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2,280 results for “Laboratory”
A droplet digital polymerase chain reaction assay to detect rare helminth parasites infecting natural host populations (Vancouver Island 2023, University of Wisconsin Madison Laboratory colony 2024)
Helminth infections represent a significant challenge to human, livestock, and wildlife health, yet they remain relatively under-studied, especially in terms of their ecological impacts. Better understanding of how these parasites spread in wildlife populations could improve our ability to predict and manage disease transmission across various species. Traditional detection methods, such as visually identifying parasites in environmental samples or infected hosts, often fall short, especially during the early stages of infection when parasite loads are minimal. In this study, we introduce a highly sensitive and precise droplet digital PCR (ddPCR) assay that quantifies helminth DNA in aquatic habitats, focusing on the 18S rRNA gene as a marker. These data utilize the model host-parasite system between the tapeworm Schistocephalus solidus, and its cyclopoid copepod host, Acanthocyclops robustus. The molecular assays are built around creating an infection standard in the lab, where copepods were singly infected with a single tapeworm parasite. We extracted DNA from 100 infected adults and used this as a standard to translate gene copy numbers from the ddPCR reactions to actual animal values. After creating a known lab standard, we then use the generated probes and primers to detect (and quantify!) infection burdens in field samples, which include both water filter samples (eDNA) and zooplankton tows from several lakes around Vancouver Island, B.C. The data presented here include well-specific data from ddPCR runs (amplitude of individual level oil droplets in the reaction) as well as each ddPCR analysis in its entirety. In order to prove the specificity of probes and probe-primers, we include here ddPCR runs of closely related helminth species, Schistocephalus cotti and Schistocephalus pungitii. We also consider the binding to another genera of copepod, the calanoid Eurytomora. All of the data wrangling, analysis, and data visualization are included as .Rmd files in th
Laboratory study on microplastic fiber size and concentration effects on leopard frog (Lithobates pipiens) tadpole survival, development, behavior, and parasite susceptibility
This dataset contains comprehensive raw data from a completed laboratory experiment conducted from May 24 to June 30, 2021 (with additional analysis performed in 2025), investigating the effects of polyester microplastic (MP) fiber exposure on northern leopard frog (Lithobates pipiens) tadpoles and their interactions with echinostome trematodes (Echinostoma sp.). Tadpole egg masses were collected from a wetland in Indiana, USA, and ramshorn snails (Helisoma trivolvis), serving as trematode hosts, were collected from Tioga County, New York, USA. The experiment was conducted under controlled laboratory conditions using a static-renewal design, exposing tadpoles to short (~0.24 mm) or long (~1.50 mm) polyester MP fibers at concentrations of 0, 10, or 40 µg L⁻¹ for 32 days, followed by controlled exposure to echinostome cercariae. The dataset includes measurements of tadpole mortality, developmental traits (mass, snout-to-vent length, Gosner stage), behavioral activity (number of moving pre- and post-parasite exposure), MP fiber ingestion, and susceptibility to trematode infection (metacercarial cyst counts in kidneys). These data provide a resource for studying the ecological and toxicological impacts of microplastics on amphibian health, and host-parasite dynamics in freshwater ecosystems, making the dataset suitable for researchers in ecotoxicology, and disease ecology. The dataset is complete, with no ongoing data collection, and is designed to support analyses of microplastic-mediated effects on aquatic organisms.
