AndreaBozzo/ceres-open-data-index huggingface dataset:
Data mining approaches to quantifying the formation of secondary organic aerosol

This research used data mining approaches to better understand factors affecting the formation of secondary organic aerosol (SOA). Although numerous laboratory and computational studies have been completed on SOA formation, it is still challenging to determine factors that most influence SOA formation. Experimental data were based on previous work described by Offenberg et al. (2017), where volume concentrations of SOA were measured in 139 laboratory experiments involving the oxidation of single hydrocarbons under different operating conditions. Three different data mining methods were used, including nearest neighbor, decision tree, and pattern mining. Both decision tree and pattern mining approaches identified similar chemical and experimental conditions that were important to SOA formation. Among these important factors included the number of methyl groups, the number of rings and the presence of dinitrogen pentoxide (N2O5). 

This dataset is associated with the following publication:
Olson, D., J. Offenberg, M. Lewandowski, T. Kleindienst, K. Docherty, M. Jaoui, J.D. Krug, and T. Riedel. Data mining approaches to understanding the formation of secondary organic aerosol.   ATMOSPHERIC ENVIRONMENT. Elsevier Science Ltd, New York, NY, USA, 252: 118345, (2021).

Tags: air-quality, air-toxics, data-mining, ozone, secondary-organic-aerosol
Organization: U.S. Environmental Protection Agency
Datasets for Figures and Tables in SIX1 regulates aberrant endometrial epithelial cell differentiation and cancer trajectory

Data associated with the figures presented in this study are images, graphics, or tabulated data based on histopathologic analysis performed by a certified study pathologist or image analysis. Data for Tables 1 and 2 provide incidence, labeling scores, and p-values for statistical tests for uterine pathology and IHC expression by treatment group and timepoint or human endometrial tissue, as described in the Main Text file of the manuscript. Manual histopathologic data can be found in excel spreadsheets and are based on presence/absences (yes/no) of a pathologic finding and/or severity score as described in the manuscript (Fig. 1, 2, 3, 4). The image analysis data is based on the quantified area that is designated as “positive” for a particular immunohistochemical stain (Fig. 2, 4, and Suppl. Fig. S2). Supplementary Table 1 provides summary information on antibodies used for immunohistochemistry. Supplementary fig. S1 includes real time RT-PCR data standardized to a housekeeping gene and western blot data. 

This dataset is associated with the following publication:
Suen, A., W. Jefferson, C. Wood, and C. Williams. SIX1 regulates aberrant endometrial epithelial cell differentiation and cancer trajectory.   Molecular Cancer Research. American Association for Cancer Research, Inc., Philadelphia, PA, USA, 17(12): 2369-2382, (2019).

Tags: cancer, development, early-life-exposure, estrogen
Organization: U.S. Environmental Protection Agency
EPA ORD 2019 benthic survey of the Three Bays estuary, Barnstable, MA

Includes in-situ water quality measurements and sediment grab samples analyzed for grain size distribution, total organic carbon, and benthic macroinvertebrates (counts and taxa) for 25 stations throughout the estuary. Samples were collected September 9-11, 2019. 

This dataset is associated with the following publication:
Erban, L., D. Cobb, C. Strobel, C. Tremper, J. Hagy, and T. Gleason. Summary of benthic conditions in the Three Bays estuary (Cape Cod, MA) as of 2019. U.S. Environmental Protection Agency, Washington, DC, USA, 2021.

Tags: benthic-macroinvertebrates, estuary, habitat-condition, water-quality
Organization: U.S. Environmental Protection Agency
Final_Ozone_instrument_smoke_evaluation_data

EPA Federal Reference Method (FRM) and Federal Equivalent Method (FEM) ozone and supporting (carbon monoxide, nitrogen dioxide, nitrogen oxide, total hydrocarbon) measurements  were made during a combustion chamber experiment in April 2018 at the U.S. Forest Service Rocky Mountain Research Station laboratory (Missoula, MT). In addition, similar measurements were made from a mobile measurement platform in 2017 during a series of prescribed tallgrass prairie burns at Konza Prairie Biological Station (Kansas), Tallgrass Prairie National Preserve (Kansas), and Sycan Marsh Preserve (Oregon). 

This dataset is associated with the following publication:
Long, R., A. Whitehill, A. Habel, S. Urbanski, H. Halliday, M. Colon, S. Kaushik, and M. Landis. Comparison of Ozone Measurement Methods in Biomass Burning Smoke: An evaluation under field and laboratory conditions.   Atmospheric Measurement Techniques. Copernicus Publications, Katlenburg-Lindau,  GERMANY, 14(3): 1783-1800, (2021).

