AndreaBozzo/ceres-open-data-index huggingface dataset:
Keyword analysis of community planning documents

This file contains total hits per keyword expressed as percentage of total hits for the eight domains of the human well-being index.  Additional categorical data is given for each community planning document based on publicly available demographic data for the community.  These demographic data include population size, proportion of population in a series of categories: education level, median income, and race.  Additional categorical variables are community assignment based on a community typology.  A full description of the community typology can be found in the associated supplementary material. 

This dataset is associated with the following publication:
Fulford, R., M. Russell, J. Harvey, and M. Harwell. Sustainability at the community level: Searching for common ground as a part of a national strategy for decision support. U.S. Environmental Protection Agency, Washington, DC, USA, 2016.

Tags: community-decision-making, ecosystem-services, fundamental-objectives, human-well-being
Organization: U.S. Environmental Protection Agency
An approach to measure parameter sensitivity in watershed hydrologic modeling

Abstract   Hydrologic responses vary spatially and temporally according to watershed characteristics. In this study, the hydrologic models that we developed earlier for the Little Miami River (LMR) and Las Vegas Wash (LVW) watersheds were used for detail sensitivity analyses. To compare the relative sensitivities of the hydrologic parameters of these two models, we used Normalized Root Mean Square Error (NRMSE). By combining the NRMSE index with the flow duration curve analysis, we derived an approach to measure parameter sensitivities under different flow regimes. Results show that the parameters related to groundwater are highly sensitive in the LMR watershed, whereas the LVW watershed is primarily sensitive to near surface and impervious parameters. The high and medium flows are more impacted by most of the parameters. Low flow regime was highly sensitive to groundwater related parameters. Moreover, our approach is found to be useful in facilitating model development and calibration. 

This dataset is associated with the following publication:
Ranatunga, T., S. Tong, and J. Yang. An approach to measure parameter sensitivity in watershed hydrologic modeling.   Hydrological Sciences Journal. IAHS LIMITED, Oxford,  UK, 62(1): 76-92, (2017).

Tags: flow-duration-curve, hspf, model-development, nrmse, words-sensitivity-analysis
Organization: U.S. Environmental Protection Agency
Fine-Tuning ADAS Algorithm Parameters

With the development of the Connected Vehicle technology that facilitates wirelessly communication among vehicles and road-side infrastructure, the Advanced Driver Assistance Systems (ADAS) can be adopted as an effective tool for accelerating traffic safety and mobility optimization at various highway facilities. To this end, the traffic management centers identify the optimal ADAS algorithm parameter set that enables the maximum improvement of the traffic safety and mobility performance, and broadcast the optimal parameter set wirelessly to individual ADAS-equipped vehicles. After adopting the optimal parameter set, the ADAS-equipped drivers become active agents in the traffic stream that work collectively and consistently to prevent traffic conflicts, lower the intensity of traffic disturbances, and suppress the development of traffic oscillations into heavy traffic jams. Successful implementation of this objective requires the analysis capability of capturing the impact of the ADAS on driving behaviors, and measuring traffic safety and mobility performance under the influence of the ADAS. To address this challenge, this research proposes a synthetic methodology that incorporates the ADAS-affected driving behavior modeling and state-of-the-art microscopic traffic flow modeling into a virtually simulated environment. Building on such an environment, the optimal ADAS algorithm parameter set is identified through an optimization programming framework to enable the maximum safety and mobility improvement. The developed methodology is tested at a freeway facility under both low and high ADAS market penetration rate scenarios. The identified optimal ADAS algorithm parameter set can be used to establish multiple traffic management strategies. These strategies form a pool of candidate plans for the traffic management team to select when they face different control objectives (e.g., safety improvement more important, mobility improvement more important, or balanced safety and mobility improvement). It is also found that the traffic system optimization becomes easier to achieve as the ADAS penetration rate becomes higher. 