Soil dissolved organic matter and greenhouse gas fluxes from intact Delmarva Bay wetland soil cores during laboratory simulation of groundwater level rise
Wetlands in low-relief landscapes have dynamic terrestrial-aquatic interfaces as surface water and groundwater levels fluctuate seasonally and these variable water levels influence wetland carbon cycling. Seasonal changes in groundwater levels determine which soils are hydrologically connected to the wetland surface water-groundwater continuum and therefore which soils act as carbon sources. To quantify groundwater-mediated soil dissolved organic matter (DOM) and greenhouse gas (CO2 and CH4) fluxes, we performed a laboratory simulation of groundwater rise on intact soil cores. Soil cores were collected from four Delmarva Bay wetlands located in the low-relief landscape of the Delmarva Peninsula in the Mid-Atlantic United States. At each wetland, two cores (length = 60 cm, diameter = 10.2 cm) were collected: one from within the wetland basin and the second from the transitional zone near the edge of the wetland basin (total number of cores collected = 8). To characterize seasonal hydrologic conditions at each wetland site where intact soil cores were collected (e.g., mean water level, number of saturation events, duration of saturation), we used high frequency water level data collected in wetland center and upland groundwater monitoring wells. In the lab, cores were re-saturated with groundwater over 15 days and after cores were fully re-saturated, core water levels were maintained for an additional 25 days. Water levels in each head tank and soil core were manually recorded on sub-daily timesteps. Rhizon soil porewater samplers were installed at 8, 20, and 40 cm below the soil surface reflecting the expected depths of the O, A, and B soil horizons across the wetland sites. Source groundwater, soil porewater, and exfiltrated surface water samples were collected daily from the soil cores and analyzed for pH, ORP, and DOM concentration (dissolved organic carbon) and DOM composition (absorbance and fluorescence metrics). Discrete measurements of CO2 and CH4 fluxes were
NRCS-USFS Soil Moisture Measurements - Coweeta Hydrologic Laboratory, NC, 2022-2025
This dataset consists of soil moisture (volumetric water content and water potential), temperature, and electrical conductivity measurements at multiple depths within 12 soil pedons distributed across Watersheds 32 and 7 at the Coweeta Hydrologic Laboratory from March 2022 to April 2025. This work is a part of a larger partnership between the U.S. Forest Service (USFS) and the Natural Resources Conservation Service (NRCS) to install, monitor and generate long-term soil moisture datasets across multiple forested watersheds in the U.S. Associated data packages from both the Fernow and Hubbard Brook Experimental Forests can be found on the EDI Data Portal. Dataset contributors: Project planning led by Carlos Quintero (USFS, ORISE), with help from Amos Stead (NRCS) and Tiffany Allen (NRCS) in site selection. Scientific and logistical support from Chris Oishi (USFS), Amanda Pennino (NRCS), and Erin Rooney (NRCS). Seth Strickland (USFS), Amos Stead (NRCS), Ann Tan (NRCS), and Tiffany Allen (NRCS) assisted with site installation. Site visits, data downloading, and logger maintenance was by Seth Strickland (USFS). The dataset was curated by Emily Piché (USFS, ORISE) and Amanda Pennino (NRCS). Overall partnership initiation and project management was by Stephanie Connolly (USFS) and Skye Wills (NRCS)
Laboratory measurements of wind, waves, and turbulence in hurricane conditions in the ASIST wind-wave facility
<p>Laboratory measurements of wind, waves, and turbulence in hurricane conditions, collected in September and October of 2018 and January of 2019 in the ASIST wind-wave facility, in the SUSTAIN laboratory at the University of Miami.</p> <p>This dataset includes two experiments, one with fresh water ("fresh") and another with seawater ("salt"), each in 10-m winds from 0 to approximately 42 m/s. Data include:</p> <ul> <li>3-dimensional wind velocity at 20 Hz sampling frequency from Campbell Scientific IRGASON sonic anemometer (collected in 2018)</li> <li>2-dimensional (along-tank and vertical) wind velocity at 1000 Hz sampling frequency from TSI IFA-300 hot film anemometer (collected in 2018)</li> <li>1-dimensional (along-tank) wind velocity at 10 Hz sampling frequency from a pitot anemometer (collected in 2018 and 2019)</li> <li>3-dimensional water velocity in the bottom 5 cm of the tank at 100 Hz sampling velocity from Nortek Vectrino velocimeter. (collected in 2018)</li> <li>Water elevation at 20 Hz sampling frequency at 6 locations in the tank from Senix Toughsonic 30 ultrasonic distance meters (collected in 2019)</li> <li>Along-tank static air pressure difference at 10 Hz sampling frequency from Baratron MKS 226 differential pressure transducer (collected in 2019)</li> </ul> <p>All data is in NetCDF4 format.