AndreaBozzo/ceres-open-data-index huggingface dataset:
Complete Genome of Stachybotrys chartarum strain 51-11

Complete genome sequence of the fungus Stachybotrys chartarum.  Sequences can be used to identify genes, genetic pathways, gene clusters, genetic organization, etc. utilizing appropriate bioinformatics software. 

This dataset is associated with the following publication:
Betancourt , D., T. Dean , J. Kim, and J. Levy. Genome sequence of Stachybotrys chartarum Strain 51-11.   Genome Announcements. American Society for Microbiology, Washington, DC, USA, 3(6): 1114-1115, (2015).

Tags: complete-genome, fungi, genome, indoor-biocontaminants, stachybotrys-chartarum
Organization: U.S. Environmental Protection Agency
Column NO2 from ground, aircraft and satellite

Vertical and slant column densities over Seoul and Los Angeles. 

This dataset is associated with the following publication:
Judd, L., J.A. Al-Saadi, L. Valin, R.B. Pierce, K. Yang, S.J. Janz, M.G. Kowalewski, J. Szykman, M. Tiefengraber, and M. Mueller. The Dawn of Geostationary Air Quality Monitoring: Case Studies From Seoul and Los Angeles.   Frontiers in Environmental Science. Frontiers, Lausanne,  SWITZERLAND, 6: 85, (2018).

Tags: air-quality, geostationary, geotaso, nitrogen-dioxide-no2, pandora, satellite
Organization: U.S. Environmental Protection Agency
Data for Comparing Exposure Routes of Pesticides in Amphibians

GC/MS and LC/MS-MS analysis of exposure media and concentrations in amphibians following exposure studies. 

This dataset is associated with the following publication:
Glinski, D., R.J. Van Meter, T. Purucker, and M. Henderson. Route of exposure influences pesticide body burden and the hepatic metabolome in post-metamorphic leopard frogs.   SCIENCE OF THE TOTAL ENVIRONMENT. Elsevier BV, AMSTERDAM,  NETHERLANDS, 779: 146358, (2021).

Tags: amphibians, biomarkers, body-burden, dermal-routes, pesticides
Organization: U.S. Environmental Protection Agency
Land use and beach closure 2004-2013 in the United States

The dataset contains the beach closure data and land use information around each beach in 2006 and 2011 in the United States. The original data are created by EPA and USGS and publicly available (the links are provided). 

This dataset is associated with the following publication:
Wu, J., and L. Jackson. Association of land use and its change with beach closure in the United States, 2004-2013.   SCIENCE OF THE TOTAL ENVIRONMENT. Elsevier BV, AMSTERDAM,  NETHERLANDS, 571: 67-76, (2016).

Tags: 10-km, 2-km, 2006, 2011, 5-km, beach-water-quality, ecosystem-health, hydrologic-unit, land-cover, land-use, land-use-change, the-number-of-beach-closure, united-states, urbanization
Organization: U.S. Environmental Protection Agency
Survey of Point Beach, Wisconsin, August 2020

Lake Michigan experiences quasi-decadal fluctuations between high and low water levels, resulting in variable impacts to navigation and tourism, as well as changes in shoreline position and coastal habitat extent. Recent high water levels are a concern for homeowners and policy-makers due to significant shoreline recession. Nearshore waves, currents and bathymetry are major factors influencing local sediment transport and shoreline behavior, but rigorous models of these processes are largely absent for Lake Michigan and frequent real-time surveying can be cost prohibitive for small communities. As such, there have been few attempts to quantitatively estimate potential rates and extents of wave-driven erosion and nearshore sediment transport at sandy coastal systems in the Great Lakes, particularly related to fluctuations in lake level. In this study we numerically model nearshore sediment transport and resulting changes in sandy beach and nearshore morphology in order to estimate future coastal geomorphic change in response to storms and varying lake levels.

Organization: OpenTopography
Survey of Point Beach, Wisconsin, September 2020

Lake Michigan experiences quasi-decadal fluctuations between high and low water levels, resulting in variable impacts to navigation and tourism, as well as changes in shoreline position and coastal habitat extent. Recent high water levels are a concern for homeowners and policy-makers due to significant shoreline recession. Nearshore waves, currents and bathymetry are major factors influencing local sediment transport and shoreline behavior, but rigorous models of these processes are largely absent for Lake Michigan and frequent real-time surveying can be cost prohibitive for small communities. As such, there have been few attempts to quantitatively estimate potential rates and extents of wave-driven erosion and nearshore sediment transport at sandy coastal systems in the Great Lakes, particularly related to fluctuations in lake level. In this study we numerically model nearshore sediment transport and resulting changes in sandy beach and nearshore morphology in order to estimate future coastal geomorphic change in response to storms and varying lake levels.

