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97 results for “experimental design”
Experimental package for "Live Software Documentation of Design Pattern Instances"
Experimental package containing the materials and data for an empirical study conducted with the DesignPatterDoc plugin for IntelliJ IDEA.
Figure 1. Experimental units for feeding rates tests with terrestrial isopods and fecal pellets from different food sources. A in Coprophagy in detritivores: methodological design for feeding studies in terrestrial isopods (Crustacea, Isopoda, Oniscidea)
Figure 1. Experimental units for feeding rates tests with terrestrial isopods and fecal pellets from different food sources. A) Treatment access; coprophagy is allowed. B) Treatment removal; coprophagy and bacterial activity on feces are avoided. C) Treatment net; coprophagy is avoided and bacterial activity on feces allowed. D) Fecal pellet from carrot (left) and decomposing leaf (right) consumption.
Datasets for "Comparison of multivariate ANOVA-based approaches for the determination of relevant variables in experimentally designed metabolomic studies"
<p><em><strong>Raw files of the LC-MS designed experiments.</strong></em></p> <p> </p> <p>* <strong>YEAST GROWTH DATASET</strong></p> <blockquote> <p><strong>A) Phospholipids extraction</strong></p> <p>- FosfoB1.raw</p> <p>- FosfoB3.raw</p> <p>- FosfoC2.raw</p> <p>- FosfoD1.raw</p> <p>- FosfoE1.raw</p> <p>- FosfoE2.raw</p> <p>- FosfoE3.raw</p> </blockquote> <p> </p> <blockquote> <p><strong>B) Sphingolipids extraction</strong></p> <p>- EsfingoB1.raw</p> <p>- EsfingoB2.raw</p> <p>- EsfingoC1.raw</p> <p>- EsfingoC2.raw</p> <p>- EsfingoC3.raw</p> <p>- EsfingoD1.raw</p> <p>- EsfingoD2.raw</p> <p>- EsfingoD3.raw</p> </blockquote> <p> </p> <p><strong>* ZEBRAFISH DATASET</strong></p> <blockquote> <p><strong>A) BPA study</strong></p> <p>Low BPA exposure</p> <p>- Low_BPA_A.d</p> <p>- Low_BPA_B.d</p> <p>- Low_BPA_C.d</p> <p>High_BPA_exposure</p> <p>- High_BPA_A.d</p> <p>- High_BPA_B.d</p> <p>- High_BPA_C.d</p> <p>Controls</p> <p>- Control_BPA_A.d</p> <p>-Control_BPA_B.d</p> <p>- Control_BPA_C.d</p> </blockquote> <p> </p> <blockquote> <p><strong>B) Estradiol study</strong></p> <p>Low E2 exposure</p> <p>- Low_E2_A.d</p> <p>- Low_E2_B.d</p> <p>- Low_E2_C.d</p> <p>High_E2_exposure</p> <p>- High_E2_A.d</p> <p>- High_E2_B.d</p> <p>- High_E2_C.d</p> <p>Controls</p> <p>- Control_E2_A.d</p> <p>-Control_E2_B.d</p> <p>- Control_E2_C.d</p> </blockquote> <p> </p> <p><strong>Funding:</strong> This research was funded by the Spanish Ministry of Science and Innovation (MCI, Grant CTQ2017-82598-P) and Severo Ochoa Project CEX2018-000794-S (funded by MCIN/AEI/ 10.13039/501100011033), and supported from the Catalan Agency for Management of University and Research Grants (AGAUR, Grant 2017SGR753). MPC was funded by a predoctoral FPU 16/02640 scholarship from the Spanish Ministry of Education and Vocational Training (MEFP). The 1290 LC system and 6545 XT QTOF instrumentation were provided to DS as gifts by Agilent Technologies through their Thought Leader program.</p>
Figure 2. Experimental wireless sensors setup in greenhouse-Design and Development a Control and Monitoring System for Greenhouse Conditions Based-On Multi Agent System
<p>Figure 2 illustrates how the sensor<br> nodes were deployed to the greenhouse block. The idea of the vertical deployment was to get a<br> better understanding of the microclimate layers which typically exist in the greenhouse, and to<br> figure out what kind of differences occur in the climate between lower and upper flora.</p>
INSPIRED: Inelastic Neutron Scattering Prediction for Instantaneous Results and Experimental Design
<p>INSPIRED is a graphic user interface (GUI) that performs rapid prediction and calculation of phonons and inelastic neutron scattering (INS) spectra. It consists of three modules. The "Predictor" module uses a symmetry-aware neural network (coupled with an autoencoder) [1-3] to perform direct prediction of total/partial phonon density of states and powder 1D/2D INS spectra from a given structure. The "DFT database" module uses pre-calculated force constants from density functional theory (DFT) [4] to perform INS simulations for single crystals and powders (for the crystals available in the database). The "MLFF" module uses pre-trained universal force fields [8-12] to perform structural optimization, phonon calculation, and INS simulations for single crystals and powders for any given crystal. The predicted/calculated results are saved in CSV files and can be visualized with the GUI. INSPIRED is developed to be a convenient tool for INS experimental planning, steering, and quick data analysis.</p> <p>This repository contains two files as an update to the previous version:</p> <p>1. A tarball file (dftdb.tar.gz) containing the DFT database (currently with 12734 crystals)</p> <p>2. A VirtualBox appliance file (inspired_vm.ova) to run INSPIRED as a virtual machine.</p> <p>The ML model file (model.tar.gz) remains the same and can be obtained from the previous version.</p> <p>Instructions on how to use these files, as well as the rest part of the software, can be found on the <a href="https://github.com/cyqjh/inspired">GitHub page</a>. </p>
Figure 1. Scenarios and experimental design for assessing a in Pilot study: investigating the role of biofouling in transmission of Ostreid herpesvirus 1 (OsHV-1)
Figure 1. Scenarios and experimental design for assessing a range of biofouling organisms for the potential to spread OsHV-1. A. Scenario for the OsHV-1 transmission pathway evaluated by field surveillance. B.1 Scenario for the vessel biofouling OsHV-1 transmission pathway. B.2 Adaptation of the vessel biofouling scenario for a laboratory infection trial with Pacific oysters and biofouling organisms evaluated as intermediates for transmission from injected Pacific oysters to naïve Pacific oysters.
