cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.23719/1427298
title: Acrolein Inhalation Alters Myocardial Synchrony and Performance at and Below Exposure Concentration that Cause Ventilatory Responses in Mice

description: we examined the cardiovascular effects acrolein inhalation, particularly on myocardial synchrony and performance via ultrasound echocardiography. Male C57Bl/6J mice (n=6/group) were exposed to filtered air (FA), 0.3 ppm acrolein, or 3.0 ppm acrolein for 3 hours in whole body plethysmography chambers. Cardiac strain data, heart function, and transmitral blood flow were investigated with echocardiography (40 MHz) 1 day prior to exposure, 1 hour after exposure, and 1 day after exposure. During the first 30 minutes of exposure, breathing frequency decreased. tidal volume increased, and expiratory/inspiratory time ratio increased in response to 3.0 ppm acrolein. Elapsed time between peak strain in adjacent wall segments (i.e. myocardial strain delay), a measure of myocardial dyssynchrony, increased significantly in mice exposed to 3.0 ppm acrolein at 1 and 24 hours post-exposure. Mice exposed to 0.3 ppm acrolein did not demonstrate changes in myocardial synchrony but did show decreases in myocardial performance, i.e. increased Tei index, at both 1 and 24 hours post-exposure.
DOI: 10.23719/1431903
title: Concentrations of total phosphorus and ortho phosphate in inflow and outflow

description: The dataset includes total phosphorus and ortho-phosphate concentrations in water.
DOI: 10.23719/1432209
title: Defining the Taxonomic Domain of Applicability for Mammalian-Based High-Throughput Screening Assays

description: Final Data SeqAPASS v3.0.zip contains datasets from Sequence Alignment to Predict Across Species Susceptibility (SeqAPASS) tool versions 3.0 for all 497 proteins evaluated using Level 1 (primary amino acid sequence comparisons) and Level 2 (functional domain(s) sequence comparisons) to understand conservation of HTS targets across species. Each folder is labeled by the protein accession (identification number and SeqAPASS version), with subfolders containing Level 1 and Level 2 output from the SeqAPASS tool.
SeqAPASS v3.0 Data in Assay Groups.zip Contains all SeqAPASS data sorted by ToxCast Assay Group (as described in manuscript materials and methods). The original SeqAPASS data for each assay group are found in the folders titled Cell Adhesion, Cytochrome P450, Cytokine, DNA Binding, Esterase, G protein-coupled receptor, Growth Factor, Hydrolase, Ion Channel, Kinase, Lyase, Methyltransferase, Nuclear Receptor, Oxidoreductase, Phophatase, Protease, Protease Inhibitor, and Transporter. The Data_L1_Output folders and Data_L2_Output folders provide summaries of the Level 1 and Level 2 data comparing across datasets (See manuscript Supplemental Data, Legend for further details)
DOI: 10.23719/1433344
title: CRE wastewater survey

description: Isolates listed by unique identifiers and levels of resistance to various antibiotics.
DOI: 10.23719/1434283
title: 1990-2010 PM & O3 concentrations and related premature mortality estimates

description: This data sets includes data shown in the Figures and Tables in the publication by Zhang et al (2018):  https://doi.org/10.5194/acp-2018-498
DOI: 10.23719/1434292
title: Data contributed by EPA/ORD/NERL/CED researchers to the manuscript "Seasonal ozone vertical profiles over North America using the AQMEII group of air quality models: model inter-comparison and stratospheric intrusions"

description: This dataset contains the data contributed by EPA/ORD/NERL/CED researchers to the manuscript "Seasonal ozone vertical profiles over North America using the AQMEII group of air quality models: model inter-comparison and stratospheric intrusions" led by Dr. Marina Astitha of the University of Connecticut.
DOI: 10.23719/1434297
title: Data contributed by EPA/ORD/NERL/CED researchers to the manuscript "Attributing Differences in the Fate of Lateral Boundary Ozone in AQMEII3 Models to Physical Process Representations"

description: This dataset contains the data used in the Figures and Tables of the manuscript “Attributing Differences in the Fate of Lateral Boundary Ozone in AQMEII3 Models to Physical Process Representations ".
DOI: 10.23719/1434939
title: Excel spreadsheet of data used in Figure 3

description: Distribution of doses of a volatile organic compound from inhalation of one consumer product, other near -field sources, far-field sources, and aggregate (total) exposure. In this instance, far-field scenarios account for several orders of magnitude of less of the predicted dose compared to near-field scenarios.
DOI: 10.23719/1435612
title: Results for calcification and ingestion and retention rates of microbeads and microplastics. 

