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Dataset results
51 results for “design of experiments”
Desert Fertilization Experiment: investigation of Sonoran desert ecosystem response to atmospheric deposition and experimental nutrient addition, ongoing since 2006 (Reformatted to the ecocomDP Design Pattern)
This data package is formatted as an ecocomDP (Ecological Community Data Pattern). For more information on ecocomDP see https://github.com/EDIorg/ecocomDP. This Level 1 data package was derived from the Level 0 data package found here: https://pasta.lternet.edu/package/metadata/eml/knb-lter-cap/632/9. The abstract below was extracted from the Level 0 data package and is included for context:
SBC LTER: Reef: Long-term experiment: biomass of kelp forest species, ongoing since 2008 (Reformatted to the ecocomDP Design Pattern)
This data package is formatted as an ecocomDP (Ecological Community Data Pattern). For more information on ecocomDP see https://github.com/EDIorg/ecocomDP. This Level 1 data package was derived from the Level 0 data package found here: https://pasta.lternet.edu/package/metadata/eml/knb-lter-sbc/119/7. The abstract below was extracted from the Level 0 data package and is included for context: These data represent values of biomass density for more than 200 species of macroalgae, invertebrates and fish measured in fixed plots at five reefs as part of a long-term experiment designed to evaluate the effects of disturbance to giant kelp on the structure and productivity of the benthic community. Taxon-specific relationships between size and mass were applied to field measurements of species abundance to estimate biomass density of each species. The five reefs (Arroyo Quemado 34°28.048’N, 120°07.031’W; Carpinteria 34°23.474’N, 119°32.510’W; Isla Vista 34°23.275’N, 119°32.792’W; Mohawk 34°23.649’N, 119°43.762’W; and Naples 34° 25.342’N, 119° 57.102’W) ranged in depth from 5.8 m to 8.9 m (MLLW) and were chosen to represent a range of physical and biological characteristics known to influence subtidal macroalgal assemblages in the region. A common (but not always persistent) feature on these reefs was the presence of the giant kelp, which forms a dense canopy at the sea surface that suppresses recruitment and growth of understory algae below it. See Methods for more information. The primary research objective of the Santa Barbara Coastal LTER is to investigate the importance of land and ocean processes in structuring giant kelp (Macrocystis pyrifera ) forest ecosystems. As in many temperate regions, the shallow rocky reefs in the Santa Barbara Channel, California, are dominated by giant kelp forests. Because of their close proximity to shore, kelp forests are influenced by physical and biological processes occurring on land as well as in the open ocean. SBC LTER research foc
Modulation Engineering: Stimulation Design for Enhanced Kinetic Information from Modulation-Excitation Experiments on Catalytic Systems
<p>Dataset used in the publication "Modulation Engineering: Stimulation Design for Enhanced Kinetic Information from Modulation-Excitation Experiments on Catalytic Systems" (<a href="https://eur03.safelinks.protection.outlook.com/?url=https%3A%2F%2Fdoi.org%2F10.1021%2Facscatal.3c00646&data=05%7C01%7CValentijn.DeCoster%40UGent.be%7C2a7a2c81f646405654d308db2f58f8ec%7Cd7811cdeecef496c8f91a1786241b99c%7C1%7C0%7C638155831400735344%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C3000%7C%7C%7C&sdata=e%2Fyp50KsegsMtKcY9ijwh3AqUbrsxFLo%2BTXyGmzOLps%3D&reserved=0">https://doi.org/10.1021/acscatal.3c00646</a>).<br> A description document ("Data overview.docx") is included and provides an overview of the dataset.</p>
Ant Assemblages in Hemlock Removal Experiment at Harvard Forest since 2003 (Reformatted to the ecocomDP Design Pattern)
This data package is formatted as an ecocomDP (Ecological Community Data Pattern). For more information on ecocomDP see https://github.com/EDIorg/ecocomDP. This Level 1 data package was derived from the Level 0 data package found here: https://pasta.lternet.edu/package/metadata/eml/knb-lter-hfr/118/33. The abstract below was extracted from the Level 0 data package and is included for context: Ants comprise a considerable amount of animal biomass in terrestrial ecosystems and play major roles in ecological processes ranging from seed dispersal to soil turnover. Invasion by the hemlock woolly adelgid will transform late-successional hemlock forests into earlier successional mixed hardwood - white pine forests or red-maple wetlands. Understanding how ant assemblages vary in different habitat types allows for predictions of how hemlock decline could alter the composition of ant assemblages, with implications for a wide range of ecosystem processes. As part of the Hemlock Removal Experiment at the Simes Tract, we annually monitor ant species composition and abundance.