</p> <p>Experiment set up and positions of instruments are documented in more detail in Curcic and Haus (2020), Revised estimates of ocean surface drag in strong winds, <em>Geophysical Research Letters</em>, <a href="https://agupubs.onlinelibrary.wiley.com/doi/10.1029/2020GL087647">https://agupubs.onlinelibrary.wiley.com/doi/10.1029/2020GL087647</a>.</p> <p>Produced as part of the National Science Foundation Award #1745384, titled "Air-Sea Momentum Transfer in Extreme Wind Conditions"<strong>.</strong></p> <p>Contact: Milan Curcic <mcurcic@miami.edu></p>
Software and suspect database for: "A large scale multi-laboratory suspect screening of pesticide metabolites in human biomonitoring: From tentative annotations to verified occurrences"
<p>This upload contains the pesticide suspect list aggregated among the laboratories of work package 16 of the HBM4EU (https://www.hbm4eu.eu) project for a large-scale pesticide suspect screening and the resolving search templates for each pesticide. Additionally, we provide the used software version of MetAlign applied in this screening.</p>
Optimizing laboratory cultures of <i>Gammarus fossarum</i> (Crustacea: Amphipoda) as a study organism in environmental sciences and ecotoxicology
<p>Supplemental code and data for Alther, Krähenbühl, Bucher & Altermatt (2022) 'Optimizing laboratory cultures of <em>Gammarus fossarum</em> (Crustacea: Amphipoda) as a study organism in environmental sciences and ecotoxicology' (DOI: 10.1016/j.scitotenv.2022.158730). The repository folder contains three text files and a corresponding R script.</p> <p>Rerunning the analysis and producing figures requires two raw data files: LabdataAK_v6_210616_Daylength_input.txt and Nutrition_Exp_KaplanMeier_v1_input.txt. In order to reproduce the analysis and figures, run 'AmphipodHusbandry_20220919.R'. Make sure that your working directory is the folder containing all data files, easily achieved by (re)starting R (or R Studio) by double-clicking the R script file in the folder. The analysis script will produce all the figures from the paper, organized in a folder 'Results' and a subfolder 'Supplement'. Figures are prepared as pixel graphics (PNG).</p> <p>The R script was tested in R ver. 4.1.1 (Windows 10, version 21H1), 4.1.3 (macOS 11.6), and 4.2.0 (Ubuntu 22.04. Required packages are survival (version 3.2-13 worked), survminer (version 0.4.9 worked), and vioplot (version 0.3.7 worked).</p>
2018-2020 Laboratory measurements of inorganic carbon accompanied by sensor data measurements of in situ inorganic carbon from the Upper Clark Fork River (Montana, USA)
These data were collected to support the Upper Clark Fork River restoration monitoring project supported by the US NSF Long Term Research in Environmental Biology (LTREB) and Consortium for Research in Environmental Water Systems (CREWS) programs. The LTREB monitoring project consists of monthly and bi-weekly water quality monitoring across a 215-km river restoration gradient contaminated by historic mining practices to monitor inorganic phosphorus and nitrogen concentrations, biotic standing stocks, heavy metal contamination, organic and inorganic carbon concentrations, and physicochemical parameters. The original analytical intent for these data was to assess the accuracy of calculating the partial pressure of carbon dioxide (pCO2) from electrochemical and spectrophotometric pH along with total alkalinity (AT). These data correspond to two parts: a tank study and a field application. The tank study was a set of controlled laboratory experiments that took place in a well-mixed temperature-controlled tank of freshwater. Data for the tank study are primarily measurements of electrochemical and spectrophotometric pH, AT, electrical conductivity, temperature, and ionic strength. The field application was used to demonstrate the real-world applicability of the tank study results in the Upper Clark Fork River (USGS HUC 17010201) at the Gold Creek site southeast of Missoula, MT, USA. Data from the field application are primarily high frequency measurements of carbon dioxide, pH, temperature, and electrical conductivity. Additional miscellaneous data were collected for quality control. These field data were collected using field deployments of SAMI sensors from Sunburst Sensors (Missoula, Montana, USA). Electrical conductivity data were collected with a HOBO sensor from Onset Computer Corporation (Bourne, Massachusetts, USA).