description: Data is for three experiments. The first experiment examined calcification effects of ingested microbeads. The second experiment observed ingestion rates of four size classes of microbeads and how long they were retained. The third experiment observed and compared ingestion rates of one microbead size class and microfibers 3-5mm in length.
DOI: 10.23719/1500002
title: Assessing the Impact of Overburden Materials Selection from an Appalachian Region Coal Mine in Mine Water Quality Using a Standard Columns Leaching Test

description: The objective of this study was to evaluate the leachate conductivity generated by overburden materials in a columns test representing the surface coal mining conditions and its correlation with cations, anions, pH, and alkalinity in two scenarios: “Altered” and “Unaltered” with the application of the screening and segregation proposed method. . For the Unaltered scenario, all strata were included; while the Altered scenario excluded the overburden strata with the highest 15% conductivities measured in the screening-level assessment. The 15% selection criterion was based on the best professional judgment that this would be a reasonable overburden quantity to be selectively identified and isolated in a surface coal mining operation.
DOI: 10.23719/1500004
title: Summary of test data for CIPP liner

description: Table 1. Selected Innovative Rehabilitation Technologies - summarizes the descriptions of the technologies.
Table 2.  Summary of test data for CIPP liner - gives the values of the lab results.
Table 3.  Summary of Four Technology Evaluations - summarizes the benefits of technologies
DOI: 10.23719/1500029
title: Multivariate Calibration for Carbon Nanotubes in the Environment Using the Microwave Induced Heating Method

description: The data set contains the details on the microwave calibrations for carbon nanotubes, the variance predictors and responses by the components applying partial least square regression. Also contains a summary of the model fitness for carbon nanotubes quantification and its corresponding statistics.  The data set includes the quantification of CNTs in different matrices: soil and sludge.
DOI: 10.23719/1502439
title: EPAdata_MLS_paper2

description: EPA Draft Method C QPCR cycle threshold (Ct) measurements of standardized reference materials and blinded test samples as described in D-EMMD-MEB-025-QAPP-01 and Journal article.
DOI: 10.23719/1395143
title: Predicting Potential Human Health Risk with the Tox21 10k Library

description: This study represents the first report applying IVIVE approaches and exposure comparisons using the entirety of the Tox21 federal collaboration chemical screening data, incorporating assay response efficacy and quality of concentration-response fits, and providing quantitative anchoring to first address the likelihood of human in vivo interactions with Tox21 compounds. This likelihood was assessed using a maximum blood concentration to in vitro response ratio approach (Cmax/AC50), analogous to decision-making methods for clinical drug-drug interactions. Fraction unbound in plasma (fup) and intrinsic hepatic clearance (CLint) parameters were estimated in silico and incorporated in a 3-compartment toxicokinetic (TK) model to first predict Cmax for in vivo corroboration using therapeutic scenarios.
DOI: 10.23719/1395343
title: Bioaccumulation of highly hydrophobic chemicals by Lumbriculus variegatus

description: Sediment was dosed with six highly hydrophobic chemicals with estimated log Kows ranging up to 18.3.  Sediment bioaccumulation tests with Lumbriculus variegatus were performed with the dosed sediment.  The attached dataset contains the concentrations in the organisms from the uptake and elimination portions of the test. and supporting data, e.g. lipid contents and weight change for the organisms.
DOI: 10.23719/1407617
title: FL estuaries RESTORE

description: light attenuation data within NW Florida estuaries during 2009-2013
DOI: 10.23719/1407647
title: Dataset for paper: Evaluating the performance of household liquefied petroleum gas cookstoves

description: This dataset provides supporting information for figures in the journal article entitled: Evaluating the performance of household liquefied petroleum gas cookstoves.
DOI: 10.23719/1408773
title: Data Set for A Call for an Aloft Air Quality Monitoring Network: Need and Feasibility