[DEPRECATED] Seed Bank in Hemlock Removal Experiment at Harvard Forest 2004-2015 (Reformatted to ecocomDP Design Pattern)
This L1 ecocomDP dataset is deprecated. It is deprecated because the format of the L0 dataset does not mesh well with the ecocomDP model. This data package is formatted according to the "ecocomDP", a data package design pattern for ecological community surveys, and data from studies of composition and biodiversity. For more information on the ecocomDP project see https://github.com/EDIorg/ecocomDP/tree/master, or contact EDI https://environmentaldatainitiative.org. This Level 1 data package was derived from the Level 0 data package found here: https://portal.edirepository.org/nis/mapbrowse?scope=knb-lter-hfr&identifier=105&revision=22 The abstract below was extracted from the Level 0 data package and is included for context:
Operating diagram of hatching module, this module consists of two clearly separated sections, each consisting of two long tanks (2 × 0.2 × 0.2 m) designed to accommodate hatching boxes, a filtration tank and an independent water circulation pump with a cooling unit and UV sterilizer. This allows simultaneous monitoring of 16 batches of eggs. in Reproduction of Zingel asper (Linnaeus, 1758) in controlled conditions: an assessment of the experiences realized since 2005 at the Besançon Natural History Museum
Operating diagram of hatching module, this module consists of two clearly separated sections, each consisting of two long tanks (2 × 0.2 × 0.2 m) designed to accommodate hatching boxes, a filtration tank and an independent water circulation pump with a cooling unit and UV sterilizer. This allows simultaneous monitoring of 16 batches of eggs.
Top view of DR1/DR2 double riffle, each section contains a spawning ground made up of eight gravel-filled trays, a rest area. The "double riffle" was designed to accommodate two groups from 25 to 50 specimens of broodstock in strictly identical conditions. The spawning grounds are equipped with waterproof, motion-sensing cameras with infrared night vision, connected to a 1000 Gb recorder. The diurnal and nocturnal activities of the two groups can therefore be simultaneously recorded over a long period. in Reproduction of Zingel asper (Linnaeus, 1758) in controlled conditions: an assessment of the experiences realized since 2005 at the Besançon Natural History Museum
Top view of DR1/DR2 double riffle, each section contains a spawning ground made up of eight gravel-filled trays, a rest area. The "double riffle" was designed to accommodate two groups from 25 to 50 specimens of broodstock in strictly identical conditions. The spawning grounds are equipped with waterproof, motion-sensing cameras with infrared night vision, connected to a 1000 Gb recorder. The diurnal and nocturnal activities of the two groups can therefore be simultaneously recorded over a long period.