California's Central Valley Project Improvement Act Predation Contact Point Study - 2022: Predator-prey interactions under low artificial lighting in a laboratory setting
The highest rates of piscivorous predation in the field have been recorded during crepuscular light levels associated with sunrise and sunset or artificial lighting at night (ALAN). We conducted a laboratory study where groups of predator-naïve, hatchery-raised juvenile rainbow trout (Oncorhynchus mykiss) were exposed to natural-origin piscivorous largemouth bass (Micropterus salmoides) under three light treatments representative of brighter crepuscular periods or direct ALAN illumination (“high” treatment), dimmer crepuscular periods or sky glow from ALAN (“medium” treatment), and night or no ALAN (“low” treatment). We then statistically evaluated potential associations between light treatment, prey group cohesion, and predator activity.
Plant and carbon data, snowmelt manipulation experiment, Rocky Mountain Biological Laboratory (RMBL), 2023
These data are from a 2023 snowmelt manipulation experiment in Vera Meadow at the Rocky Mountain Biological Laboratory. We experimentally advanced the snowmelt date in a montane meadow by approximately 12 days using black shade cloths and assessed the effect on plant and carbon dynamics. We measured net ecosystem exchange, gross primary productivity, and soil respiration using a Li-COR 7500 five times biweekly from June to August, plant community composition using the pin-drop method five times biweekly from June to August, and root biomass nine times using bulk soil cores. Using drone imagery, we measured the Normalized Difference Vegetation Index (NDVI). This data package is completed.
Temperature, floral density, and Osmia pollen usage data from seven study sites around the Rocky Mountain Biological Laboratory, Colorado: 2013-2023
Data were collected as part of a study of population dynamics of solitary, cavity-nesting Hymenoptera. Nesting structures ("trap-nests") were established at five study sites along an elevational gradient around the Rocky Mountain Biological Laboratory in 2013. Two additional study sites were added in 2014, and one of the original study sites was dropped at the end of 2015. At each site, a HOBO data-logger placed under a centrally located trap-nest records air temperatures hourly. Floral densities are recorded at each site, typically 1-2 times per week, throughout the growing season, for specific plant taxa known to be used as pollen sources by cavity-nesting bees. In addition, pollen samples are taken from the nests of cavity-nesting bees and the constituent plant taxa identified by microscopic comparison with a reference pollen collection from the study area.
Laboratory Dataset on Self-ignition of Carbon-Rich Soil
<p>The file attached contains a complete set of experimental data from carbon-rich soil self-heating ignition cubic basket experiments for a range of soil inorganic content (IC) ranging from 3% to 86%. The experiments were carried out in a thermostatically controlled oven with thermocouples for measuring the ambient and soil temperatures. The data reported includes the dates of experiments, volume of soil baskets being tested, oven ambient temperature, inorganic content present in the sample, bulk density of the soil and if the sample ignited or not. This data is in support of the journal paper:</p> <p>F. Restuccia, X. Huang, G. Rein, <strong>Self-ignition of Natural Fuels: Can Wildfires of Carbon-Rich Soil Start by Self-heating?</strong>, <em>Fire Safety Journal </em>2017, http://doi.org/10.1016/j.firesaf.2017.03.052.</p>
Public Available Data Set of Process Flows from Internal Physical Inspections in the Failure Analysis Laboratory