description: This data set contains all relevant data used in the creation of the 4 illustrations in the manuscript. In all cases the data have been processed (averaged/aggregated over space and/or time) from the original data which was at finer spatial or temporal resolution. The observational data sets are publicly available from the CASTNET site. Raw model outputs can be made available by contacting the corresponding author.
DOI: 10.23719/1417304
title: Emergy accounting of Greater Cincinnati water and wastewater systems

description: All the data used to generate figures and tables, the background data such as unit emergy value library are in the dataset.
DOI: 10.23719/1423768
title: A state-of-the-science review of chemical and non-chemical stressors found in the built and natural environments and how they may impact American Indian/Alaska Native children’s health and well-being: Dataset

description: Data gathered from 35 published references (until 2016) targeting built and natural environment stressors for American Indian/Alaska Native children.
DOI: 10.23719/1429305
title: A Database of Historical Benthic Invertebrate Biodiversity Spanning 182 Years in Narragansett Bay (Rhode Island and Massachusetts)_Data_ v1

description: To examine biodiversity trends over time, a master list was compiled of all benthic invertebrate species collected from the Narragansett Bay beginning with Totten’s 1834 descriptions of mollusks, Leidy’s collections in 1855, Verrill and Smith’s surveys beginning in 1871, and studies at Alexander Agassiz’s Newport Marine Zoological Laboratory, 1873–1910. The list, spanning 182 years, was compiled from 104 sources and includes invertebrate macrofauna (>0.5 mm) and more limited studies of meiofauna. It currently holds over 1,200 unique taxa from 21 phyla. Information given for each collection record includes: current accepted scientific name, when and where sampled, by whom (with citation), gear used, and full taxonomic hierarchy.
DOI: 10.23719/1429982
title: Gene transcription ontogeny of hypothalamic-pituitary-thyroid axis development in early-life stage fathead minnow and zebrafish

description: Disruption of thyroid hormone signaling is a form of endocrine disruption that is of concern to both human health and ecosystems. Research is being conducted to define the biological targets chemicals may interact with to disrupt thyroid hormone signaling and the stages in development where that disruption can most readily lead to adverse effects. The present data characterize the expression of key genes associated with thyroid hormone signaling and regulation over the course of development for two small fish widely used in aquatic ecotoxicology research. These data provide baseline information that can lead to a more complete understanding of which thyroid disrupting chemicals fish may be susceptible to and at which stages in development.
DOI: 10.23719/1432529
title: Data for 3D Organoid Model Assessment of Influence of Chemicals on Morphogenetic Fusion.

description: Organogenesis in the embryo involves cell differentiation and organization events that are unique to each tissue and organ and are susceptible to developmental toxicants. Animal models are the gold standard for identifying putative teratogens, but the limited throughput of developmental toxicological studies in animals coupled with the limited concordance between animal and human teratogenicity motivates a different approach. In vitro organoid models can mimic the cellular architecture and phenotype of many tissues and organs, and the three-dimensional (3D) architecture of organoids presents an opportunity to study developmental human toxicology. Common themes during development like the involvement of epithelial-mesenchymal transition and tissue fusion present an opportunity to develop in vitro models to study cell and tissue morphogenesis. We previously described organoids composed of human stem and progenitor cells that recapitulated the cellular features of palate fusion, and here we further characterized the model by examining pharmacological inhibitors targeting known palatogenesis and epithelial morphogenesis pathways as well as twelve cleft palate teratogens identified from rodent models. Organoid survival was dependent on signaling through EGF, IGF, HGF, and FGF pathways, and organoid fusion was disrupted by inhibition of BMP signaling. We observed concordance between the effects of EGF, FGF, and BMP inhibitors on organoid fusion and epithelial cell migration in vitro, suggesting that organoid fusion is dependent on epithelial morphogenesis. Three of the twelve putative cleft palate teratogens studied here significantly disrupted in vitro fusion, including theophylline, triamcinolone, and valproic acid. Tributyltin chloride and all-trans retinoic acid (ATRA) were cytotoxic to fusing organoids.  The study herein demonstrates the utility of the in vitro fusion assay for identifying chemicals that disrupt human organoid survival and morphogenesis in a scalable format amenable to toxicology screening.
DOI: 10.23719/1432673
title: Source Strength Functions from Long-Term Monitoring Data and Spatially Distributed Mass Discharge Measurements