This dataset is associated with the following publication:
Liu, H., H. Wei, T. Zuo, Z. Li, and J. Yang. Fine-Tuning ADAS Algorithm Parameters for Optimizing Traffic Safety and Mobility in Connected Vehicle Environment.   TRANSPORTATION RESEARCH. Elsevier Science Ltd, New York, NY, USA, 76: 132-149, (2017).

Tags: advanced-driver-assistance-system-adas, driver-behavior-modeling, microscopic-traffic-flow-modeling, traffic-safety-and-mobility-optimization
Organization: U.S. Environmental Protection Agency
Adrenal-derived stress hormones modulate ozone-induced lung injury and inflammation

This data set shows high throughput gene expression assessment using RNAseq to examine how ozone-induced transcriptional changes in the lung are influenced by adrenalectomy or adrenal demedullation in rats. 
We have previously observed that lung injury and inflammation are diminished in adrenalectomized rats and this study was planned to understand if circulating stress hormones influence ozone transcriptional effects and what ozone-induced pathway changes might be impacted by removal of adrenal glands. 

This dataset is associated with the following publication:
Henriquez, A., J. House, D. Miller, S. Snow, A. Fisher, H. Ren, M. Schladweiler, A. Ledbetter, F. Wright, and U. Kodavanti. Adrenal-derived stress hormones modulate ozone-induced lung injury and inflammation.   TOXICOLOGY AND APPLIED PHARMACOLOGY. Academic Press Incorporated, Orlando, FL, USA, 329: 249-258, (2017).

Tags: adrenalectomy, lung, ozone, rnaseq, stress-hormones
Organization: U.S. Environmental Protection Agency
In vitro dermal absorption of decabromodiphenyl ethane in rat and human skin

In vitro dermal absorption of decabromodiphenyl ethane in rat and human skin. 

This dataset is associated with the following publication:
Knudsen, G., J.M. Sanders, M. Hughes, E. Hull, and L. Birnbaum. The biological fate of decabromodiphenyl ethane following oral, dermal or intravenous administration.   XENOBIOTICA. Taylor & Francis, Inc., Philadelphia, PA, USA, 47(10): 894-902, (2017).

Tags: brominated-flame-retardant, skin
Organization: U.S. Environmental Protection Agency
Data used for Raimondo et al. 2016 "Effects of Louisiana Crude Oil on the Sheepshead Minnow (Cyprinodon variegatus) During a Life-Cycle Exposure to Laboratory Oiled Sediment"

Data are provided describing reproduction, length, weight, liver weight, and ovary weight in fish exposed to sediment spiked with weathered oil. Data are also provided on analytical chemistry of water and sediment to which fish were exposed in various treatments. 

This dataset is associated with the following publication:
Raimondo , S., B. Hemmer , C. Lilavois , J. Krzykwa , A. Almario , J. Awkerman , and M. Barron. Effects of Louisiana crude oil on the sheepshead minnow (Cyprinodon variegatus) during a life-cycle exposure to laboratory oiled sediment.   ENVIRONMENTAL TOXICOLOGY. John Wiley & Sons, Ltd., Indianapolis, IN, USA, 31(11): 1627-1639, (2016).

Tags: chronic-toxicity, fish, growth-effects, length, oil, polycyclic, reproduction, reproductive-effects, sediment-chemistry, sediment-exposure, water-chemistry, wet-weight
Organization: U.S. Environmental Protection Agency
Data supporting study of Ecosystem Metabolism in Pensacola Bay estuary

These files house the data collected during 2013 in lower Pensacola Bay. The data were used to estimate aquatic primary production and respiration. 

This dataset is associated with the following publication:
Caffrey, J., M. Murrell , K. Amacker, J. Harper, S. Phipps, and M. Woodrey. Seasonal and interannual patterns in primary production, respiration and net ecosystem metabolism in three estuaries in the northeast Gulf of Mexico.   Estuaries and Coasts. Estuarine Research Federation, Port Republic, MD, USA,  20, (2013).

Tags: dissolved-oxygen, estuary, eutrophication, net-ecosystem-metabolism, plankton-community-respiration, primary-production
Organization: U.S. Environmental Protection Agency
Prioritization of Contaminants of Emerging Concern in Wastewater Treatment Plant Discharges using Chemical:Gene Interactions in Caged Fish.

