AndreaBozzo/ceres-open-data-index huggingface dataset:
Coastal final ecosystem goods and services (FEGS) and habitats meta-analysis data file

Coastal ecosystem goods and services (EGS) have steadily gained traction in the scientific literature over the last few decades, providing a wealth of information about underlying coastal habitat dependencies. This meta-analysis summarizes relationships between coastal habitats and final ecosystem goods and services (FEGS) users. Through a “weight of evidence” approach synthesizing information from published literature, we assessed habitat classes most relevant to coastal users. Approximately 2800 coastal EGS journal articles were identified by online search engines, of which 16% addressed linkages between specific coastal habitats and FEGS users, and were retained for subsequent analysis. Recreational (83%) and industrial (35%) users were most cited in literature, with experiential-users/hikers and commercial fishermen most prominent in each category, respectively. Recreational users were linked to the widest diversity of coastal habitat subclasses (i.e., 22 of 26). Whereas, mangroves and emergent wetlands were most relevant for property owners. We urge EGS studies to continue surveying local users and identifying habitat dependencies, as these steps are important precursors for developing appropriate coastal FEGS metrics and facilitating local valuation. In addition, understanding how habitats contribute to human well-being may assist communities in prioritizing restoration and evaluating development scenarios in the context of future ecosystem service delivery. 

This dataset is associated with the following publication:
Littles, C., C. Jackson, T. DeWitt, and M. Harwell. Linking People to Coastal Habitats: A meta-analysis of final ecosystem goods and services (FEGS) on the coast.   Ocean & Coastal Management. Elsevier, Shannon,  IRELAND, 165: 356-369, (2018).

Tags: ecosystem-goods-and-services, literature-review, nearshore
Organization: U.S. Environmental Protection Agency
Dataset: An Integrated Multidisciplinary Research Project Researching Questions of Ecosystem Services and Ecological Receptor Characterization in the Kanawha

GIS data associated with hydrogeomorphic variables measured from remotely sensed coverages of the Little Miami River, Ohio. 

This dataset is associated with the following publication:
Thoms, M., M. Scown, and J. Flotemersch. Characterization of River Networks: A GIS Approach and Its Applications.   JOURNAL OF THE AMERICAN WATER RESOURCES ASSOCIATION. American Water Resources Association, Middleburg, VA, USA, 54(4): 899-913, (2018).

Tags: functional-process-zones, hierarchy, hydro-geomorphic-diversity, hydrogeomorphic-measures, multivariate-analyses, resonate
Organization: U.S. Environmental Protection Agency
Additive interaction between heterogeneous environmental quality domains (air, water, land, sociodemographic and built environment) on preterm birth

The study population included live births from the National Center for Health Statistics (NCHS) for the entire United States for the years 2000–2005 for all 3141 counties. Domain-specific EQIs were used to represent environmental exposure at the county-level for the entire U.S. over the 2000–2005 time period. The EQI includes variables representing five environmental domains: air, water, land, built, and sociodemographic (2). The domain-specific indices include both beneficial and detrimental environmental factors. The air domain includes 87 variables representing criteria and hazardous air pollutants. The water domain includes 80 variables representing overall water quality, general water contamination, recreational water quality, drinking water quality, atmospheric deposition, drought, and chemical contamination. The land domain includes 26 variables representing agriculture, pesticides, contaminants, facilities, and radon. The built domain includes 14 variables representing roads, highway/road safety, public transit behavior, business environment, and subsidized housing environment. The sociodemographic environment includes 12 variables representing socioeconomics and crime. 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: Human health data are not available publicly. EQI data are available at: https://edg.epa.gov/data/Public/ORD/NHEERL/EQI. Format: Data are stored as csv files. 

This dataset is associated with the following publication:
Grabich, S., K. Rappazzo, C. Gray, J. Jagai, Y. Jian, L. Messer, and D. Lobdell. Additive interaction between heterogeneous environmental quality domains (air, water, land, sociodemographic and built environment) on preterm birth.   Frontiers in Public Health. Frontiers, Lausanne,  SWITZERLAND, 4: 232, (2016).