description: Source strength functions (SSF), defined as contaminant mass discharge or flux-averaged concentration from dense nonaqueous phase liquid (DNAPL) source zones as a function of time, provide a quantitative model of DNAPL source-zone behavior.  Such information is useful for making site management decisions.  We investigate the use of historic data collected during long-term monitoring (LTM) activities at a site in Rhode Island to predict the SSF based on temporal mass discharge measurements at a fixed location, as well as SSF estimation using mass discharge measurements at a fixed time from three spatially distributed control planes.  Mass discharge based on LTM data decreased from ~300 g/day in 1996 to ~70 g/day in 2012 at a control plane downgradient of the suspected DNAPL source zone, and indicates an overall decline of ~80% in 16 years.  These measurements were compared to current mass discharge measurements across three spatially distributed control planes.  Results indicate that mass discharge increased in the downgradient direction, and was ~6 g/day, ~37 g/day, and ~400 g/day at near, intermediate, and far distances from the suspected source zone, respectively.  This behavior was expected given the decreasing trend observed in the LTM data at a fixed location.  These two data sets were compared using travel time as a means to plot the data sets on a common axis.  The similarity between the two data sets gives greater confidence to the use of this combined data set for site-specific SSF estimation relative to either the sole use of LTM or spatially distributed data sets.
DOI: 10.23719/1432766
title: Data for organotypic stem cell model for human embryonic palatal fusion.

description: Cleft palate (CP) is a common birth defect, occurring in an estimated 1 in 1000 births worldwide. The secondary palate is formed by paired palatal shelves that grow toward each other, appose, attach and fuse. CP can result from disruption of any of these processes. The palatal shelves basically consist of a mesenchymal tissue core covered with a layer of epithelial cells. One of the mechanisms that can cause CP is failure of fusion, i.e., failure to remove the epithelial seam between the palatal shelves to allow the mesenchyme to merge and form a continuous palate. This process requires complex interactions between mesenchymal and epithelial cells, and signaling components such as growth factors. Epidermal growth factor (EGF) plays an important role in palate growth and differentiation, while it may impede fusion. We developed a 3D organotypic model using human mesenchymal and epithelial stem cells to mimic human embryonic palatal shelves, and tested its functional relevance by monitoring the effects of human EGF (hEGF) on proliferation and fusion. Spheroids were generated from human umbilical-derived mesenchymal stem cells (hMSCs) directed down an osteogenic lineage by culture medium and evaluated for osteogenic differentiation. Heterotypic spheroids, or organoids, were constructed by coating hMSC spheroids with MaxGel™ extracellular matrix solution followed by a layer of human progenitor epithelial keratinocytes (hPEK). Organoids were incubated in co-culture medium with or without hEGF and assessed for cell proliferation and spheroid pairs were assessed for time to fusion. Osteogenic differentiation in hMSC spheroids was highest by day 13. hEGF delayed fusion of heterotypic organoids after 12 and 18 hours of contact.  hEGF increased proliferation in organoids at 4 ng/ml, and proliferation was detected in hPEKs alone on microcarrier beads, suggesting a potential mechanism for delayed fusion by hEGF. Our results show that this model of human palatal fusion consisting of a core of differentiated hMSCs with a hPEK outer layer appropriately mimics the morphology of the developing human palate and responds to hEGF as expected. Future studies will focus on using the organoid model to evaluate the effects of teratogenic chemicals on palatal fusion, and validating the results.
DOI: 10.23719/1433318
title: Phage Data

description: Phage Data
DOI: 10.23719/1433507
title: RLINE model algrotihms to account for NO2 near-road chemistry data set - RLINE_N02

description: This data set is associated with the results found in the journal article: Valencia et al, 2018. Development and evaluation of the R-LINE model algorithms to account for chemical transformation in the near-road environment. Transportation Research Part D, https://doi.org/10.1016/j.trd.2018.01.028. 
To address the need to estimate near-road NO2 concentrations, we implemented three different approaches in order of increasing degrees of complexity and barrier to implementation from simplest to more complex. The first is an empirical approach based upon fitting a 4th order polynomial to existing near-road observations across the continental U.S., the second involves a simplified Two-reaction chemical scheme, and the third involves a more detailed set of chemical reactions based upon the Generic Reaction Set (GRS) mechanism. All models were able to estimate more than 75% of  concentrations within a factor of two of the near-road monitoring data and produced comparable performance statistics. These results indicate that the performance of the new R-LINE chemistry algorithms for predicting NO2 is comparable to other models (i.e. ADMS-Roads with GRS), both showing less than±15% fractional bias and less than 45% normalized mean square error.
DOI: 10.23719/1433835
title: Membrane