Tags: chemiluminescence, ozone, smoke, uv-photometric
Organization: U.S. Environmental Protection Agency
Pend Oreille River temperature and FLIR

Water temperature data from the Pend Oreille River, Washington and Idaho, 2016-2018
The data were collected summer, 2016, 2017, and 2018. Continuous temperature loggers were deployed along the Pend Oreille River between Albeni Falls Dam and the Box Canyon Dam. Loggers were checked every 1-2 weeks throughout the summer. 

This dataset is associated with the following publication:
Mejia, F.H., C.E. Torgersen, E.K. Berntsen, J.R. Maroney, J.M. Connor, A.H. Fullerton, J. Ebersole, and M.S. Lorang. Longitudinal, lateral, vertical and temporal thermal heterogeneity in a large impounded river: implications for cold-water refuges.   Remote Sensing. MDPI AG, Basel,  SWITZERLAND, 12(9): 1386, (2020).

Tags: pacific-northwest, restoration, spatial-statistical-network-model, stream-and-river-temperature, thermal-refuge, total-maximum-daily-load-tmdl
Organization: U.S. Environmental Protection Agency
Integrated Assessment Model for Valuing Water Quality Changes_BENSPLASH Input Data

Input to EPA BENSPLASH model for Republican River example.  Dataset contains COMID, DATE, PARAMETER, and VALUE.  The baseline file contains current information, the scenario file includes the results of applying the scenario described in the publication. 

This dataset is associated with the following publication:
Corona, J., T. Doley, C. Griffiths, M. Massey, C. Moore, S. Muela, B. Rashleigh, W. Wheeler, S. Whitlock, and J. Hewitt. An Integrated Assessment Model for Valuing Water Quality Changes in the US.   Land Economics. University of Wisconsin Press, Madison, WI, USA, 96(4): 478-492, (2020).

Tags: water-quality-benefits
Organization: U.S. Environmental Protection Agency
LP QPCR vs Culture

Tap water samples measure for Legionella pneumophila  (by QPCR and culture), heterotrophic bacteria, and chlorine residual. 

This dataset is associated with the following publication:
Donohue, M. Quantification of Legionella pneumophila by qPCR and Culture in Tap Water with Different Concentrations of Residual Disinfectants and Heterotrophic Bacteria.   SCIENCE OF THE TOTAL ENVIRONMENT. Elsevier BV, AMSTERDAM,  NETHERLANDS, 774: 145142, (2021).

Tags: chlorine-residual, culture, legionella-pneumophila, qpcr, tap-water
Organization: U.S. Environmental Protection Agency
Extrapolating In Vitro and Ex Vivo Screening Assay Data for Thyroperoxidase Inhibition to Predict Serum Thyroid Hormones in the Rat

This data set is a dose response analysis of two thyroid hormone synthesis disruptors in adult male rats. Data included serum and thyroid gland concentrations of the two chemicals tested, propylthiouracil and methimazole, as well as serum and thyroid gland hormone concentrations. These data were critical for developing a model linking highthroughput assay data on synthesis inhibition to make predictions of thyroid hormone in serum. 

This dataset is associated with the following publication:
Hassan, I., H. El-Masri, J. Ford, A. Brennan, S. Handa, K. Friedman, and M. Gilbert. Extrapolating In Vitro and Ex Vivo Screening Assay Data for Thyroperoxidase Inhibition to Predict Serum Thyroid Hormones in the Rat.   TOXICOLOGICAL SCIENCES. Society of Toxicology, RESTON, VA,  173(2): 280-292, (2020).

Tags: ex-vivo, in-vitro-assay, mathematical-model, thyroid-hormone, thyroperoxidase
Organization: U.S. Environmental Protection Agency
A fulvic acid-like substance participates in the pro-inflammatory effects of cigarette smoke and wood smoke particles

We tested the postulate that 1) a fulvic acid (FA)-like substance is included in cigarette smoke and wood smoke particles and 2) exposure of respiratory epithelial cells to this substance results in a disruption of iron homeostasis associated with both a cell deficiency of the metal and inflammatory response. It was concluded that 1) FA-like substance is included in cigarette smoke and wood smoke particle and 2) respiratory epithelial cell exposure to this substance results in a disruption of iron homeostasis associated with both a cell deficiency of the metal and inflammatory response. 