Organization: OpenTopography
Assessing temporal frequency of cyanobacterial blooms using imagery from the Sentinel-3A satellite sensor.

Assessing temporal frequency of cyanobacterial blooms using imagery from the Sentinel-3A satellite sensor. 

This dataset is associated with the following publication:
Coffer, M., B. Schaeffer, W. Salls, E. Urquhart, K.A. Loftin, R.P. Stumpf, P.J. Werdell, and J. Darling. Satellite remote sensing to assess cyanobacterial bloom frequency across the United States at multiple spatial scales.   ECOLOGICAL INDICATORS. Elsevier Science Ltd, New York, NY, USA, 128: 107822, (2021).

Tags: clustering-analysis, cyanobacteria, indicator, inland-waters, satellite-remote-sensing, water-quality
Organization: U.S. Environmental Protection Agency
EPA Enforcement and Compliance History Online: Water Discharge Monitoring Report Data Sets for FY2014

Integrated Compliance Information System (ICIS) National Pollutant Discharge Elimination System (NPDES) Discharge Monitoring Report (DMR) data sets for Clean Water Act permitted dischargers.

Tags: clean-water-act, compliance, compliance-history, cwa, detailed-facility-report, echo, enforcement, enforcement-actions, environmental-performance, epa-data-download, icis, inspections, npdes, oeca, penalties, permit, permitted-dischargers, permitted-limits, violations
Organization: U.S. Environmental Protection Agency
The association between SAα2,3Gal occurrence frequency and avian influenza viral load in mallards (Anas platyrhynchos) and blue-winged teals (Spatula discors)

The dataset contains the data used to examine how avian influenza infection in mallards and blue-winged teal is associated with the abundance and distribution of different types of sialic acid, the primary influenza receptor in vertebrates. Histochemistry and PCR were used to examine sialic acid and viral titer, respectively. Citation information for this dataset can be found in the EDG's Metadata Reference Information section and Data.gov's References section.

Tags: avian, influenza, lectin-histochemistry, super-shedder
Organization: U.S. Environmental Protection Agency
Sub-lethal and Lethal Methods to Detect Recent Imidacloprid Exposure in Birds with Application to Field Studies

The dataset includes information on birds used in the study and the samples collected as well as imidacloprid and imidacloprid metabolite data. The first author should be contacted prior to using these data at charlotte.roy@state.mn.us. Citation information for this dataset can be found in the EDG's Metadata Reference Information section and Data.gov's References section.

Tags: feces, imidacloprid, metabolite, neonicotinoid, parent-compound, tissue
Organization: U.S. Environmental Protection Agency
EPA Enforcement and Compliance History Online

The Environmental Protection Agency's Enforcement and Compliance History Online (ECHO) website provides customizable and downloadable information about environmental inspections, violations, and enforcement actions for EPA-regulated facilities related to the Clean Air Act, Clean Water Act, Resource Conservation and Recovery Act, and Safe Drinking Water Act. These data are updated weekly as part of the ECHO data refresh, and ECHO offers many user-friendly options to explore data, including:

• Facility Search: ECHO information is searchable by varied criteria, including location, facility type, and compliance status. Search results are customizable and downloadable.

• Comparative Maps and State Dashboards: These tools offer aggregated information about facility compliance status, regulatory agency compliance monitoring, and enforcement activity at the national and state level.

• Bulk Data Downloads: One of ECHO’s most popular features is the ability to work offline by downloading large data sets. Users can take advantage of the ECHO Exporter, which provides summary information about each facility in comma-separated values (csv) file format, or download data sets by program as zip files.

Tags: caa, clean-air-act, clean-water-act, comparative-maps, compliance, compliance-history, cwa, detailed-facility-report, echo, emergency-planning-and-community-right-to-know-act, enforcement, enforcement-actions, environmental-performance, epa-data-download, epcra, inspections, oeca, penalties, permit, rcra, resource-conservation-and-recovery-act, safe-drinking-water-act, sdwa, state-dashboards, state-review-framework, violations
Organization: U.S. Environmental Protection Agency
publication of RARE project mercury results

mercury concentrations determined in fish tissue samples collected from the Penobscot River, Maine. 