We examined whether contaminants present in surface waters could be prioritized for further assessment by linking the presence of specific chemicals to gene expression changes in exposed fish. Fathead minnows were deployed in cages for 2, 4, or 8 days at three locations near two different waste water treatment plant discharge sites in the Saint Louis Bay, Duluth, MN and one upstream control site. The biological impact of 51 chemicals detected in the surface water was determined using biochemical endpoints, exposure activity ratios for biological and estrogenic responses; known chemical:gene interactions from biological pathways and knowledge bases, and analysis of the co-variance of ovary gene expression with surface water chemistry. Thirty-two chemicals were significantly linked by co-variance with expressed genes. No estrogenic impact on biochemical endpoints was observed in male or female minnows. However, bisphenol A was identified by chemical:gene co-variation as the most impactful chemical across the exposure sites. This was consistent with identification of estrogenic effects on gene expression, high exposure activity ratios across all test sites, and historical analysis of the area. Overall, this approach appears useful in examining the impacts of complex mixtures on fish and offers a potential route in linking chemical exposure to adverse outcomes that reduce population sustainability. 

This dataset is associated with the following publication:
Perkins, E., T. Habib, B. Escalon, J. Cavallin, L. Thomas, M. Weberg, M. Hughes, K. Jensen, M. Kahl, D. Villeneuve, G. Ankley, and N. Garcia-Reyero. Prioritization of contaminants of emerging concern in wastewater treatment plant discharges using chemical: Gene interactions in caged fish.   ENVIRONMENTAL SCIENCE & TECHNOLOGY. American Chemical Society, Washington, DC, USA, 51(15): 8701-8712, (2017).

Tags: adverse-outcome-pathway, aquatic-ecosystems, ecotoxicology, endocrine-disruption, great-lakes-restoration-initiative, screening-and-prioritization, transcriptomic, wastewater
Organization: U.S. Environmental Protection Agency
A laboratory comparison of emission factors, number size distributions and morphology of ultrafine particles from eleven different household cookstove-fuel systems

This dataset includes all data used to generate figures in the manuscript and supporting information for the publication entitled "Emission factors, number size distributions and morphology of ultrafine particles in cookstove smoke: A laboratory comparison of different household stove-fuel systems.". 

This dataset is associated with the following publication:
Shen, G., C. Gaddam, S. Ebersviller, R. Vander Wal, C. Williams, J. Faircloth, J. Jetter, and M. Hays. Emission factors, number size distributions and morphology of ultrafine particles in cookstove smoke: A laboratory comparison of different household stove-fuel systems.   ENVIRONMENTAL SCIENCE & TECHNOLOGY. American Chemical Society, Washington, DC, USA, 51(11): 6522-6532, (2017).

Tags: cookstove, cookstoves, efficiency, emission, number-size-distributions, particle-morphology, stove, ultrafine-particles
Organization: U.S. Environmental Protection Agency
Draft Genome Sequence of Mycobacterium chimaera Type Strain Fl-0169T version MRBR00000000.1

The dataset contains the first draft genome sequence of the type strain of Mycobacterium chimaera, Fl-0169. 

This dataset is associated with the following publication:
Pfaller, S., V. Tokarev, C. Kessler, C. McLimans, V. Gomez-Alvarez, J. Wright, D. King, and R. Lamendella. Draft Genome Sequence of Mycobacterium chimaera Type Strain Fl-0169.   Genome Announcements. American Society for Microbiology, Washington, DC, USA, 5(8): e01620-16, (2017).

Tags: drinking-water, genome, mycobacterium-chimaera, pathogen
Organization: U.S. Environmental Protection Agency
LCF data for aging of Cu NPs in soil

Linear combination fitting data for Cu NPs in five soils as a function of aging time. 