This dataset is associated with the following publication:
Gonzalez, D., J. Soukup, M. Madden, M. Hays, J. Berntsen, S. Paulson, and A. Ghio. A fulvic acid-like substance participates in the pro-inflammatory effects of cigarette smoke and wood smoke particles..   CHEMICAL RESEARCH IN TOXICOLOGY. American Chemical Society, Washington, DC, USA, 33(4): 999-1009, (2020).

Tags: air-pollution
Organization: U.S. Environmental Protection Agency
THI dataset for ScienceHubJSerrano

Thiacloprid (THI) is a neonicotinoid insecticide of interest to the USEPA due to its low absorption by crops, greater distribution into the surrounding areas, and potential for adverse effect to terrestrial and aquatic organisms. Prior to this report, there was very limited information addressing the ex vivo metabolism of THI by fish species and the metabolic pathways regulating its potential adverse effects. The in vitro and ex vivo biotransformation pathway of THI is defined by the formation of three primary metabolites (TM1, TM2 and TM3) via separate paths differentiated by reductive decyanation, reductive dechlorination with hydration and dealkylation processes, respectively. Kinetic rates were calculated for the rat microsomal decyanation of THI into TM1 (Km=299.2 µM and Vmax=5.3 pmol/min/mg), and for the dealkylation of THI into TM3 (Km=368.9 µM µM and Vmax=3.95 pmol/min/mg). Formation confirmation and identity inference of THI metabolites in absence of standards was achieved by LC-UV and High Resolution-MS strategies. It was concluded that the in vitro and ex vivo metabolic products of THI are conserved both across species (rat and RBT) and levels of biological organization (microsomes and liver slices), as previously reported for the neonicotinoid insecticides Imidacloprid and Acetamiprid. 

This dataset is associated with the following publication:
Serrano, J., R. Kolanczyk, B. Blackwell, B. Sheedy, and M. Tapper. In vitro metabolism assessment of thiacloprid in rainbow trout and rat by LC-UV and high resolution-mass spectrometry.   XENOBIOTICA. Taylor & Francis, Inc., Philadelphia, PA, USA, 51(5): 536-548, (2021).

Tags: hplc-hr-ms, in-vitro-ex-vivo-metabolism, microsomal-fraction, neonicotinoids, precision-cut-slices, rainbow-trout, rat, thiacloprid
Organization: U.S. Environmental Protection Agency
Acetamiprid in pollen_2018_Science Hub_Data.xlxs

Excel file with processed data used to generate each figure in the manuscript. 

This dataset is associated with the following publication:
Camp, A., M. Batres, W. Williams, R. Koethe, K. Stoner, and D. Lehmann. Effects of the neonicotinoid acetamiprid in pollen on Bombus impatiens microcolony development.   ENVIRONMENTAL TOXICOLOGY AND CHEMISTRY. Society of Environmental Toxicology and Chemistry, Pensacola, FL, USA, 39(12): 2560-2569, (2020).

Tags: acetamiprid, bumble-bee, microcolony, neonicotinoids, pesticides, pollen
Organization: U.S. Environmental Protection Agency
H2O2 quant_SciHub_2018

Data summary for each figure. 

This dataset is associated with the following publication:
Lehmann, D., K. Krishnakuman, M. Batres, A. Hakola-Parry, N. Cokcetin, E. Harry, and D. Carter. A Cost Effective Colourimetric Assay for Quantifying Hydrogen Peroxide in Honey.   Access Microbiology. Microbiology Society, London,  UK, 1(10): e000065, (2019).

Tags: citizen-science, hydrogen-peroxide
Organization: U.S. Environmental Protection Agency
PEPFAR Site Performance

This data set contains Quarterly Results and yearly Targets by Operating Unit, PSNU and Facility/Site for Fiscal Years 2016 – 2020 and commonly used indicators across PEPFAR’s Program Areas. For indicator definitions, please consult the latest <a href=https://www.state.gov/wp-content/uploads/2019/10/PEPFAR-MER-Indicator-Reference-Guide-Version-2.4-FY20.pdf target=blank>MER Indicator Reference Guide</a>.For additional PEPFAR data, please visit data.pepfar.gov. Unless otherwise noted, the content, data, documentation, code, and related materials on data.pepfar.gov is public domain and made available with a Creative Commons CC0 1.0 Universal dedication and license-free (per US Code 17 USC § 105). Citation of data.pepfar.gov as a source of the data is appreciated.