This dataset is associated with the following publication:
Melnyk, L., J. Lin, D. Kusnierz, K. Pugh, J. Durant, R. Suarez-Soto, R. Venkatapathy, D. Sundaravadivelu, A. Morris, J. Lazorchak, G. Perlman, and M. Stover. Risks from mercury in anadromous fish collected from Penobscot River, Maine.   ENVIRONMENTAL SCIENCE & TECHNOLOGY. American Chemical Society, Washington, DC, USA, 781: 146691, (2021).

Tags: anadromous, consumption, fish, mercury
Organization: U.S. Environmental Protection Agency
USEEIOv2.0

This dataset provides the waste sector disaggregation data, model component matrices, model result matrices, model price adjustment matrices, and associated metadata for the USEEIOv2.0 model. This model was generated using useeiorv0.4 (https://github.com/USEPA/useeior/tree/v0.4/) by calling the buildModel() function and passing "USEEIOv2.0" as the model. This uses the model configuration file, which can be found @ https://github.com/USEPA/useeior/blob/v0.4/inst/extdata/modelspecs/USEEIOv2.0.yml. The resulting model was exported using the writeModeltoXLSX() function to create this dataset. The waste disaggregation data are required for model building and also embedded in the useeiorv0.4. The generateModelIdentifier() function was used on the same model create the model identifier. The US dollar (USD) year for the model data, where USD is used, is 2012. See any additional notes in Contents on specific components. A complete description can be found in the associated manuscript. 


Tags: input-output-data, life-cycle-assessment, life-cycle-inventory-data, sustainability
Organization: U.S. Environmental Protection Agency
Occurrence of contaminants of emerging concern in aquatic ecosystems utilized by Minnesota tribal communities

The data include sample location information as well as chemical concentration data in water, sediment, and fish tissue. This dataset is not publicly accessible because: The dataset owner and principle investigator requested that the data not be publicly available because they were collected on tribal lands. It can be accessed through the following means: Data can be obtained by contacting project principle investigators, Dr. Seth Moore (samoore@boreal.org) and Dr. Tiffany Wolf (wolfx305@umn.edu). Format: The data are contained in Excel spreadsheets as xlsx and csv files. Citation information for this dataset can be found in the EDG's Metadata Reference Information section and Data.gov's References section.

Tags: aquatic-toxicology, chemicals-of-emerging-concern, ecosystem-health, indigenous-peoples, personal-care-products, pharmaceuticals
Organization: U.S. Environmental Protection Agency
EPA Enforcement and Compliance History Online: Water Discharge Monitoring Report Data Sets for FY2013

Integrated Compliance Information System (ICIS) National Pollutant Discharge Elimination System (NPDES) Discharge Monitoring Report (DMR) data sets for Clean Water Act permitted dischargers.

Tags: clean-water-act, compliance, compliance-history, cwa, detailed-facility-report, echo, enforcement, enforcement-actions, environmental-performance, epa-data-download, icis, inspections, npdes, oeca, penalties, permit, permitted-dischargers, permitted-limits, violations
Organization: U.S. Environmental Protection Agency
Operating Reactor Analytics - Findings

Operating Reactor Analytics - Inspection findings for sites by: site, significance, year, cornerstone, Region, and associated cross cutting aspect (CCA).

Tags: barrier-integrity, emergency-preparedness, initiating-events, inspection-finding, mitigating-systems, most-significant-inspection-findings, occupational-radiation-safety, operating-reactor-analytics, reactor-oversight-process, security
Organization: Nuclear Regulatory Commission
Evaluation of Neurobehavioral Abnormalities and Immunotoxicity in Response to Oral Imidacloprid Exposure in Domestic Chickens (Gallus gallus domesticus)

These data are a result of an experiment to examine the effect of imidacloprid on chicken immunity and behavior. There are therefore several sets of physiological data. Citation information for this dataset can be found in the EDG's Metadata Reference Information section and Data.gov's References section.

Tags: avian-toxicity, behavioral-toxicology, neonicotinoids, neurotoxicity, risk-assessment
Organization: U.S. Environmental Protection Agency
Integrating endocrine-related health effects into comparative human toxicity characterization

This is a manuscript developed by a group at University of Berlin and Danish Technical University, using previously published data from EPA. The only EPA interaction has been providing advice on how to correctly use the data. This dataset is not publicly accessible because: The data were not collected by EPA and are hosted external to the agency. It can be accessed through the following means: Contact the corresponding author Yasmine Emara at the Department of Environmental Technology, Technical University Berlin, 10623 Berlin, Germany. Email: y.emara@tu-berlin.de. Format: Not available. 