This dataset is associated with the following publication:
Sekine, R., E. Marzouk, M. Khaksar, K. Scheckel, J. Stegemeier, G. Lowry, E. Donner, and E. Lombi. Aging of Dissolved Copper and Copper-based Nanoparticles in Five Different Soils: Short term Kinetics vs. Long term Fate.  Edward Gregorich  JOURNAL OF ENVIRONMENTAL QUALITY. American Society of Agronomy, MADISON, WI, USA, 46(6): 1198-1205, (2017).

Tags: aging, copper-nanoparticles, fate-and-transport, synchrotron-speciation
Organization: U.S. Environmental Protection Agency
EXAFS fit parameters for U sorption to nanoparticles in high salt water

Table showing samples and associated scattering paths, interatomic distance, coordination number, energy shift, and error factors. 

This dataset is associated with the following publication:
Li, D., S. Egodawatte, D. Kaplan, S. Larsen, S. Serkiz, J. Seaman, K. Scheckel, J. Lin, and Y. Pan. Sequestration of U(VI) from Acidic, Alkaline, and High Ionic-Strength Aqueous Media by Functionalized Magnetic Mesoporous Silica Nanoparticles: Capacity and Binding Mechanisms.  David Sedlak  ENVIRONMENTAL SCIENCE & TECHNOLOGY. American Chemical Society, Washington, DC, USA, 51(24): 14330-14341, (2017).

Tags: chemical-binding, engineered-nanoparticles-np, seawater, synchrotron-speciation, uranium
Organization: U.S. Environmental Protection Agency
Karna Particle Size Dataset for Tables and Figures

This dataset contains 1) table of bulk Pb-XAS LCF results, 2) table of bulk As-XAS LCF results, 3) figure data of particle size distribution, and 4) figure data for the relationship of As and Pb %IVBA in the <250 µm sieved size fraction vs sieved <250 µm to >150 µm, <150 µm to >75 µm, <75 µm to >38 µm, and <38 µm; and <250 µm ground, and <150 µm sieved and ground. 

This dataset is associated with the following publication:
Karna, R., M. Noerpel, A. Betts, and K. Scheckel. Lead and Arsenic Bioaccessibility and Speciation as a Function of Soil Particle Size.  Emmanuel Doelsch  JOURNAL OF ENVIRONMENTAL QUALITY. American Society of Agronomy, MADISON, WI, USA, 46(6): 1225-1235, (2017).

Tags: arsenic, bioaccessibility, lead, metal-bioavailability, particle-size-distribution, synchrotron-speciation
Organization: U.S. Environmental Protection Agency
Synchrotron data of Pb, As, and Fe speciation in soils

Linear combination data showing the percent distribution of Pb, As, and Fe phases in soil samples exposed to simulated lung fluid. 

This dataset is associated with the following publication:
Kastury, F., E. Smith, R. Karna, K. Scheckel, and A. Juhasz. An inhalation-ingestion bioaccessibility assay (IIBA) for the assessment of exposure to metal(loid)s in PM10.   SCIENCE OF THE TOTAL ENVIRONMENT. Elsevier BV, AMSTERDAM,  NETHERLANDS,  92-104, (2018).

Tags: contaminated-soil, in-vitro-bioaccessibility, inhalation-exposures, metal-bioavailability, synchrotron-speciation
Organization: U.S. Environmental Protection Agency
Assembled cross-species perchlorate dose-response data

This data set contains dose-response data for perchlorate exposure in multiple species.  These data were assembled from peer-reviewed studies.  Species included in this dataset are: rats (Rattus sp.), meadow voles (Microtus sp.), rabbits (Oryctolagus cuniculus), the African clawed frog (Xenopus laevis), zebrafish (Danio rerio), mosquito fish (Gambusia holbrooki), the bobwhite quail (Colinus virginianus), earthworms (Eisenia foetida), mosquito larvae (Culex quinquefasciatus), the water flea (Daphnia magna), and the sand dollar (Peronella japonica). 

