AndreaBozzo/ceres-open-data-index huggingface dataset:
River Metrics Data Ver 1

Transcripts from focus groups. 

This dataset is associated with the following publication:
Weber , M., and P. Ringold. River metrics by the public, for the public.   PLoS ONE. Public Library of Science, San Francisco, CA, USA, 14(5): e0214986, (2019).

Tags: ecological-indicator, ecological-production-functions, ecosystem-goods-and-services, final-ecosystem-goods-and-services, focus-groups
Organization: U.S. Environmental Protection Agency
Data used for Appendix B of A natural capital perspective on waterfront revitalization in Great Lakes Areas Concern: Goals, beneficiaries, and indicators

Keyword analysis of nine IAGLR AOC case studies. 

This dataset is associated with the following publication:
Angradi, T., K. Williams, J. Hoffman, and D. Bolgrien. Goals, beneficiaries, and indicators  of waterfront revitalization in Great Lakes Areas of Concern and coastal communities.   JOURNAL OF GREAT LAKES RESEARCH. International Association for Great Lakes Research, Ann Arbor, MI, USA, 45(5): 851-863, (2019).

Tags: aoc-case-studies, ecosystem-indicators, environmental-justice, great-lakes, great-lakes-areas-of-concern, keyword-analysis, natural-capital, sustainability, waterfront-revitalization
Organization: U.S. Environmental Protection Agency
Demodifying RNA for Transcriptomic Analyses of Archival Formalin-Fixed Paraffin-Embedded Samples

Low RNA yield and quality limit use of formalin-fixed paraffin-embedded (FFPE) tissue samples for genomic analyses. In this study, we evaluated methods to demodify RNA highly fragmented and crosslinked by formalin fixation. Primary endpoints were RNA recovery, RNA-sequencing quality metrics, and target gene responses to a reference chemical (phenobarbital, PB). Frozen mouse liver samples from control and PB groups (n=6/group) were divided and preserved for 3 months as follows: frozen (FR); 70% ethanol (OH); 10% buffered formalin for 18 hours followed by ethanol (18F); and 10% buffered formalin (3F). Samples from OH, 18F, and 3F groups were processed to FFPE blocks and sectioned for RNA isolation. The latter group received no additional treatment (3F) or the following demodification protocols: short heated incubation with TAE buffer; overnight heated incubation with an organocatalyst using two different isolation kits; or overnight heated incubation without organocatalyst. TruSeq Stranded Total RNA libraries with Ribo-Zero were built and sequenced using the Illumina HiSeq platform. Extended incubation with or without organocatalyst increased RNA yield >3-fold and enhanced quality compared to 3F, as indicated by higher RNA integrity number (>1.5-fold) and fragment analysis values (>3.0-fold). Post-sequencing metrics showed reduced bias in gene coverage and deletion rates for all extended incubation groups. Following PB-induced differential gene expression analysis, all demodification groups showed increased overlap with FR in genes (73-83%) and pathways (91-94%) compared to 3F overlap with FR (60% and 63%, respectively). These results demonstrate simple changes in RNA isolation methods that can enhance genomic analyses of FFPE samples. 

This dataset is associated with the following publication:
Wehmas, L., C. Wood, R. Gagne, A. Williams, C. Yauk, M. Gosink, D. Dalmas, R. Hao, R. O'Lone, and S. Hester. Demodifying RNA for Transcriptomic Analyses of Archival Formalin-Fixed Paraffin-Embedded Samples.   TOXICOLOGICAL SCIENCES. Society of Toxicology, RESTON, VA,  162(2): 535-547, (2018).

Tags: demodification-methods, formalin-fixed-paraffin-embedded-samples, rna_seq-analysis
Organization: U.S. Environmental Protection Agency
Cost modeling data

The associated excel files hold the cost predictions for nitrate and perchlorate treatment based on a series of assumptions outlined in the paper.  No experimental data was generated in this project. 

This dataset is associated with the following publication:
Latham , M. SSWR FY14 Output Summary Report: Performance information and design tools are developed for innovative technologies and approaches for Small Drinking Water and Wastewater Systems. U.S. Environmental Protection Agency, Washington, DC, USA.

Tags: cost, drinking-water, nitrate, perchlorate, treatment
Organization: U.S. Environmental Protection Agency
Application of a salivary immunoassay in a prospective community study of waterborne infections

The data are stored as a SAS dataset containing PII. The dataset contains baseline questionnaire, monthly follow-up questionnaire data, and results and salivary antibody tests for IgG and IgA response to selected antigens of potentially waterborne pathogens. 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: See above. Format: The study database include baseline questionnaire, monthly follow-up questionnaire, and results of salivary antibody tests for 1,986 study participants. The dataset contains PII data. The data are stored as a SAS database. 