Tags: air-quality, built-environment, environmental-quality, land-quality, sociodemographic-quality, water-quality
Organization: U.S. Environmental Protection Agency
Medication use associated with exposure to manganese in two Ohio towns

A cross-sectional design was used where 86 residents of East Liverpool, Ohio, 100 residents from Marietta, Ohio and 90 residents from Mount Vernon, Ohio were recruited and participated in the study. The Marietta/Mount Vernon data collection took place in August, 2009 as this was the original study location. Marietta was an air manganese (air-Mn) exposed community and Mt. Vernon was a comparison community believed to have little or no air-Mn exposure. After receiving additional funding and approvals, East Liverpool was added and data collection occurred in November, 2011 using identical study protocols to the Marietta/Mount Vernon study with the exception of additional specimen collections of hair and toenails (only collected in East Liverpool). All participants underwent a neuropsychological battery of tests of mood, motor and cognitive function. A comprehensive health questionnaire was administered inquiring about sociodemographics, symptoms, diagnosed illnesses, medication use, health habits, work history, and dietary consumption (used to compute dietary intake of Mn and Fe). Additionally, the study included data acquisition on air monitoring and modeling, biomarkers, and health. 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: Because this data set includes protected health information, public access is not available. Format: csv files. 

This dataset is associated with the following publication:
Bowler, R., S. Adams, C. Wright, Y. Kim, A. Booty, M. Colledge, V. Gocheva, and D. Lobdell. Medication Use Associated with Exposure to Manganese in Two Ohio Towns.   INTERNATIONAL JOURNAL OF ENVIRONMENTAL HEALTH RESEARCH. Carfax Publishing Limited, Basingstoke,  UK, 26(5): 483-96, (2016).

Tags: air-manganese, medication-use, neurologic-outcomes
Organization: U.S. Environmental Protection Agency
Region 5 RARE air manganese data set

A cross-sectional design was used where 86 residents of East Liverpool, Ohio, 100 residents from Marietta, Ohio and 90 residents from Mount Vernon, Ohio were recruited and participated in the study. The Marietta/Mount Vernon data collection took place in August, 2009 as this was the original study location. Marietta was an air manganese (air-Mn) exposed community and Mt. Vernon was a comparison community believed to have little or no air-Mn exposure. After receiving additional funding and approvals, East Liverpool was added and data collection occurred in November, 2011 using identical study protocols to the Marietta/Mount Vernon study with the exception of additional specimen collections of hair and toenails (only collected in East Liverpool). All participants underwent a neuropsychological battery of tests of mood, motor and cognitive function. A comprehensive health questionnaire was administered inquiring about sociodemographics, symptoms, diagnosed illnesses, medication use, health habits, work history, and dietary consumption (used to compute dietary intake of Mn and Fe). Additionally, the study included data acquisition on air monitoring and modeling, biomarkers, and health. 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: Because this dataset includes protected health information, public access is not available. Format: csv files. 

This dataset is associated with the following publication:
Kornblith, E., S. Casey, D. Lobdell, M. Colledge, and R. Bowler. Environmental exposure to manganese in air: Tremor, motor and cognitive symptom profiles.   NEUROTOXICOLOGY. Elsevier B.V., Amsterdam,  NETHERLANDS, 64: 152-158, (2018).

Tags: air-manganese, neurologic-outcomes
Organization: U.S. Environmental Protection Agency
Water Recreation and Illness Severity

Data included health survey data from beach goers and water quality measurements. 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: Data contain PII and cannot be released publically. Limited deidentified data sets can be requested by contacting Tim Wade (wade.tim@epa.gov). Format: Data consist of comma delimited text files of survey data from beach goers and water quality measurements. Codebooks are in MS Word. 