This dataset is associated with the following publication:
Hines, D., S. Edwards, R. Conolly, and A. Jarabek. The Aggregate Exposure Pathway (AEP) and Adverse Outcome Pathway (AOP) frameworks facilitate the integration of human health and ecological endpoints for Cumulative Risk Assessment (CRA).   ENVIRONMENTAL SCIENCE & TECHNOLOGY. American Chemical Society, Washington, DC, USA, 52(2): 839-849, (2018).

Tags: aggregate-exposure, cumulative-risk-assessment, ecotoxicology, human-health, perchlorate
Organization: U.S. Environmental Protection Agency
Datasets used in the manuscript titled "Nitrate radicals and biogenic volatile organic compounds: oxidation, mechanisms and organic aerosol"

This dataset documents that all of the data used in the manuscript "Nitrate radicals and biogenic volatile organic compounds: oxidation, mechanisms, and organic aerosol" were from previously published works; no original data is presented as this is a review of the state of the science. 

This dataset is associated with the following publication:
Ng, N., S. Brown, A. Archibald, E. Atlas, R. Cohen, J. Crowley, D. Day, N. Donahue, J. Fry, H. Fuchs, R. Griffin, M. Guzman, H. Herrmann, A. Hodzic, Y. Iinuma, J. Jimenez, A. Kiendler-Scharr, B. Lee, D. Luecken, J. Mao, R. McLaren, A. Mutzel, H. Osthoff, B. Ouyang, B. Picquet-Varrault, U. Platt, H. Pye, Y. Rudich, R. Schwantes, M. Shiraiwa, J. Stutz, J. Thornton, A. Tilgner, B.J. Williams, and R. Zaveri. Nitrate radicals and biogenic volatile organic compounds: oxidation, mechanisms, and organic aerosol.   Atmospheric Chemistry and Physics. Copernicus Publications, Katlenburg-Lindau,  GERMANY, 17: 2103-2162, (2017).

Tags: bvocs, isoprene, monoterpenes, nitrate
Organization: U.S. Environmental Protection Agency
Bioinformatics data for paper

Data for sequence comparison of commamox genomes and genes identified. 

This dataset is associated with the following publication:
Camejo, P., J. Santodomingo, K. McMahon, and D. Noguera. Genome-enabled insights into the ecophysiology of the comammox bacterium Ca. Nitrospira nitrosa.   ENVIRONMENTAL SCIENCE & TECHNOLOGY. American Chemical Society, Washington, DC, USA, 2(5): 1-16, (2017).

Tags: commamox, nitrification
Organization: U.S. Environmental Protection Agency
Corexit 9500 microcosm data

Relative abundance of bacterial groups in the microcosms. 

This dataset is associated with the following publication:
Techtman, S., M. Zhuang, P. Campo-Moreno, E. Holder, R. Conmy, J. Santodomingo, and T. Hazen. Corexit 9500 Enhances Oil Biodegradation and Changes Active Bacterial Community Structure of Oil-Enriched Microcosms.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY. American Society for Microbiology, Washington, DC, USA, 83(10): e03462-16, (2017).

Tags: degradation, polyaromatic-hydrocarbon-pah
Organization: U.S. Environmental Protection Agency
DEVELOPMENT OF A SCREENING APPROACH TO DETECT THYROID DISRUPTING CHEMICALS THAT INHIBIT THE HUMAN SODIUM IODIDE SYMPORTER (NIS)

Data pertaining to a NIS-expressing cell line, hNIS-HEK293T-EPA, and its screening capabilities for determining inhibitors of NIS-mediated iodide uptake. 

This dataset is associated with the following publication:
Hallinger, D., A. Murr, A. Buckalew, S. Simmons, T. Stoker, and S. Laws. Development of a Screening Approach to Detect Thyroid Disrupting Chemicals that Inhibit the Human Sodium/Iodide Symporter (NIS).   TOXICOLOGY IN VITRO. Elsevier Science Ltd, New York, NY, USA,  66-78, (2017).

Tags: chemical-screening, endocrine-disruptors, sodium-iodide-symporter, thyroid
Organization: U.S. Environmental Protection Agency
Lye-data-compiled-scihub

The data contained in this worksheet provides the quantitative detection of potentially pathogenic fungi in treated and untreated rainwater samples. 