This dataset is associated with the following publication:
Egorov, A., S. Griffin, H. Ward, K. Reilly, G.S. Fout, and T. Wade. Application of a salivary immunoassay in a prospective community study of waterborne infections.   WATER RESEARCH. Elsevier Science Ltd, New York, NY, USA, 142: 289-300, (2018).

Tags: cryptosporidium, drinking-water, noroviruses, recreational-water, salivary-antibody, waterborne-infection
Organization: U.S. Environmental Protection Agency
Coastal Shoreline Resilience Screening Data (CRSI & LQ)

Datasets provided include CRSI scores and regional ranks for original national assessment, and coastal regional rescale for coastal and coastal shoreline (ENOW) counties (Figure 3; Table 1). LQ values are provided for all GOM ENOW counties for total ocean economy employment and for each sector (Table 2). The percentile ranked values for the GOM counties with total ocean economy LQ values >1 are included for CRSI and LQ (Figure 4). Links to the publicly available data used to calculate LQ values is included in the manuscript. 

This dataset is associated with the following publication:
Smith, L., L. Harwell, K. Summers, J. Bousquin, K. Buck, J. Harvey, and M. McLaughlin. Using Re-scaled Resilience Screening Index Results and Location Quotients for Socio-Ecological Characterizations in U.S. Coastal Regions.   Frontiers in Environmental Science. Frontiers, Lausanne,  SWITZERLAND, 7: 96, (2019).

Tags: climate-resilience-screening-index-crsi, location-quotient-lq, natural-hazard-events, re-scaling, u-s-coastal-and-coastal-shoreline-counties
Organization: U.S. Environmental Protection Agency
Data set for Light absorption of organic carbon emitted from burning wood, charcoal, and kerosene in household cookstoves

Optical properties of light absorbing organic aerosol emitted from cookstoves operating with different fuels. 

This dataset is associated with the following publication:
Mingjie, X., S. Guofeng, A. Holder, M. Hays, and J. Jetter. Light absorption of organic carbon emitted from burning wood, charcoal and kerosene in household cookstoves (R2).   ENVIRONMENTAL POLLUTION. Elsevier Science Ltd, New York, NY, USA, 240: 60-67, (2018).

Tags: aerosol-optical-properties, black-carbon, brown-carbon, combustion-emissions, cookstoves, fine-particulate-matter, residential-combustion, secondary-organic-aerosol
Organization: U.S. Environmental Protection Agency
Microbiota alter metabolism and mediate neurodevelopmental toxicity of 17beta-estradiol

Effects of developmental 17beta-estradiol exposure on microbiota and behavior in zebrafish. 

This dataset is associated with the following publication:
Catron, T., A. Swank, L. Wehmas, D. Phelps, S. Keely, N. Brinkman, J. McCord, R. Singh, J. Sobus, C. Wood, M. Strynar, E. Wheaton, and T. Tal. Microbiota alter metabolism and mediate neurodevelopmental toxicity of 17β-estradiol.   Scientific Reports. Nature Publishing Group, London,  UK, 9: Article number 7064, (2019).

Tags: behavior, estradiol, microbiome, zebrafish
Organization: U.S. Environmental Protection Agency
Human Exposure Factors dataset

This dataset consists of the data used to create the tables and figures for this paper. 

This dataset is associated with the following publication:
Baxter, L., K. Dionisio, P. Pradeep, K. Rappazzo, and L. Neas. Human exposure factors as potential determinants of the heterogeneity in city-specific associations between PM2.5 and mortality.   Journal of Exposure Science and Environmental Epidemiology. Nature Publishing Group, London,  UK, 29(4): 557-567, (2019).

Tags: epidemiology, exposure-factors, fine-particulate-matter, meta-regression
Organization: U.S. Environmental Protection Agency
ScID_A-08kr_Biochemical effects of Ag nanomaterials in HepG2 cells_kitchin

transformed raw data. 

This dataset is associated with the following publication:
Kitchin, K., J. Richards, B. Robinette, K. Wallace, N. Coates, B. Castellon, E. Grulke, and J. Kou. Biochemical effects of some CeO2, SiO2, and TiO2 nanomaterials in HepG2 cells..   CELL BIOLOGY AND TOXICOLOGY. Springer, New York, NY, USA, 35(2): 129-145, (2019).

Tags: ag, agno3, hepg2, liver, nanomaterial, nanoparticle, oxidative-stress
Organization: U.S. Environmental Protection Agency
Simulating Lightning NOX Production in CMAQv5.2: Performance Evaluations

The description of the dataset and all relevant information are provided at the linked webpage. 