This dataset is associated with the following publication:
Emara, Y., P. Fantke, R. Judson, X. Chang, P. Pradeep, A. Lehmann, M. Siegert, and M. Finkbeiner. Integrating endocrine-related health effects into comparative human toxicity characterization.   SCIENCE OF THE TOTAL ENVIRONMENT. Elsevier BV, AMSTERDAM,  NETHERLANDS, 762: 143874, (2021).

Tags: characterization-factor, effect-factor, endocrine-disrupting-chemicals, human-toxicity-characterization, impact-assessment, in-vitro-to-in-vivo-extrapolation
Organization: U.S. Environmental Protection Agency
VA Community Care Comparison  (VAC3)  - FY2021 All Facilities - Formerly Why Not the Best VA

VA Community Care Comparison or VAC3 (formerly Why Not the Best VA) is a system for comparing Veterans Health Administration (VHA) hospital system performance with regional and U.S. national benchmarks.  This report includes key quality measures available on CMS Hospital Compare and top hospital recognition programs from reporting agencies of hospital quality. VAC3 data tables are updated every quarter.

Tags: 2021, fy2021, hai, hcahps, health, healthcare, hedis, hospital, measures, mortality, oryx, performance, psi, quality, vac3, veteran, wntbva
Organization: Department of Veterans Affairs
Survey of Skyline Drive Area, Cañon City, Colorado, April 2021

This Unoccupied Aerial Vehicle (UAV) survey was flown to provide geology field camp students with a high-resolution orthomosaic, Digital Elevation Model (DEM), and Point Cloud of the Skyline Drive area near Cañon City, Colorado. The area contains folded Cretaceous strata in the Frontal Range.  The site contains dinosaurs tracks in the Morrison Formation. The area contains hiking trails popular with residents and tourists.

Organization: OpenTopography
Data associated with comparison of recharge from drywells and infiltration basins: a modeling study

This research effort is a modeling study using the HYDRUS (2D/3D) computer program (www.pc-progress.com) and described in the manuscript/journal article entitled “Comparison of recharge from drywells and infiltration basins: a modeling study.” 

All the tables and figures in the journal article will be documented within an Excel spreadsheet that will include worksheet tabs with data associated with each table and figure.   The tabs, columns, and rows will be clearly labeled to identify table/figures, variables, and units.   

The information supporting the model runs will be supported in the example library of HYDRUS (2D/3D) maintained by PC-Progress.  Non-standard HYDRUS subroutines for the drywell and for the infiltration pond simulations that were funded by this research will be added and made available for viewing and download.  After the 1 year embargo period the site will include a link to the PubMed Central manuscript.  For example, the HYDRUS library for the transient head drywell associated with the Sasidharan et al. (2018) paper is now active (https://www.pcprogress.com/en/Default.aspx?h3d2-lib-Drywell ). 

This dataset is associated with the following publication:
Sasidharan, S., S. Bradford, J. Simunek, and S. Kraemer. Comparison of recharge from drywells and infiltration basins: A modeling study.   JOURNAL OF HYDROLOGY. Elsevier Science Ltd, New York, NY, USA, 594: 125720, (2021).

Tags: drywell, hydrus-2d-3d, managed-aquifer-recharge-mar, vadose-infiltration-well
Organization: U.S. Environmental Protection Agency
Mercury levels in Gambusia in the Florida Everglades, 1995-2014

Mercury concentrations in various environmental media, as well as water quality characteristics, from survey samples taken in the Florida Everglades. Portions of this dataset are inaccessible because: will add after peer review. They can be accessed through the following means: will add after peer review. Format: will add after peer review. 

This dataset is associated with the following publication:
Kalla, P., M. Cyterski, D. Scheidt, and J. Minucci. Spatiotemporal effects of interacting water quality constituents on mercury in a common prey fish in a large, perturbed, subtropical wetland.   SCIENCE OF THE TOTAL ENVIRONMENT. Elsevier BV, AMSTERDAM,  NETHERLANDS, 792: 148321, (2021).

Tags: eastern-mosquitofish-gambusia-holbrooki, everglades, habitat, mercury, organic-carbon, phosphorus, sulfur, trophic-state
Organization: U.S. Environmental Protection Agency
Reactor Oversight Process (ROP) - Inspection Findings

Reactor Oversight Process (ROP) - Inspection Findings, provides the color designation of the most significant inspection findings over the previous 4 quarters

Tags: barrier-integrity, emergency-preparedness, initiating-events, inspection-finding, mitigating-systems, most-significant-inspection-findings, performance-issues-matrix-pim, performance-summary, public-radiation-safety, reactor-oversight-process, security
Organization: Nuclear Regulatory Commission
Ecological insights into temporal dynamics of the bacterial community assembly

These data include detailed sample description (sampling locations, sampling events, DNA concentrations in four separate spreadsheet in an Excel file) and DNA sequencing plate layout. 