This dataset is associated with the following publications:
DeFlorio-Baker, S., T. Wade , M. Turyk, and S. Dorevitch. Water Recreation and Illness Severity.   JOURNAL OF WATER AND HEALTH. IWA Publishing, London,  UK, 5: 713-726, (2016).
DeFlorio-Barker, S., T. Wade , R. Jones, L. Friedman, C. Wing, and S. Dorevitch. Estimated Costs of Sporadic Gastrointestinal Illness Associated with Surface Water Recreation: A Combined Analysis of Data from NEEAR and CHEERS Studies.   ENVIRONMENTAL HEALTH PERSPECTIVES. National Institute of Environmental Health Sciences (NIEHS), Research Triangle Park, NC, USA, 125(2): 215-222, (2017).

Tags: beach-water-quality, diarrhea, swimming
Organization: U.S. Environmental Protection Agency
Metadata included in dataset file

The data provided in the file are measurements (and calculations) of various morphological characteristics made on individual larval fish specimens. 

This dataset is associated with the following publication:
Peterson, G., and J. Lietz. Identification of Ruffe larvae (Gymnocephalus cernuus) in the St. Louis River, Lake Superior:  Clarification and guidance regarding morphological descriptions.   JOURNAL OF GREAT LAKES RESEARCH. International Association for Great Lakes Research, Ann Arbor, MI, USA, 43(1): 205-210, (2017).

Tags: aquatic-invasive-species, dna-technology, great-lakes, sampling-design
Organization: U.S. Environmental Protection Agency
Mechanistic modeling of insecticide risks to breeding birds in North American agroecosystems

This dataset provides all parameter values necessary to replicate the TIM/MCnest model analysis reported in the manuscript "Mechanistic modeling of insecticide risks to breeding birds in North American agroecosystems". 

This dataset is associated with the following publication:
Etterson, M., K. Garber, and E. Odenkirchen. Mechanistic modeling of insecticide risks to breeding birds in North American agroecosystems.   PLoS ONE. Public Library of Science,  CA, USA,  1-23, (2017).

Tags: agroecosystems, birds, insecticide, mcnest, pesticide, risk-assessment, terrestrial-investigation-model
Organization: U.S. Environmental Protection Agency
Transcriptional and physiological responses of nitrifying bacteria to heavy metal inhibition

SOUR (oxygen uptake rates) and qPCR for nitrification genes. 

This dataset is associated with the following publication:
Kapoor , V., X. Li , M. Elk , K. Chandran, C. Impellitteri , and J. Santodomingo. Transcriptional and physiological responses of nitrifying bacteria to heavy metal inhibition.   ENVIRONMENTAL SCIENCE & TECHNOLOGY. American Chemical Society, Washington, DC, USA, 49: 13454-13462, (2015).

Tags: nitrification, wastewater
Organization: U.S. Environmental Protection Agency
The impact of variation in scaling factors on the estimation of internal dose metrics:  a case study using bromodichloromethane (BDCM)

This dataset contains model code and supporting analysis files necessary to evaluate the impact of variability in human hepatic  scaling factors.  Variation in scaling factor values impacts metabolic rate parameter estimates (Vmax) and hence estimates of internal dose used in dose response analysis and biomarkers of exposure that are important for interpretation of epidemiology studies. 

This dataset is associated with the following publication:
Kenyon, E., C. Eklund, J. Lipscomb, and R. Pegram. The impact of variation in scaling factors on the estimation of internal dose metrics:  a case study using bromodichloromethane (BDCM).1.   Toxicology Mechanisms and Methods. Taylor & Francis, Inc., Philadelphia, PA, USA, 26(8): 620-626, (2016).

Tags: bromodichloromethane, hepatic, human, in-vitro-to-in-vivo-extrapolation, ivive, pbpk-model, scaling-factors, variability, variation
Organization: U.S. Environmental Protection Agency
NHEERL MEA Toxcast Single Concentration Screening data

This file contains the data used to generate hit calls from neural activity recordings on microelectrode array (MEA) plates treated with ToxCast compounds at a single concentration. 