description: Membrane Processes for the Separation of Potential Emerging Pollutants -Review Article
DOI: 10.23719/1434258
title: Regional Similarities and NOx-related Increases in Biogenic Secondary Organic Aerosol in Summertime Southeastern U.S.

description: Data set contains CMAQ model output for Look Rock, Tennessee and Centreville, Alabama during summer 2013.
DOI: 10.23719/1434917
title: Differentiating Pathway-Specific From Nonspecific Effects in High-Throughput Toxicity Data: A Foundation for Prioritizing Adverse Outcome Pathway Development

description: Previous work identified a ‘cytotoxic burst’ (CTB) phenomenon wherein large numbers of the ToxCast assays begin to respond at or near test chemical concentrations that elicit cytotoxicity, and a statistical approach to defining the bounds of the CTB was developed. To focus AOP development on the molecular targets corresponding to ToxCast assays indicating pathway-specific effects, we conducted a meta-analysis to identify which assays most frequently respond at concentrations below the CTB.  A preliminary list of potentially important, target-specific assays was determined by ranking assays by the fraction of chemical hits below the CTB compared to the number of chemicals tested.  Additional priority assays were identified using a diagnostic-odds-ratio approach which gives greater ranking to assays with high specificity but low responsivity. Combined, the two prioritization methods identified several novel targets (e.g., peripheral benzodiazepine and progesterone receptors) to prioritize for AOP development, and affirmed the importance of a number of existing AOPs aligned with ToxCast targets (e.g., thyroperoxidase, estrogen receptor, aromatase).
DOI: 10.23719/1435424
title: 4-Acetoxyphenol as a substrate for acetylcholinesterase-based sensor and its application for As(III) determination

description: The supplementary data is used to support the interpretation of electrochemical reaction at the interface of working electrode, and reaction features of the immobilized enzyme. The formula for modeling the kinetics of immobilized enzyme was also given in the supplementary material.
DOI: 10.23719/1435623
title: Data

description: The data set contains all of the raw spectra for the XAFS data analysis and the data that was used to generate the figures and table in the manuscript and supporting information.  The XAFS data requires the use of Demeter Software to access.
DOI: 10.23719/1500027
title: Nitrogen Deposition and Climate Change Effects on Tree Species Composition and Ecosystem Services: A Cohort Analysis in 

description: A tree database representing a single cohort of trees was assembled using
data from U.S Forest Service monitoring plots. Applying existing species specific
response relationships from Thomas et al. (2010), we simulated
how forest stands in a 19-state study area would change (biomass and stem density) from 2005 to 2100 under 12 different future N deposition – climate scenarios based on historic levels, current policy and potential futures.
DOI: 10.23719/1500030
title: Granular Activated Carbon Adsorption of Carcinogenic Volatile Organic Compounds at Low Influent Concentrations

description: Breakthrough data in granular activated carbon columns for carcinogenic volatile organic compounds
DOI: 10.23719/1500904
title: Fort Riley Tensiometer Data

description: Tensiometers were installed a various depths and distances to monitor soil moisture tension. The installation was used to monitor subsurface water flow patterns from the storage gallery under the permeable pavement site.
DOI: 10.23719/1500924
title: Illumina sequencing

description: These data are bacterial 16S rRNA sequences and a taxonomic summary table for biofilm samples from the bio-reactors. The data may provide background/supporting information for other researchers who have a similar experimental plan with a microbial electrochemical cell reactor.
DOI: 10.23719/1502490
title: Microbiota alter metabolism and mediate neurodevelopmental toxicity of 17beta-estradiol

description: Effects of developmental 17beta-estradiol exposure on microbiota and behavior in zebrafish.
DOI: 10.23719/1502530
title: Gulf of Mexico Nutrient, carbon, CTD data

description: Gulf of Mexico cruise, nearshore and CTD data collected by the USEPA during 2002 - 2008