<p>This data set was generated in accordance with the semiconductor industry and contains data of certain process flows in Failure Analysis (FA) laboratories focusing on the identification and analysis of anomalies or malfunctions in semiconductor devices. It comprises logistic data about the processing steps for the so-called Internal Physical Inspection (IPI).</p><p>A so-called IPI job is given as a sequence of tasks that must be performed to complete the job they belong to. It has an assigned unique ID and timestamps indicating the submission, the end, and the deadline to be met. A job also has an IPI classification assigned to it, providing general guidelines on the operations to be performed.</p><p>Every task within a job has its own type and working time, as well as the assigned resources. There are two main resources involved:</p><p> - the equipment; the machine used to perform the task,</p><p> - the operator; the person who performed the task.</p><p>In addition, general information about the type of the device to be analyzed is also available, such as the given (anonymized) package and basictype. Data also include the number of stressed samples within a device and the samples a task is performed on.</p><p>The dataset includes data from 4 years, specifically from January 2020 to December 2022.</p><p>Finally, the exact column structure is given as follows (python 3.9.5 datatype):</p><ul><li>JOB_ID [int64]: the unique ID of the job</li><li>JOB_SUBMISSION_DATE [object]: the date of the job submission</li><li>JOB_REQ_END_DATE [object]: the required end date (deadline)</li><li>JOB_FINISH_DATE [object]: the actual end date</li><li>JOB_BASICTYPE_H [object]: the given basictype denotation</li><li>JOB_PACKAGE_H [object]: the package denotation of the device</li><li>JSH_QTY_STRESSED [float64]: number of stressed samples</li><li>TASK_SUBMISSION_DATE [object]: the date of the task submission</li><li>TASK_WORKING_TIME [float64]: the amount of time (hours) the task needs to be completed</li><li>TASK_SAMPLE_NO [object]: the samples the task was performed on </li><li>TASK_CEQ_ID [float64]: the ID of the machine used to perform the task</li><li>TASK_CTKS_ID [int64]: the ID representing the task type</li><li>TASK_USR_ID [int64]: the ID of the operator performing the task</li><li>CIPI_LEVEL_0 [object]: a series of IPI classifications, indicating what is required to execute for a specific job</li></ul>
Organic Matter, Geochemical, Visible Spectrocolorimetric Properties, Radiocesium Properties, and Grain Size of Potential Source Material, Target Sediment Core Layers and Laboratory Mixtures for Conducting Sediment Fingerprinting Approaches in the Mano Dam Reservoir (Hayama Lake) Catchment, Fukushima Prefecture, Japan
<p>The current dataset was compiled to study sediment fingerprintings practices, i.e tracer selection and contribution modelling. Organic matter, elemental geochemistry, visible difuse spectrocolorimetric properties, radiocesium properties, and grain size were analysed were analysed in potential source material that may supply sediment to coastal rivers, here the upper part of the Mano river, draining the main Fukushima radioactive pollution plume (Japan). Four potential soil source materials (<em>n</em> = 68) were considered: undecontaminated cropland (<em>n</em> = 24), as non-decontaminated soil before the application of local decontamination policies, remediated cropland (<em>n</em> = 10), as decontaminated soil after the application of local decontamination policies, forest soils (n = 24) and subsurface material originating from channel bank collapse or landslides (<em>n</em> = 10; referred to as subsoil). A sediment core was collected in the Mano Dam lake (Hayama lake) on the 6th June 2021 and was sectionned into 1-cm layers (<em>n</em> = 38). Laboratory mixtures (<em>n</em> = 27) were made to assess different contribution levels from the sources.</p> <p>The current dataset comprises four .csv files including data and metadata information and their respective descriptions of variables. The data set is composed of soil samples, sediment core layer and laboratory mixtures. Laboratory mixtures were prepared to provide a dataset to calibrate/validate un-mixing models implemented to address this research question and analysed in the same conditions and using the same equipment as the source/target material.</p> <p>Recommended encoding format: <strong>latin1</strong></p>
X-ray diffraction laboratory investigation for the Eptachori, Pentalofos and Tsotyli formations in West Macedonia