Tags: __
Organization: Department of State
PEPFAR Partner Performance

This data set contains Quarterly Results and yearly Targets by Operating Unit, PSNU, Implementing Partner and Funding Agency for Fiscal Years 2016 – 2020 and commonly used indicators across PEPFAR’s Program Areas.  For indicator definitions, please consult the latest <a href=https://www.state.gov/wp-content/uploads/2019/10/PEPFAR-MER-Indicator-Reference-Guide-Version-2.4-FY20.pdf target=blank>MER Indicator Reference Guide</a>.For additional PEPFAR data, please visit data.pepfar.gov. Unless otherwise noted, the content, data, documentation, code, and related materials on data.pepfar.gov is public domain and made available with a Creative Commons CC0 1.0 Universal dedication and license-free (per US Code 17 USC § 105). Citation of data.pepfar.gov as a source of the data is appreciated.

Tags: __
Organization: Department of State
PEPFAR Geographical Analysis – Sub-National Unit FY2016–FY2020

This data set contains Quarterly Results and yearly Targets by Operating Unit and Sub-National Units 1-3 for Fiscal Years 2016 – 2020 for a broad array of indicators across PEPFAR’s Program Areas. Data can be downloaded as a compressed (zip) file, which contains text files in csv (comma separated values) format. For indicator definitions, please consult the latest <a href=https://www.state.gov/wp-content/uploads/2019/10/PEPFAR-MER-Indicator-Reference-Guide-Version-2.4-FY20.pdf target=blank>MER Indicator Reference Guide</a>. For additional PEPFAR data, please visit data.pepfar.gov. Unless otherwise noted, the content, data, documentation, code, and related materials on data.pepfar.gov is public domain and made available with a Creative Commons CC0 1.0 Universal dedication and license-free (per US Code 17 USC § 105). Citation of data.pepfar.gov as a source of the data is appreciated.

Tags: __
Organization: Department of State
PEPFAR Geographical Analysis – Operating Unit FY2016–FY2020

This data set contains Quarterly Results and yearly Targets by Operating Unit for Fiscal Years 2016 – 2020 and commonly used indicators across PEPFAR’s Program Areas. Data can be downloaded as a compressed (zip) file, which contains text files in csv (comma separated values) format. For indicator definitions, please consult the latest <a href=https://www.state.gov/wp-content/uploads/2019/10/PEPFAR-MER-Indicator-Reference-Guide-Version-2.4-FY20.pdf target=blank>MER Indicator Reference Guide</a>For additional PEPFAR data, please visit data.pepfar.gov. Unless otherwise noted, the content, data, documentation, code, and related materials on data.pepfar.gov is public domain and made available with a Creative Commons CC0 1.0 Universal dedication and license-free (per US Code 17 USC § 105). Citation of data.pepfar.gov as a source of the data is appreciated.

Tags: __
Organization: Department of State
Raster outputs in support of Sea Level Affecting Marshes Model (SLAMM) projections for salt marshes of the Lower Delaware Bay

These raster files are associated with the SLAMM projections presented in the EPA report, "Application of the Sea-Level Affecting Marshes Model (SLAMM) to the Lower Delaware Bay, with a Focus on Salt Marsh Habitat" (https://cfpub.epa.gov/si/si_public_record_report.cfm?Lab=NCEA&dirEntryId=344746). A subset of these projections are in turn presented in the journal article associated with the ScienceHub entry, "Framework for assessing salt marsh vulnerability to sea level rise to support management decision making: Delaware Bay case study".

Tags: adaptation, ecosystem-condition, management, salt-marsh, sea-level-affecting-marshes-model, sea-level-rise, storm-surge, vulnerability
Organization: U.S. Environmental Protection Agency
Foreign Affairs Manual (3 FAM) - 3 FAM  3500 UNPAID LEAVE, section  3530 THE FAMILY AND MEDICAL LEAVE ACT OF 1993 (FMLA)

The Foreign Service Act of 1980 mandated a comprehensive revision to the operation of the Department of State and the personnel assigned to the US Foreign Service. As the statutory authority, the Foreign Affairs Manual (FAM), details the Department of Sta

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Organization: Department of State
PISA 2003 Data Analysis Manual SAS

This publication provides all the information required to understand the PISA 2003 educational performance database and perform analyses in accordance with the complex methodologies used to collect and process the data. It enables researchers to both reproduce the initial results and to undertake further analyses. The publication includes introductory chapters explaining the statistical theories and concepts required to analyse the PISA data, including full chapters on how to apply replicate weights and undertake analyses using plausible values; worked examples providing full syntax in SAS®; and a comprehensive description of the OECD PISA 2003 international database.   The PISA 2003 database includes micro-level data on student educational performance for 41 countries collected in 2003, together with students’ responses to the PISA 2003 questionnaires and the test questions. A similar manual is available for SPSS users.