This dataset is associated with the following publication:
Kang, D., K. Foley, R. Mathur, S. Roselle, K. Pickering, and D. Allen. Simulating Lightning NO Production in CMAQv5.2: Performance Evaluations.   Geoscientific Model Development. Copernicus Publications, Katlenburg-Lindau,  GERMANY, 12(10): 4409–4424, (2019).

Tags: air-quality, lightning-nox-emissions, nox-emissions, ozone
Organization: U.S. Environmental Protection Agency
Sequential Sampling Paper

This work discusses drinking water sampling efforts for lead in Flint, MI. 

This dataset is associated with the following publication:
Lytle, D., M. Schock, K. Wait, K. Cahalan, V. Bosscher, A. Porter, and M. Deltoral. SEQUENTIAL DRINKING WATER SAMPLING AS A TOOL FOR EVALUATING LEAD IN FLINT, MICHIGAN.   WATER RESEARCH. Elsevier Science Ltd, New York, NY, USA, 157: 40-54, (2019).

Tags: drinking-water, lead, orthophosphate, sequential-samples
Organization: U.S. Environmental Protection Agency
Stream Tables Associated with the Case Study: Coal biomass to methanol, methanol to acetic acid, and life cycle results before and after implementing the pollution control units. All data are computer simulation results.

The dataset files contain the chemical process simulation results (mass and energy flows) for the production of acetic acid from coal and methanol. Also, it has the life cycle inventory (LCI) results when air emissions are treated by the pollution control unit (PCU) modules. The datasets show the full LCI input/output results from the application of the PCUs to the methanol-to-acetic acid (AA) sub-process. 

This dataset is associated with the following publication:
Li, S., Y. Feliachi, S. Agbleze, G. Ruiz-Mercado, R. Smith, D. Meyer, M. Gonzalez, and F.V. Lima. A process systems framework for rapid generation of life cycle inventories for pollution control and sustainability evaluation.   CLEAN TECHNOLOGIES AND ENVIRONMENTAL POLICY. Springer-Verlag, New York, NY, USA, 20(7): 1543-1561, (2018).

Tags: air-emissions, chemical-manufacturing, chemical-safety-for-sustainability, energy-flows, life-cycle-environmental-assessment, life-cycle-inventory, mass-flows, utility
Organization: U.S. Environmental Protection Agency
Emergy tables of unit process involved in struvite and DAP productions

This dataset compiled the emergy tables of different unit processes used in in struvite production and DAP production. 

This dataset is associated with the following publication:
Theregowda, R., A. González-Mejía, C. Ma, and J. Garland. Nutrient recovery from municipal wastewater for sustainable food production systems: An alternative to traditional fertilizers..   ENVIRONMENTAL ENGINEERING SCIENCE. Mary Ann Liebert, Inc., Larchmont, NY, USA, 36(7): 833-842, (2019).

Tags: emergy, fertilizer, nutrient-recovery, resource-recovery, struvite, system-analysis, wastewater
Organization: U.S. Environmental Protection Agency
Decentralized water reuse for San Francisco building and district scenarios

The dataset included the inventories, impact assessments and cost analyses of different scenarios at the different scales (building and district) and with different water source being reuse (mixed wastewater, graywater).  And also inventoaries for thermal recovery and vertical flow wetland. 

This dataset is associated with the following publication:
Morelli, B., S. Cashman, X. Ma, J. Garland, D. Bless, and M. Jahne. Life Cycle Assessment and Cost Analysis of Distributed Mixed Wastewater and Graywater Treatment for Water Recycling in the Context of an Urban Case Study. U.S. Environmental Protection Agency, Washington, DC, USA, 2019.

Tags: water-reuse
Organization: U.S. Environmental Protection Agency
A runoff trading system to meet watershed-level stormwater reduction goals with parcel-level green infrastructure installation

Data are estimated stormwater values based on curve numbers (CN) values are based on hydrologic soil groups (A, B, C, and D) and four land cover types in the study area, such as, grassland, forest land, impervious area, and other open space.  We apply SMPSS-TRAC to a watershed located in Hamilton County, Ohio, USA and develop five scenarios representing increasing use of GI.  We test the scenarios under a 5-year rainfall intensity and set a cap of runoff for each scenario at a level that is equal to the runoff from an undeveloped status (1.03-inch runoff depth for the watershed).  With the proposed SMPSS-TRAC, the watershed authority could encourage all parcel owners to install suitable GI or purchase credits from the market. 