This dataset is associated with the following publication:
Kim, T., D. Lye , M. Donohue , J. Mistry , S. Pfaller , S. Vesper , and M.J. Kirisits. Harvested rainwater quality before and after treatment in six full-scale residential systems.   JOURNAL OF AMERICAN WATER WORKS ASSOCIATION. American Water Resources Association, Middleburg, VA, USA, 108(11): E571-E584, (2016).

Tags: aspergillus, legionella, mycobacterium, rainwater, rainwater-harvesting, treatment
Organization: U.S. Environmental Protection Agency
Pilot Plant data for nitrogen removal

Different phylogenetic groups that were identified in this study. 

This dataset is associated with the following publication:
Keene, N.A., S.R. Reusser, M. Scarborough, A. Grooms, M. Seib, J. Santodomingo, and D. Noguera. Pilot Plant Demonstration of Stable and Efficient High Rate Biological Nutrient Removal with Low Dissolved Oxygen Conditions.   WATER RESEARCH. Elsevier Science Ltd, New York, NY, USA, 121: 72-85, (2017).

Tags: biological-nutrient-removal, low-dissolved-oxygen
Organization: U.S. Environmental Protection Agency
Concentration and Quantification of Somatic and F+ Coliphages from Recreational Waters

Dataset describes performance of a culture-based method to concentrate and quantify somatic and F+ coliphages. 

This dataset is associated with the following publication:
McMinn, B., E. Huff, E. Rhodes, and A. Korajkic. Concentration and Quantification of Somatic and F+ Coliphage from Recreational Waters.   JOURNAL OF VIROLOGICAL METHODS. Elsevier Science Ltd, New York, NY, USA, 249: 58-65, (2017).

Tags: bacteriophage, coliphage, recreational-water, ultrafiltration, wastewater
Organization: U.S. Environmental Protection Agency
Triclosan Concentration Data for Lydon et al., 2017

Pharmaceuticals and personal care products, including antimicrobials, can be found at trace levels in treated wastewater effluent. Impacts of chemical contaminants on coastal aquatic microbial community structure and pathogen abundance are unknown despite the potential for selection through antimicrobial resistance. In particular, Vibrio, a marine bacterial genus that includes several human pathogens, displays resistance to the ubiquitous antimicrobial compound triclosan. Here we demonstrated through use of natural seawater microcosms that triclosan (at a concentration of ~5 ppm) can induce a significant Vibrio growth response (68–1,700 fold increases) in comparison with no treatment controls for three distinct coastal ecosystems: Looe Key Reef (Florida Keys National Marine Sanctuary), Doctors Arm Canal (Big Pine Key, FL), and Clam Bank Landing (North Inlet Estuary, Georgetown, SC). Additionally, microbial community analysis by 16 S rRNA gene sequencing for Looe Key Reef showed distinct changes in microbial community structure with exposure to 5 ppm triclosan, with increases observed in the relative abundance of Vibrionaceae (17-fold), Pseudoalteromonadaceae (65-fold), Alteromonadaceae (108-fold), Colwelliaceae (430-fold), and Oceanospirillaceae (1,494-fold). While the triclosan doses tested were above concentrations typically observed in coastal surface waters, results identify bacterial families that are potentially resistant to triclosan and/or adapted to use triclosan as a carbon source. The results further suggest the potential for selection of Vibrio in coastal environments, especially sediments, where triclosan may accumulate at high levels. 

This dataset is associated with the following publication:
Lydon, K.A., D. Glinski, J. Westrich, M. Henderson, and E. Lipp. Effects of triclosan on bacterial community composition and Vibrio populations in natural seawater microcosms.   Elementa: Science of the Anthropocene. University of California Press (UC Press), Oakland, CA, USA, 5(22): 1-16, (2017).

Tags: antimicrobial-resistance, antimicrobials, pharmaceuticals, triclosan, tricolsan, vibrio
Organization: U.S. Environmental Protection Agency