<p>The data comprises work under the Project Pilot Strategy GA No. 101022664, funded by the European Union. </p> <p>The work relates to rock samples collected in 2022 in West Macedonia, Greece. For full details, please refer to the following:</p> <ol> <li>Tsotyli formation: <a href="https://app.geosamples.org/sample/igsn/IE5770001">https://app.geosamples.org/sample/igsn/IE5770001</a> - <strong>WGS84 Lat : 40.3075, </strong><strong>WGS84 Long : 21.3354</strong></li> <li>Pentalofos formation: <a href="https://app.geosamples.org/sample/igsn/IE5770002">https://app.geosamples.org/sample/igsn/IE5770002</a> - <strong>WGS84 Lat : 40.1332,</strong> <strong>WGS84 Long : 21.1997</strong></li> <li>Eptachori formation: <a href="https://app.geosamples.org/sample/igsn/IE5770003">https://app.geosamples.org/sample/igsn/IE5770003</a> - <strong>WGS84 Lat : 40.1332, </strong><strong>WGS84 Long : 21.1997</strong></li> </ol> <p>The focus of the work is related to CO2 storage in appropriate saline aquifers in West Macedonia. Here are listed the raw results from the X-ray diffraction laboratory investigation.</p> <p>XRD equipment: Bruker D8 Advance</p> <p>Configuration parameters for XRD analysis: </p> <table> <tbody> <tr> <td>Type</td> <td>Locked couple</td> </tr> <tr> <td>Start</td> <td>3.000 degrees</td> </tr> <tr> <td>End</td> <td>93.009 degrees</td> </tr> <tr> <td>Step</td> <td>0.019 degrees</td> </tr> <tr> <td>Step time</td> <td>96s </td> </tr> <tr> <td>Temp</td> <td>25 centigrade (room) </td> </tr> <tr> <td>Time started</td> <td>0s</td> </tr> <tr> <td>2-Theta</td> <td>3.000 degrees</td> </tr> <tr> <td>Theta</td> <td>1.500 degrees</td> </tr> </tbody> </table>
Dataset for "Machine learning predictions on an extensive geotechnical dataset of laboratory tests in Austria"
<p>This dataset comprises over 20 years of geotechnical laboratory testing data collected primarily from Vienna, Lower Austria, and Burgenland. It includes 24 features documenting critical soil properties derived from particle size distributions, Atterberg limits, Proctor tests, permeability tests, and direct shear tests. Locations for a subset of samples are provided, enabling spatial analysis.</p> <p>The dataset is a valuable resource for geotechnical research and education, allowing users to explore correlations among soil parameters and develop predictive models. Examples of such correlations include liquidity index with undrained shear strength, particle size distribution with friction angle, and liquid limit and plasticity index with residual friction angle.</p> <p>Python-based exploratory data analysis and machine learning applications have demonstrated the dataset's potential for predictive modeling, achieving moderate accuracy for parameters such as cohesion and friction angle. Its temporal and spatial breadth, combined with repeated testing, enhances its reliability and applicability for benchmarking and validating analytical and computational geotechnical methods.</p> <p>This dataset is intended for researchers, educators, and practitioners in geotechnical engineering. Potential use cases include refining empirical correlations, training machine learning models, and advancing soil mechanics understanding. Users should note that preprocessing steps, such as imputation for missing values and outlier detection, may be necessary for specific applications.</p> <p><strong>Key Features</strong>:</p> <ul> <li><strong>Temporal Coverage</strong>: Over 20 years of data.</li> <li><strong>Geographical Coverage</strong>: Vienna, Lower Austria, and Burgenland.</li> <li><strong>Tests Included</strong>: <ul> <li>Particle Size Distribution</li> <li>Atterberg Limits</li> <li>Proctor Tests</li> <li>Permeability Tests</li> <li>Direct Shear Tests</li> </ul> </li> <li><strong>Number of Variables</strong>: 24</li> <li><strong>Potential Applications</strong>: Correlation analysis, predictive modeling, and geotechnical design.</li> </ul> <p><strong>Technical Details</strong>:</p> <ul> <li>Missing values have been addressed using K-Nearest Neighbors (KNN) imputation, and anomalies identified using Local Outlier Factor (LOF) methods in previous studies.</li> <li>Data normalization and standardization steps are recommended for specific analyses.</li> </ul> <p><strong>Acknowledgments</strong>:<br>The dataset was compiled with support from the European Union's MSCA Staff Exchanges project 101182689 Geotechnical Resilience through Intelligent Design (GRID).</p>