This dataset is associated with the following publication:
Fu, X., M. Hopton, X. Wang, H. Goddard, and H. Liu. A runoff trading system to meet watershed-level stormwater reduction goals with parcel-level green infrastructure installation.   SCIENCE OF THE TOTAL ENVIRONMENT. Elsevier BV, AMSTERDAM,  NETHERLANDS, 689: 1149-1159, (2019).

Tags: green-infrastructure, planning-support-system, scenario-planning, stormwater-management, stormwater-trading
Organization: U.S. Environmental Protection Agency
Metadata for a manuscript entitled 'Treatment of reverse osmosis concentrate using an algal-based MBR combined with ozone pretreatment'

No data is available because the raw data was not generated in EPA. This dataset is not publicly accessible because: All data for this manuscript were collected and managed by our collaborator, Sejong University in Seoul Korea. It can be accessed through the following means: Contact Dr. Hyunchul Kim (animaplus@hanmail.net). Format: N/A. 

This dataset is associated with the following publication:
Woo, H., H.S. Yang, T. Timmes, C. Han, J. Nam, S. Byun, S. Kim, H. Ryu, and H. Kim. Treatment of reverse osmosis concentrate using an algal-based MBR combined with ozone pretreatment.   WATER RESEARCH. Elsevier Science Ltd, New York, NY, USA, 159: 164-175, (2019).

Tags: fouling, microalgae, microfiltration, ozonation, reverse-osmosis-concentrate
Organization: U.S. Environmental Protection Agency
Dataset associated with ORD-025118: Using a Gene Expression Biomarker to Identify DNA Damage-Inducing Agents in Microarray Profiles

Datasets used in ORD-025118: Using a Gene Expression Biomarker to Identify DNA Damage-Inducing Agents in Microarray Profiles. 

This dataset is associated with the following publication:
Corton, C., A. Williams, and C. Yauk. Using a Gene Expression Biomarker to Identify DNA Damage-Inducing Agents in Microarray Profiles.   ENVIRONMENTAL AND MOLECULAR MUTAGENESIS. John Wiley & Sons, Inc, Hoboken, NJ, USA, 59(9): 772-784, (2018).

Tags: biomarker, dna-damage, genotoxicity, microarray, toxicogenomics
Organization: U.S. Environmental Protection Agency
Inflammatory Cytokines and White Blood Cell Counts Response to Environmental

This dataset contains a summary of compounds found in human blood samples. 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 analyzed data cannot be made publicly available. Format: The original dataset contains identification information for the sample subjects and all of their descriptors including age, gender, race, and medical screening information.   The analyzed data cannot be made publicly available. 

This dataset is associated with the following publication:
Stiegel, M., J. Pleil , J. Sobus , and M. Madden. Inflammatory Cytokines and White Blood Cell Counts Response to Environmental Levels of Diesel Exhaust and Ozone Inhalation Exposures.   PLoS ONE. Public Library of Science, San Francisco, CA, USA, 11(4): e0152458, (2016).

Tags: biomonitoring-measurements, environmental-measurements, gas-chromatography-mass-spectrometry-gc-ms, immunochemistry, inflammatory-markers, non-targeted-analysis, ozone, pm2-5, thermal-desorption, volatile-organic-compounds-vocs
Organization: U.S. Environmental Protection Agency
KC-TRAQS data fusion

Data collected during the Kansas City Transportation and Local-Scale Air Quality Study (KC-TRAQS). 

This dataset is associated with the following publication:
Isakov, V., S. Arunachalam, R. Baldauf, M. Breen, P. Deshmukh, A. Hawkins, E. Kimbrough, S. Krabbe, B. Naess, M. Serre, and A. Valencia. Combining Dispersion Modeling and Monitoring Data for Community-Scale Air Quality Characterization.   ATMOSPHERE. MDPI AG, Basel,  SWITZERLAND, 10(10): 610, (2019).

Tags: air-pollution, dispersion-modeling, near-source, rail-yard
Organization: U.S. Environmental Protection Agency
NHDPlusV2_Catchment_RBI_data

Table of RBI metrics aggregated to each catchment. 

This dataset is associated with the following publication:
Bousquin, J., and H. Kristen. A Geospatial Assessment of Flood Vulnerability Reduction by Freshwater Wetlands – A Benefit Indicators Approach.   Frontiers in Environmental Science. Frontiers, Lausanne,  SWITZERLAND, 7: 54, (2019).

Tags: benefit-indicators, flooding, geospatial-analysis, resilience, wetlands
Organization: U.S. Environmental Protection Agency
Observations of total phosphorous (TP) to support nearshore nutrient modeling, 2015.