Do Design-Rules have an Impact on the Understandability of RESTful APIs? A Controlled Experiment
<p>This publication contains the artifacts to reproduce a study, that investigated the impact of design-rules on the understandability of REST APIs. For this study the tool limesurvey (https://www.limesurvey.org/) was used. The following files are provided: </p> <ul> <li><strong>limesurvey_study_archive_final.zip: </strong>This archive contains the survey structure (.Iss file), which can be imported in limesurvey</li> <li><strong>API_Following_Rules.yaml:</strong> The API description for the version that follows the rules</li> <li><strong>API_Ignoring_Rules.yaml:</strong> The API description for the version that ignores the rules</li> <li><strong>Result_Data.csv:</strong> The untouched dataset exported from limesurvey</li> <li><strong>Adjustments_to_Result_Data.txt:</strong> A description of changes that were made to the result data in order to filter out invalid answers and make the data easier to analyze</li> <li><strong>Result_Data_Adjusted.csv:</strong> The adjusted dataset based on the changes described in the above file</li> <li><strong>experiment_analysis_final.R</strong>: The analysis script used to get the results of the study. This script only works with the Result_Data_Adjusted.csv, because it was created based on the adjusted dataset </li> </ul>
Design-of-Experiments In Vitro Transcription Yield Optimization of Self-Amplifying RNA
<p>This dataset contains original data generated from optimizing the IVT process for saRNAs that are approximately 9 kb in size through a design of experiment (DoE) approach to produce a maximal RNA yield.</p>
Design of experiment (DOE) used in the study: Lightweight design of variable-stiffness imperfection-insensitive cylinders enabled by continuous tow shearing and machine learning
<p>There are five input variables that are changed for this design of experiment (DOE) within the following range:</p> <p><span class="math-tex">\(\begin{eqnarray} 0.05 \leq r_{CTS} \leq 0.20 \nonumber \\ 1 \leq n \leq 12 \nonumber \\ 0 \leq {c_2}_{ratio} \leq 1 \\ 0 \leq \theta_1 \leq 75 \nonumber \\ 0 \leq \theta_2 \leq 75 \nonumber \end{eqnarray}\)</span></p> <p>For the sake of simplicity, these variables are respectively called v1, v2, v3, v4, v5.</p> <p>The DOE consist of 2000 points created with Latin Hyper-cube Sampling, as available in the LHS toolbox (Carnell, R. lhs: Latin Hypercube Samples, 2021. R package version 1.1.3.).</p> <p>The outputs evaluated with this design of experiment (DOE) are the critical buckling load $P_{critical}$, $b_{factor}$ obtained with Koiter's asymptotic approach, and the mass.</p>
Data from: Designing eco-evolutionary experiments for restoration projects: Opportunities and constraints revealed during Stickleback introductions
<p>Eco-evolutionary experiments are typically conducted in semi-unnatural controlled settings, such as mesocosms; yet inferences about how evolution and ecology interact in the real world would surely benefit from experiments in natural uncontrolled settings. Opportunities for such experiments are rare but do arise in the context of restoration ecology – where different "types" of a given species can be introduced into different "replicate" locations. Designing such experiments requires wrestling with consequential questions. Q1. Which specific "types" of a focal species should be introduced to the restoration location? Q2. How many sources of each type should be used – and should they be mixed together? Q3. Which specific source populations should be used? Q4. Which type or population(s) should be introduced into which restoration sites? We recently grappled with these questions when designing an eco-evolutionary experiment with threespine stickleback (<em>Gasterosteus aculeatus</em>) introduced into nine small lakes and ponds on the Kenai Peninsula in Alaska that required restoration. After considering the options at length, we decided to use benthic versus limnetic ecotypes (Q1) from a mixture of four source populations of each ecotype (Q2) selected based on trophic morphology (Q3), and introduced into restoration lakes in a paired design (Q4). We hope that the present paper outlining the alternatives and resulting choices will provide the rationales clear for future studies leveraging our experiment, while also proving useful for investigators considering similar experiments in the future.</p>
Large scale experiments to improve monopile scour protection design adapted to climate change
<p>Offshore wind farms contribute significantly to contemporary renewable energy production. By installing these offshore structures, new technical design challenges arise, such as foundation optimisation. Present LCoE (Levelized Cost of Electricity) of offshore wind turbines amounts up to 170 Euro/MWh (Crown Estate, 2015), but the ambition is to reduce this by 2020 to 90 Euro/MWh (EY, 2015). Offshore wind turbine foundation costs are 20 % of the total costs in the case of a monopile (NREL, 2014). An important part of those costs is related to the foundation's scour protection. Therefore, optimisations in the design of the scour protection are indispensable.<br>Another promising track to reduce the costs of offshore wind turbines is their lifetime extension. Recent studies (Crown Estate, 2015) show that a 5 year lifetime extension can reduce the cost per kWh by 6 %. To check the feasibility of a lifetime extension, it will be necessary to diagnose or inspect the conditions of several core parts of the turbines, notably its foundation and scour protection. Therefore, more fundamental insight into the (longer term damage) behaviour of the scour protection around the monopile is needed.