This dataset is associated with the following publication:
Li, L., D. Ning, Y. Jeon, H. Ryu, J. SantoDomingo, D. Kang, A. Kadudula, and Y. Seo. Ecological Insights into Assembly Processes and Network Structures of Bacterial Biofilms in Full-scale Biologically Active Carbon Filters under
Ozone Implementation.   SCIENCE OF THE TOTAL ENVIRONMENT. Elsevier BV, AMSTERDAM,  NETHERLANDS, 751: 141409, (2021).

Tags: bacterial-community-assembly-mechanisms, biologically-active-carbon-filters, drinking-water-treatment, ecological-network-structures, functional-potentials
Organization: U.S. Environmental Protection Agency
ESF_PAM_BulkPeriphyton_I-E_data

Dataset represents pulse amplitude modulated (PAM) fluorimetric measurements and other data characterizing the periphytic/biofilm communities inhabiting the stream mesocosm substrates during a test run conducted in 2018. 

This dataset is associated with the following publication:
Katona, L., Y. Vadeboncoeur, C. Nietch, and K. Hossler. A Novel Thin-Film Technique to Improve Accuracy of Fluorescence-Based Estimates for Periphytic Biofilms.   WATER. MDPI AG, Basel,  SWITZERLAND, 13(11): 1464, (2021).

Tags: biofilm, measurement-method, periphyton, photosynthesis, pulse-amplitude-modulated-fluorometry
Organization: U.S. Environmental Protection Agency
Data for Grassland-to-cropland conversion increased soil, nutrient, and carbon losses in the US Midwest between 2008 and 2016

These are the soil quality data for each county (listed by fips code) for each scenario. 

This dataset is associated with the following publication:
Zhang, X., T. Lark, C. Clark, Y. Yuan, and S. LeDuc. Grassland-to-cropland conversion increased soil, nutrient, and carbon losses in the US Midwest between 2008 and 2016.   Environmental Research Letters. IOP Publishing LIMITED, Bristol,  UK, 16: 1-14, (2021).

Tags: biofuel, nitrogen, phosphorus, soil-erosion, soil-quality
Organization: U.S. Environmental Protection Agency
Dataset for Figure 1 - Leveling trend of published microRNA biomarker studies in common biofluids.

PubMed was searched for the terms microRNA and biomarker in addition to blood (blue), urine (orange), saliva (grey), or cerebrospinal fluid (yellow). The graph in the paper displays the number of total annual publications over the past 16 years and the actual numbers used generate this graph are in incuded in the attached spreadsheet. A near annual doubling of publications occurred from the years 2009 until 2015, whereas only a mere 4% increase in annual publications from 2015 until 2018 was noted. While a number of factors can contribute to these publication trends, this indicates an overall cooling of research interest in biofluid-based microRNA biomarker development. 

This dataset is associated with the following publication:
Chorley, B., E. Atabakhsh, G. Doran, J. Gautier, H. Ellinger-Ziegelbauer, D. Jackson, T. Sharapova, P. Yuen, R. Church, P. Couttet, R. Froetschl, J. McDuffie, V. Martine, P. Pande, L. Peel, C. Rafferty, F. Simutis, and A. Harrill. Methodological considerations for measuring biofluid-based microRNA biomarkers.   CRITICAL REVIEWS IN TOXICOLOGY. Taylor & Francis Group, London,  UK, 51(3): 264-282, (2021).

Tags: biofluids, biomarkers, clinical, micrornas, qualification, regulation, review, safety-assessment
Organization: U.S. Environmental Protection Agency
Avoiding Pitfalls When Modeling Removal of Per‐ and Polyfluoroalkyl Substances by Anion Exchange

Time series data from analytical solutions for ion exchange kinetics. 

This dataset is associated with the following publication:
Haupert, L., J. Pressman, T. Speth, and D. Wahman. Avoiding Pitfalls When Modeling Removal of Per‐ and Polyfluoroalkyl Substances by Anion Exchange.   AWWA Water Science. John Wiley & Sons, Inc., Hoboken, NJ, USA, 3(2): e1222, (2021).

Tags: drinking-water, ion-exchange, modeling, pfas
Organization: U.S. Environmental Protection Agency