Tags: __
Organization: Department of State
PISA 2015 Results (Volume II)

PISA 2015 Results (Volume II): Policies and Practices for Successful Schools, is one of five volumes that present the results of the PISA 2015 survey, the sixth round of the triennial assessment. It examines how student performance is associated with various characteristics of individual schools and school systems, including the resources allocated to education, the learning environment and how school systems select students into different schools, programmes and classes.

Tags: __
Organization: Department of State
Democratic Republic of the Congo: Status of the Ebola Outbreak

The Ebola outbreak in the Democratic Republic of Congo–first reported on May 8th, 2018–has killed 27 people so far, but remains isolated to the three health zones: Wangata, Iboko, and Bikoro. The location of this outbreak, which includes cases in Mbandaka, a city with a population of approximately 1.2 million that lies on the heavily traveled Congo river, has put at risk Kinshasa, Brazzaville, and the Central African Republic’s capital Bangui.

Tags: ebola-drc-democratic-republic-of-the-congo-outbreak
Organization: Department of State
IAWG FY 2014 Annual Report

This Annual Report by the Interagency Working Group on U.S. Government-Sponsored International Exchanges and Training (IAWG) presents the data, findings and analysis on FY 2013 data and information submitted by reporting federal departments and independent agencies on their respective international exchange and training activities in response to the IAWG annual data call. This report marks the eighteenth year for which the IAWG has compiled this data as the federal government’s clearinghouse for information on U.S. Government-sponsored international exchanges and training.

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Organization: Department of State
2015 IAWG Annual Report on FY 2014 Data

This Annual Report by the Interagency Working Group on U.S. Government-Sponsored International Exchanges and Training (IAWG) presents the data, findings and analysis on FY 2014 data and information submitted by reporting federal departments and independent agencies on their respective international exchange and training activities in response to the IAWG annual data call. This report marks the eighteenth year for which the IAWG has compiled this data as the federal government’s clearinghouse for information on U.S. Government-sponsored international exchanges and training.

Tags: __
Organization: Department of State
Directorate of Defense Trade Controls, End-Use Monitoring Report for FY 2015

This report summarizes the Department of State’s administration of the Blue Lantern end-use monitoring program for fiscal year (FY) 2015. The Blue Lantern program fulfils requirements stipulated in section 40A of the Arms Export Control Act (AECA) (22 U.S.C. 2785). The program monitors the end-use of defense articles, technical data, services, and brokering activities exported through commercial channels and subject to Department of State licenses or other approvals under section 38 of the AECA and the International Traffic in Arms Regulations (ITAR) (22 CFR Parts 120-130), which implement section 38 of the AECA. The Blue Lantern program is managed by the Regional Affairs and Analysis Division (RAA), Office of Defense Trade Controls Policy (DTCP), Directorate of Defense Trade Controls (DDTC), Bureau of Political-Military Affairs (PM).

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Organization: Department of State
MORB_Data

water quality loadings (nitrogen and phosphorous) from SWAT simulations on different crop expansion scenarios. 

This dataset is associated with the following publication:
Chen, P., Y. Yuan, W. Li, S. LeDuc, T. Lark, X. Zhang, and C. Clark. Assessing the Impacts of Recent Crop Expansion on Water Quality in the Missouri River Basin Using the Soil and Water Assessment Tool.   Journal of Advances in Modeling Earth Systems. John Wiley & Sons, Inc., Hoboken, NJ, USA, 13(6): e2020MS002284, (2021).

Tags: land-use-change, missouri-river-basin, nitrogen-loading, phosphorus-loading
Organization: U.S. Environmental Protection Agency
Report to Congress on Direct Commercial Sales Authorizations to Foreign Countries and International Organizations for Fiscal Year 2015

This report covers military assistance and military exports of defense articles and defense services licensed for permanent export to foreign country governments and to international organizations during FY 2015 pursuant to Section 655 of the Foreign Assistance Act (FAA) of 1961, as amended. The report specifies the aggregate dollar value and quantity of defense articles, defense services, and international military education and training activities by category, authorized to each foreign country and international organization, as well as data on the actual shipments occurring during the fiscal year. Actual shipment data contained herein shows the total dollar value of all shipments to each destination. Authorizations in this report are categorized based on the destination country. In accordance with subsection (c) of Section 655, this report is also being made available to the public on the internet through the Department of State, Directorate of Defense Trade Controls (DDTC), at www.pmddtc.state.gov.

Tags: __
Organization: Department of State