The USEPA participated in the 2015 Cooperative Science and Monitoring Initiative
(CSMI) focus year for Lake Michigan.  This work is describd here:
http://www.iiseagrant.org/pdf/LakeMichiganCSMI2015FullReport.pdf

As a small sub-component of this work EPA staff collected water quality data
at the locations listed in grand_musk_tp.csv.  The fields in grand_musk_tp.csv
are described in grand_musk_tp.metadata.csv.  This data was collected to
support (provide validation data for) EPA nearshore nutrient modeling work
described in the paper (in prep.) “Nearshore Nutrient Circulation in the Great
Lakes - can a simple model provide transparency and utility?”.


Tags: model, nearshore, phosphorus
Organization: U.S. Environmental Protection Agency
MagnusonMatthew_A-fqzq_dataset_20191003.xlsx

Data corresponding to graphs in paper. 

This dataset is associated with the following publication:
Oster, C., M. Kaminski, J. Jerden, and Y. Franchini. Evaluating Solid Sorbents for Recycling Wash Waters Containing Strontium and Calcium.   Journal of Hazardous, Toxic, and Radioactive Waste. American Society of Civil Engineers  (ASCE), Reston, VA, USA, 23(1): ., (2019).

Tags: nuclear-power-plant, radiological, radiological-dispersal-device, rdd, sr-90, stronium
Organization: U.S. Environmental Protection Agency
Boreal bird body mass dataset (Holling 1992)

The dataset provided by Holling(1922) includes species and body masses of boreal forest birds.  It is a commonly used dataset for discontinuity analysis. This dataset is not publicly accessible because: It is secondary data accessible online. It can be accessed through the following means: All data used are freely available and located in the appendix of Holling (1992):https://esajournals.onlinelibrary.wiley.com/doi/abs/10.2307/2937313. Format: Electronic text files. 

This dataset is associated with the following publication:
Barichievy, C., D. Angeler, T. Eason, A. Garmestani, K. Nash, C. Stow, S. Sundstrom, and C. Allen. A method to detect discontinuities in census data.   Ecology and Evolution. Wiley-Blackwell Publishing, Hoboken, NJ, USA, 8(19): 9614-9623, (2018).

Tags: boreal-forest-birds, complex-systems, discontinuity-analysis, ecosystem-management, environmental-change, governance, law-and-policy, leading-indicators, resilience
Organization: U.S. Environmental Protection Agency
Unmix Optimum Input Data Files and Model Results

Unmix Optimum input files and results for the LBL, and 40 Lakes regions (East, Central, West). 

This dataset is associated with the following publications:
Norris , G., and R.C. Henry. Coal Tar Sealant Sediment Source Apportionment Paper Review and Analysis with Unmix Optimum. U.S. Environmental Protection Agency, Washington, DC, USA.
Norris, G., and R. Henry. Unmix Optimum analysis of PAH sediment sources.   SCIENCE OF THE TOTAL ENVIRONMENT. Elsevier BV, AMSTERDAM,  NETHERLANDS, 673: 831-838, (2019).

Tags: coal-tar-sealant, pah, sediment, source-apportionment, unmix-optimum
Organization: U.S. Environmental Protection Agency
References - 508 compliant

Three files are available. The first contains a listing of references evaluated in this review article. The second and third contain data extracted from each of those references. Those data files contain details about error type, pollutant, bias, and coverage probability. 

This dataset is associated with the following publication:
Richmond-Bryant, J., and T. Long. Influence of Exposure Errors on Results from Epidemiologic Studies of Different Designs.   Journal of Exposure Science and Environmental Epidemiology. Nature Publishing Group, London,  UK,  1-10, (2019).

Tags: air-pollution, epidemiology, exposure-measurement-error, nitrogen-dioxide, particulate-matter, sulfur-dioxide
Organization: U.S. Environmental Protection Agency
Data for Fluctuating Emissions and Availability of Health Reference Values: Implications for Estimating Acute Exposure and Health Risk (Manuscript)

This the raw data that the manuscript: Fluctuating Emissions and Availability of Health Reference Values: Implications for Estimating Acute Exposure and Health Risk is based on. 

This dataset is associated with the following publication:
Stewart, M., J. Hirtz, G. Woodall, C. Weitekamp, and K. Spence. A Comparison of Hourly with Annual Air Pollutant Emissions: Implications for Estimating Acute Exposure and Public Health Risk.   JOURNAL OF THE AIR & WASTE MANAGEMENT ASSOCIATION. Air & Waste Management Association, Pittsburgh, PA, USA, 69(7): 848-856, (2019).

Tags: air-toxics, emissions, risk-assessment
Organization: U.S. Environmental Protection Agency