<br>Beside the interest in design optimisation and lifetime extension, the influence of climate change needs to be investigated in more detail. Climate change will increase the design storm conditions and influence the scour protection stability. Therefore, research towards a risk-based design will help to evaluate the functionality of scour protection already installed and improve the design of future scour protections adapted to climate change.<br>Based on the above motivations, the main research objective is to establish a basic benchmark dataset on the stability of scour protection around monopile foundations to serve as a basis for model tests in other flumes in the future (rather than to carry out a traditional sensitivity study with a fine resolution for all governing parameters). <br>To achieve the goals, scour researchers from several institutions are set to start work on a collaborative project at HR Wallingford's Fast Flow Facility (FFF) as part of PROTEUS, an EU-funded Hydralab+ project. Hydralab+ which is funded by the EU's Horizon 2020 Research and Innovation Programme brings together facilities and researchers in experimental hydraulic and hydrodynamics.<br>The research project aims to improve the design of scour protection around offshore wind turbine monopiles, as well as future-proofing them against the impacts of climate change. <br>PROTEUS, which stands for the 'PRotection of Offshore wind Turbine monopilEs against Scouring' will facilitate the conducting of a series of large scale experiments over a seven week period in the FFF flume at HR Wallingford's UK physical modelling facilities.<br>Partners involved in PROTEUS are: Department of Civil Engineering at Ghent University, HR Wallingford (UK), the Ludwig-Franzius Institute for Hydraulic, Estuarine and Coastal Engineering at the University of Hannover, the Faculty of Engineering at the University of Porto, the Geotechnics division of the Belgian Department of Mobility and Public Works, and International Marine and Dredging Consultants (IMDC nv).</p>
Data from an experiment on the effects of using an experimental framework on the quality of research designs
Open the record for dataset details and reuse information.
On understanding and manipulating the hatching patterns of Diabrotica v. virgifera (Coleoptera: Chrysomelidae) eggs to improve the design of experiments
<p><em>Diabrotica v. virgifera </em>(Coleoptera: Chrysomelidae) is a well-studied pest of maize in North America and Europe. Many studies on its biology, behaviour or management rely individuals reared from either field-collected insect or on laboratory colonies. Naturally, <em>D. v. virgifera</em> eggs require an obligate diapause which can cause technical challenges such as a deceleration of research activities. To allow better planning of experimentation, we have investigated the survival and temporal hatching patterns of the pest`s eggs depending on diapause length as well as on post-diapause incubation temperature. Several series of laboratory assays revealed that eggs from diapausing populations hatch at highest rates and with most synchronized hatching start and peaks when overwintered at natural diapause length of eight to ten months or shorter down to five months (20 to 24 °C incubation temperatures). Comparably good hatching rates were found in eggs diapaused for only two months, but hatching patterns appeared more spread and variable. Diapause shorter than two months or longer than ten months reduced hatching successes, as did low incubation temperatures. Data matrices on egg overwintering survival, on the beginning, peak, duration and termination of egg hatching, as well as on hatching rates are provided for different diapause lengths and incubation temperatures of diapausing and, as a comparison, non-diapausing <em>D. v. virigifera</em> to support scientists choosing a colony which fits best their experimental setup and study conditions, as well as to properly plan such studies.</p>
Dataset supporting publication: Design Framework and Laboratory Experiments for Helix and Slinky Type Ground Source Heat Exchangers for Retrofitting Projects
<p>Dataset supporting publication: “Design Framework and Laboratory Experiments for Helix and Slinky Type Ground Source Heat Exchangers for Retrofitting Projects” (publication available for download: <a href="https://zenodo.org/record/7436458">GEOFIT Zenodo</a>).</p> <p>The focus of the experimental work was on shallow spiral geothermal heat exchanger configurations. Real-scale experiments were carried out for vertically oriented spiral collectors (helix) in sand and soil. One objective was to develop a measurement concept in laboratory environment to create a framework for a validated database. This database serves as the basis for further and new development of engineering design tools. To achieve the highest possible data-point density in the observed environment, temperature sensors and a fiber-optic temperature measurement system (DTS) were used. Soil probes were taken in situ before and after the measurements and analyzed at a thermophysical laboratory to determine material properties. The heat flow was controlled by an electric heating cable, which was installed in the form of a spiral-shaped heat exchanger in a 1 m³ container. To guarantee constant boundary conditions, the measurements were carried out in a climate chamber at a defined ambient temperature. The evaluation of the transient response behavior is spatially resolved. The results are coordinate-based temperature points, which describe temperature gradients in all axes of the container over time, which are combined with known soil properties. The collected data was used to develop computational fluid dynamic (CFD) models, which are used to extend the variety of geometry and soil configurations for developing new design tools.</p>
Microscopy data for the paper: Analysis and design of single-cell experiments to harvest fluctuation information while rejecting measurement noise.