This dataset is associated with the following publication:
Strickland, J., M. Martin, A. Richard, K. Houck, and T. Shafer. Screening the ToxCast phase II libraries for alterations in network function using cortical neurons grown on multi-well microelectrode array (mwMEA) plates.   Archives of Toxicology. Springer, New York, NY, USA, 92(1): 487-500, (2018).

Tags: in-vitro-screening, microelectrode-array, neurotoxicity
Organization: U.S. Environmental Protection Agency
Inhibitory effect of cyanide on wastewater nitrification determined using SOUR and RNA-based gene-specific assays

SOUR and qPCR data. 

This dataset is associated with the following publication:
Kapoor, V., M. Elk, and X. Li. Inhibitory effect of cyanide on wastewater nitrification determined using SOUR and RNA-based gene-specific assays.   Letters in Applied Microbiology. Blackwell Publishing, Malden, MA, USA, 63(2): 155-161, (2016).

Tags: nitrification-inhibition, wastewater
Organization: U.S. Environmental Protection Agency
% Viability and zeta potential values of metal nanoparticles used in in vitro dermal irritation assays

1) % Viability of human reconstructed skin exposed to cerium, silver and titanium nanoparticles; 2) Zeta potential of the nanoparticles in media. 

This dataset is associated with the following publication:
Miyani, V., and M. Hughes. Assessment of the vitro dermal irritation of cerium silver and titanium nanoparticles in a human skin equivalent model.   TOXICOLOGY IN VITRO. Elsevier Science Ltd, New York, NY, USA, 36(2): 145-151, (2017).

Tags: in-vitro-assays, irritation, nanoparticles, skin
Organization: U.S. Environmental Protection Agency
Hughes_A-0gb9_EH-TBB and BEH-TEBP in vitro dermal absorption 05/24/2017

The data is on 4 tabs, separated by species (rat, human) and chemical (EH-TBB and BEH_TEBP).  The data is by cell (2-4/skin), and includes %dose in receptor fluid over time, % unabsorbed, % absorbed and % penetrated. 

This dataset is associated with the following publication:
Knudsen, G., M. Hughes, J.M. Sanders, S. Hall, and L. Birnbaum. Estimation of human percutaneous bioavailability for two novel brominated flame retardants, 2-ethylhexyl tetrabromobenzoate (EH-TBB) and bis(2-ethylhexyl) tetrabromophthalate (BEH-TEBP), using the parallelogram approach.   TOXICOLOGY AND APPLIED PHARMACOLOGY. Academic Press Incorporated, Orlando, FL, USA, 311: 117-127, (2016).

Tags: brominated-flame-retardant, in-vitro-dermal-absorption
Organization: U.S. Environmental Protection Agency
The Association between Dust Storms and Daily Non-Accidental Mortality in the United States, 1993-2005.

records of mortality, dust storms and demographic/census data for the United States. 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: Data contained PII and were obtained under a licensing agreement with CDC. Data may be obtained from CDC/NCHS.  Contact Tim Wade (wade.tim@epa.gov) for other access options. Format: Raw data consist of fixed delimited text files from the CDC/NCHS with data documentation provided. Data are processed and analyzed in R and stored as R data files and/or comma delimited text files. R programs fully document the processing and variable naming conventions. 

This dataset is associated with the following publication:
Crooks , J., W. Cascio , M. Percy, J. Reyes , L. Neas , and E. Hilborn. The Association between Dust Storms and Daily Non-Accidental Mortality in the United States, 1993-2005..   ENVIRONMENTAL HEALTH PERSPECTIVES. National Institute of Environmental Health Sciences (NIEHS), Research Triangle Park, NC, USA, 124(11): 1735-43, (2016).