Natural Laboratories Atmosphere Dataset
<p>This spreadsheet contains a list of peer-reviewed published estimates of cloud radiative property changes associated with the perturbations of aerosols from a variety of natural laboratories discussed in Christensen et al. (2022).</p> <p>Christensen, M., Gettelman, A., Cermak, J., Dagan, G., Diamond, M., Douglas, A., Feingold, G., Glassmeier, F., Goren, T., Grosvenor, D., Gryspeerdt, E., Kahn, R., Li, Z., Ma, P.-L., Malavelle, F., McCoy, I., McCoy, D., McFarquhar, G., Mülmenstädt, J., Pal, S., Possner, A., Povey, A., Quaas, J., Rosenfeld, D., Schmidt, A., Schrödner, R., Sorooshian, A., Stier, P., Toll, V., Watson-Parris, D., Wood, R., Yang, M., and Yuan, T.: Opportunistic Experiments to Constrain Aerosol Effective Radiative Forcing, Atmos. Chem. Phys. Discuss. [preprint], https://doi.org/10.5194/acp-2021-559, in review, 2021.</p> <p> </p>
Laboratory-measured and X-ray CT-derived volumetric composition of a permafrost core
<p>This dataset contains data on the volumetric composition of a permafrost core which has been drilled in a Yedoma upland in northeast Siberia (72.36613 N, 126.27272 E) in September 2017. This dataset supplements a research article to be submitted to the scientific journal <em>The Cryosphere</em>. It contains the following files:</p> <p><strong><em>volumetric_contents_sampleRes_lab+CT.csv</em> </strong><br> Contains the volumetric contents of total ice, organic, and mineral measured in the laboratory at AWI Potsdam at a coarse resolution. It further contains the volumetric contents of gas, excess ice, and two sediment phases (A,B) derived from a CT scan at UFZ Halle, downsampled to the resolution of the laboratory samples.</p> <p><em><strong>volumetric_contents_highRes_CT.csv</strong></em><br> Contains the volumetric contents of gas, excess ice, and two sediment phases (A,B) derived from a CT scan at UFZ Halle at the original resolution of 50µm.</p> <p><em><strong>regression analysis_paper.py</strong></em><br> This pyhton script uses the above listed input files to perform and evaluate a regression analysis<strong><em> </em></strong>of the CT data against the laboratory data. The regression result is the composition of the CT-derived sediment phases (A,B) in terms of pore ice, organic, and mineral. The script furthermore computes evaluation metrics of the lab-CT comparison, and computes volumetric contents of pore ice, total ice, organic, and mineral at the high resolution of the original CT data.</p> <p><em><strong>volumetric_contents_sampleRes_all.csv</strong></em><br> This file can be reproduced by the files listed above and contains, in addition to the data contained in <em>volumetric_contents_sampleRes_lab+CT.csv</em>, the volumetric contents of pore ice, total ice, mineral, and organic as predicted by the regression model at the same (coarse) resolution as the laboratory samples.</p> <p><em><strong>volumetric_contents_highRes_all.csv</strong></em><br> This file can be reproduced by the files listed above and contains, in addition to the data contained in <em>volumetric_contents_highRes_CT.csv</em>, the volumetric contents of pore ice, total ice, mineral, and organic as predicted by the regression model at the same (high) resolution as the original CT data.</p> <p>More details can be found in the article describing the study.</p>
Portobello Marine Laboratory sea surface temperature time series
<p>This table contains the daily sea surface temperature observations taken at the Portobello Marine Laboratory wharf (LAT: -45.8160, LON: 170.6500). The first column is time in MATLAB datenum format. The second column is daily sea surface temperature recorded at 9am local time. Measurements are recorded to an accuracy of <span class="math-tex">\(\pm\)</span>0.1°C. Missing observations have been assigned the value -999. Additional station details and sampling information can be found in <a href="https://environment.govt.nz/publications/new-zealand-coastal-sea-surface-temperature/">Chiswell and Grant (2018)</a>.</p> <p>We acknowledge the foresight and dedication of the founders of this <em>in situ</em> dataset in the 1950s. We are grateful for all the people involved in the data collection. Notably these include</p> <ul> <li>Doug Mackie (data acquisition and record maintenance)</li> <li>Elizabeth (Betty) Batham who championed the long term climate sampling</li> <li>All the researchers who have assisted with sampling</li> </ul>