<p>Microscopy data for the paper: Analysis and design of single-cell experiments to harvest fluctuation information while rejecting measurement noise.</p> <p> </p> <p>List of files used for each dataset.</p> <p> </p> <p>Dataset 0 : MS2-CY5_Cyto543_560_woStim</p> <p> Images in the dataset :</p> <p> ROI001_XY1657814108_Z00_T0_merged.tif - Image Id Number: 0</p> <p> ROI002_XY1657815441_Z00_T0_merged.tif - Image Id Number: 1</p> <p> ROI003_XY1657814110_Z00_T0_merged.tif - Image Id Number: 2</p> <p> ROI004_XY1657814111_Z00_T0_merged.tif - Image Id Number: 3</p> <p> ROI005_XY1657814112_Z00_T0_merged.tif - Image Id Number: 4</p> <p> ROI006_XY1657814113_Z00_T0_merged.tif - Image Id Number: 5</p> <p> ROI007_XY1657814114_Z00_T0_merged.tif - Image Id Number: 6</p> <p> ROI008_XY1657814115_Z00_T0_merged.tif - Image Id Number: 7</p> <p> ROI009_XY1657814116_Z00_T0_merged.tif - Image Id Number: 8</p> <p> ROI010_XY1657814117_Z00_T0_merged.tif - Image Id Number: 9</p> <p> ROI011_XY1657814118_Z00_T0_merged.tif - Image Id Number: 10</p> <p> ROI012_XY1657814119_Z00_T0_merged.tif - Image Id Number: 11</p> <p> </p> <p>Datset 1 : MS2-CY5_Cyto543_560_18minTPL_5uM</p> <p> Images in the dataset :</p> <p> ROI001 - Position 1_XY1657818948_Z00_T0_merged.tif - Image Id Number: 0</p> <p> ROI001 - Position 2_XY1657818949_Z00_T0_merged.tif - Image Id Number: 1</p> <p> ROI001 - Position 4_XY1657818951_Z00_T0_merged.tif - Image Id Number: 2</p> <p> ROI001 - Position 5_XY1657818952_Z00_T0_merged.tif - Image Id Number: 3</p> <p> ROI001 - Position 6_XY1657818953_Z00_T0_merged.tif - Image Id Number: 4</p> <p> ROI001 - Position 7_XY1657818954_Z00_T0_merged.tif - Image Id Number: 5</p> <p> ROI001 - Position 8_XY1657818955_Z00_T0_merged.tif - Image Id Number: 6</p> <p> ROI001 - Position 9_XY1657818956_Z00_T0_merged.tif - Image Id Number: 7</p> <p> ROI001 - Position 10_XY1657818957_Z00_T0_merged.tif - Image Id Number: 8</p> <p> ROI001 - Position 11_XY1657818958_Z00_T0_merged.tif - Image Id Number: 9</p> <p> ROI001 - Position 12_XY1657818959_Z00_T0_merged.tif - Image Id Number: 10</p> <p> </p> <p>Dataset 2: MS2-CY5_Cyto543_560_5hTPL_5uM</p> <p> Images in the datset :</p> <p> ROI001_XY1657822809_Z00_T0_merged.tif - Image Id Number: 0</p> <p> ROI002_XY1657822933_Z00_T0_merged.tif - Image Id Number: 1</p> <p> ROI003_XY1657822934_Z00_T0_merged.tif - Image Id Number: 2</p> <p> ROI005_XY1657822936_Z00_T0_merged.tif - Image Id Number: 3</p> <p> ROI006_XY1657822937_Z00_T0_merged.tif - Image Id Number: 4</p> <p> ROI007_XY1657822938_Z00_T0_merged.tif - Image Id Number: 5</p> <p> ROI008_XY1657822939_Z00_T0_merged.tif - Image Id Number: 6</p> <p> ROI010_XY1657822941_Z00_T0_merged.tif - Image Id Number: 7</p> <p> ROI013_XY1657822944_Z00_T0_merged.tif - Image Id Number: 8</p> <p> ROI014_XY1657822945_Z00_T0_merged.tif - Image Id Number: 9</p> <p> ROI015_XY1657822946_Z00_T0_merged.tif - Image Id Number: 10</p> <p> ROI016_XY1657822947_Z00_T0_merged.tif - Image Id Number: 11</p> <p> ROI017_XY1657822948_Z00_T0_merged.tif - Image Id Number: 12</p> <p> ROI018_XY1657822949_Z00_T0_merged.tif - Image Id Number: 13</p> <p> </p> <p> </p>
Data from: Designing eco-evolutionary experiments for restoration projects: Opportunities and constraints revealed during Stickleback introductions
Open the record for dataset details and reuse information.