Tags: air-quality, cardiovascular-mortality, epidemiology, multiple-stressors
Organization: U.S. Environmental Protection Agency
Tal et al A-qc09 dataset

This dataset includes data used to generate Figures 4C, 5B, 5C, and 5D in Tal et al. Screening for angiogenic inhibitors in zebrafish to evaluate a predictive model for developmental vascular toxicity. Reproductive Toxicology. 2017. Data underlying all other figures shown in the manuscript are included in the Supplemental Tables published with the original article. 

This dataset is associated with the following publication:
Tal , T., C. Kilty, A. Smith, C. LaLone , B. Kennedy, A. Tennant , C. McCollum, M. Bondesson, T. Knudsen , S. Padilla , and N. Kleinstreuer. Screening for angiogenic inhibitors in zebrafish to evaluate a predictive model for developmental vascular toxicity.   REPRODUCTIVE TOXICOLOGY. Elsevier Science Ltd, New York, NY, USA, 70: 70-81, (2017).

Tags: developmental-toxicity, hyaloid-vessel, zebrafish
Organization: U.S. Environmental Protection Agency
Data for Tipping Point determinations

The attached zip file contains all of the source data, intermediate outputs and R-scripts used to calculate the tipping points reported in the Frank et al manuscript. 

This dataset is associated with the following publication:
Christopher, F., J. Brown, K. Wallace, J. Wambaugh, I. Shah, and T. Shafer. Defining toxicological tipping points in neuronal network development.   TOXICOLOGY AND APPLIED PHARMACOLOGY. Academic Press Incorporated, Orlando, FL, USA, 354: 81-93, (2018).

Tags: chemical-screening, developmental-neurotoxicity, in-vitro-assay, microelectrode-array, network-development
Organization: U.S. Environmental Protection Agency
Data for figures in Assessing the Value Added of Population Modeling for Aquatic Exposures to Time-Varying Exposures.

Data used to create Figure 2 through 9 in the paper. Where appropriate raw data are also included. Each figure is in a separate worksheet. Also included are the daily and running averages of the three 30-year exposure time-series. 

This dataset is associated with the following publication:
Thursby, G., K. Sappington, and M. Etterson. Coupling Toxicokinetic-Toxicodynamic and Population Models for Assessing Aquatic Ecological Risks to Time-Varying Pesticide Exposures.   ENVIRONMENTAL TOXICOLOGY AND CHEMISTRY. Society of Environmental Toxicology and Chemistry, Pensacola, FL, USA, 37(10): 2633-2644, (2018).

Tags: americamysis-bahia, matrix-modeling, population-level-risk-assessment, time-varying-exposures
Organization: U.S. Environmental Protection Agency
Adaptation and application of multivariate AMBI (M-AMBI) in US coastal waters data

extensively in Europe, but not in the United States. In a previous study, we adapted AMBI for use in US coastal waters (US AMBI), but saw biases in salinity and score distribution when compared to locally calibrated indices.
In this study we modified M-AMBI for US waters and compared its performance to that of US AMBI. Index performance was evaluated in three ways: 1) concordance with local indices presently being used as management
tools in three geographic regions of US coastal waters, 2) classification accuracy for sites defined a priori as good or bad and 3) insensitivity to natural environmental gradients. US M-AMBI was highly correlated with all three local indices and removed the compression in response seen in moderately disturbed sites with US AMBI.  This data set provides the data used to conduct these analyses and produce the tables and figures in the paper. 

This dataset is associated with the following publication:
Pelletier, P., D. Gillett, A. Hamilton, T. Grayson, V. Hansen, E. Leppo, S. Weisberg, and A. Borja. Adaptation and application of multivariate AMBI (M-AMBI) in US coastal waters.   ECOLOGICAL INDICATORS. Elsevier Science Ltd, New York, NY, USA, 89: 818-827, (2018).

Tags: benthic-index, benthos, marine-benthic-invertebrates
Organization: U.S. Environmental Protection Agency