: U.S. Environmental Protection Agency