The relationship between code smells and design patterns: an external replicated experiment
<p>Dataset of the paper "The relationship between code smells and design patterns: an external replicated experiment"</p> <p>File descriptions in readme.txt.</p>
Informing antenna design for Global 21-cm experiments using a simulated Bayesian data analysis pipeline (supplementary data)
<p>These are the posterior files, foreground simulation data sets and chromaticity factor values used to produce the results for <a href="https://arxiv.org/abs/2106.10193">arXiv:2106.10193</a>.</p> <p>Plots of the fitted signal and residuals for each case are included, as is a plotting function to reproduce key figures.</p> <p>Naming conventions:</p> <ul> <li>f0: Centre frequency of the 21cm signal present in the simulated data</li> <li>A: Amplitude of the simulated 21cm signal present in the simulated data</li> <li>M_sig: Model being fit to the data includes a 21cm signal</li> <li>M_nosig: Model being fit to the data is a foreground only</li> </ul> <p>Software used:</p> <ul> <li><a href="https://github.com/PolyChord/PolyChordLite/tree/839292290a7747dbee82933bb9f7f955ac45c3ca">PolyChord</a></li> </ul> <p> </p>
Microchamber slide design for cell confinement during imaging- reanimation experiment
<p>We dried slides with 1000 <i>Colpoda steinii</i> cysts per well over a weekend. We reanimated the slides with either 1 mM Tris pH 7.5 or hay medium + K. aerogenes (1ul of preculture + 1ml hay medium). We rehydrated the cells for 10 minutes in 1 mM Tris pH 7.5 on an orbital shaker (100 rpm). We washed the cells in 0.1% SDS for 10 minutes on the shaker. The cells were washed with 1 mM Tris three times for 1 minute before adding Tris or the experimental medium and imaging.</p><p>Plate 1: Tris</p><p>Plate 2: hay medium + K.a.</p><p>At time point 26, active cells are visible in plate 2 at B6, C6, D6, E6. There were no reanimation events observed on the plate treated with Tris alone.</p>
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These curated guides explain access requirements, typical timelines, costs, and reuse considerations for widely used research datasets.
Allen Brain Atlas
Allen Brain Atlas is an Allen Institute collection of brain map atlases, datasets, APIs, and analysis tools covering mouse, human, and non-human primate brain resources.
Annotated Behaviour and Observability Dataset (ABODe)
ABODe is a University of Edinburgh DataShare dataset for behavior classification in group-housed mice using home-cage video, identities, bounding boxes, ground-plate positions, and annotator labels.
DANDI Archive for NWB datasets
DANDI is a BRAIN Initiative archive for publishing and sharing neurophysiology data, including electrophysiology, optophysiology, and behavioral data packaged as NWB and related standards.
International Brain Laboratory public data
The International Brain Laboratory public data releases expose standardized mouse decision-making experiments, including Neuropixels recordings, widefield calcium imaging, behavior, and session metadata accessed through the ONE API.
OpenNeuro
OpenNeuro is a free, open platform for sharing neuroimaging datasets, with public search, dataset pages, and download paths for web, S3, DataLad, and the OpenNeuro CLI.