Field and laboratory measurements of suspended-sediment particle size and concentration from nine rivers draining to the Great Barrier Reef
<p>Dataset includes in-situ (n = 144,912) and laboratory-dispersed (n = 64) particle size measurements collected using laser diffractometry from nine rivers discharging along 800 km of Great Barrier Reef, Queensland Australia coastline. Two field campaigns (24 February to 5 March 2021 and 24<sup>th</sup> to 31<sup>st</sup> of April 2021) were undertaken to collect vertical profiles of in-situ particle size, water velocity, turbidity, and salinity. Water samples were collected for analysis of laboratory-dispersed particle size and suspended-sediment concentration. Water samples were collected using US-P61 or Van-Dorn samplers deployed alongside a LISST 200x laser diffractometer and an EXO2 YSI multiparameter water quality sonde. Total depth and water velocity were measured using a Nortek Signature ADCP and Teledyne RiverRay ADCP during the first and second field campaigns, respectively. During both campaigns, measurements were undertaken during relatively high discharge events when discharge exceeded the 90<sup>th</sup> percentile of 2020/2021 gauged wet season flows.</p> <p>Data are provided in three csv files. "In_situ_data.csv" contains in situ measurements of particle size, turbidity, salinity, and depth along with estimates of shear rate. Shear rate is estimated from theory and measurements of ADCP-measured total depth and depth-averaged flow (see equation 2 of Livsey et al., 2022). "Lab_data_this_study.csv" contains particle size measurements of suspended-sediment following laboratory dispersion along with coeval measurements of in-situ particle size, turbidity, salinity, and shear rate averaged over the filling time of the US-P61 sampler. "Lab_data_DES_WQI.csv" contains laboratory dispersed particle size measurements collected by the Department of Environment and Science Water Quality Investigation Unit of Queensland Australia (Turner et al., 2013) and compared to data in "Lab_data_this_study.csv" in Livsey et al (2022). </p> <p>Further details of the data collection effort and interpretation of the data are published in Livsey et al (2022) at https://doi.org/10.1029/2021JC017988. </p> <p>Additional data from the 24 February to 5 March 2021 field campaign, funded by CSIRO Oceans and Atmosphere, are available from Crosswell et al (2022) at https://doi.org/10.25919/2vbh-cx08.</p> <p>References:</p> <p>Crosswell, Joey; Carlin, Geoff; Daniel, Livsey; Hillyer, Katie; Steven, Andy (2022): FNQ_2021_V01 Voyage dataset: Feb - March 2021; Biogeochemical and hydrodynamic obervations along the river-reef continuum of estuaries in eastern Cape York, Australia. v1. CSIRO. Data Collection. 10.25919/2vbh-cx08</p> <p>Livsey, D. L., Crosswell, J. R., Turner, R. R., Steven, A. D. L., & Grace, P. R. (2022) Flocculation of riverine sediment draining to the Great Barrier Reef, implications for monitoring and modelling of sediment dispersal across continental shelves. Journal of Geophysical Research: Oceans. https://doi.org/10.1029/2021JC017988</p> <p>Turner. R, Huggins. R, Wallace. R, Smith. R, Vardy. S, Warne. M St. J. (2013). Total suspended solids, nutrient, and pesticide loads (2010-2011) for rivers that discharge to the Great Barrier Reef Great Barrier Reef Catchment Loads Monitoring 2010-2011 Department of Science, Information Technology, Innovation and the Arts, Brisbane.</p> <p> </p> <p> </p>
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Allen Brain Atlas
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DANDI Archive for NWB datasets
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International Brain Laboratory public data
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OpenNeuro
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