Figure 2 in Design and optimization of an experimental maintenance system for yellow clam broodstock Amarilladesma mactroides (Reeve, 1854)
Figure 2. Yellow clams (Amarilladesma mactroides) numbered with a black permanent ink and a red nail polish covered with a bicomponent adhesive based on epoxy resin (Araldite) on the day that it was first marked (a and b) and after 10 days buried in the experimental maintenance system (c).
Figure 1. Experimental unit model built with a 150 in Design and optimization of an experimental maintenance system for yellow clam broodstock Amarilladesma mactroides (Reeve, 1854)
Figure 1. Experimental unit model built with a 150 mm PVC pipe and coupling, used in the maintenance of yellow clam (Amarilladesma mactroides) broodstock in the laboratory.
Figure 4 in Design and optimization of an experimental maintenance system for yellow clam broodstock Amarilladesma mactroides (Reeve, 1854)
Figure 4. Histological sections of the tissues of yellow clam (Amarilladesma mactroides) sampled at the beginning and at the end of trial II (a, b) and trial III (c, d): (a) gonad of female clam with residual and immature oocytes in stage 6 (totally spawned) at the beginning of trial II; and (b) gonad of female clam in stage 5 (partially spawned) at the end of trial II, where it is possible to distinguish immature peduncular oocytes attached to the wall (IO), some free mature polygonal oocytes (MPO) and residual oocytes (RO); (c) gonad of female clam in stage 3 with immature (IO) and mature polygonal oocytes (MPO); (d) gonad of female clam stage 4, where several mature polygonal oocytes (MPO) may be observed.
Figure 3 in Design and optimization of an experimental maintenance system for yellow clam broodstock Amarilladesma mactroides (Reeve, 1854)
Figure 3. Mean daily consumption of microalgae (mixture of Isochrysis galbana and Chaetoceros muelleri on trial I or only C. muelleri on trial II and III) estimated for each individual (cells.mL−1. clam−1) of yellow clam (Amarilladesma mactroides) in trials I, II and III.
Fig. 1. Experimental design showing the 6 in Dispersal of the zoophytophagous predator Brontocoris tabidus and Podisus nigrispinus (Heteroptera: Pentatomidae) in an eucalyptus plantation
Fig. 1. Experimental design showing the 6 sample areas in the ViÇosa Municipality, Minas Gerais State, Brazil. Map was produced with QGIS version 2.18.3 (Open Source Geospatial Foundation Project, http://www.qgis.org/ [last accessed 16 Dec 2019]).
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.
Code and data associated with Christiansen et al. 2021 "Facilitating population genomics of non-model organisms through optimized experimental design for reduced representation sequencing"
<p>All code and data input and output files (except reference genome and raw sequencing data) needed to reproduce the results of Christiansen et al. 2021 as released on <a href="https://github.com/notothen/radpilot">https://github.com/notothen/radpilot</a> alongside journal publication. See published paper:</p> <p>Christiansen, H., Heindler, F.M., Hellemans, B. <em>et al.</em> Facilitating population genomics of non-model organisms through optimized experimental design for reduced representation sequencing. <em>BMC Genomics</em> <strong>22, </strong>625 (2021). <a href="https://doi.org/10.1186/s12864-021-07917-3">https://doi.org/10.1186/s12864-021-07917-3</a></p>
Supporting data for: "Hybrid Computational-Experimental Data-Driven Design of Self-Assembling π-Conjugated Peptides"
<p>This repository contains supporting data and code for the paper titled "Hybrid Computational-Experimental Data-Driven Design of Self-Assembling π-Conjugated Peptides" by Kirill Shmilovich, Sayak Subhra Panda, Anna Stouffer, John D. Tovar, and Andrew L. Ferguson.</p>
Dataset supporting publication: "Geofit: Experimental Investigations and Numerical Validation of Shallow Spiral Collectors as a Basis for Development of a Design Tool for Geothermal Retrofitting of Existing Buildings"
<p>Dataset supporting publication: “Geofit: Experimental Investigations and Numerical Validation of Shallow Spiral Collectors as a Basis for Development of a Design Tool for Geothermal Retrofitting of Existing Buildings” (publication available in <a href="https://zenodo.org/record/7273966#.Y2JgBnbMJPY">GEOFIT Zenodo</a>)</p> <p>The H2020 GEOFIT (grant no. 792210) project will implement and demonstrate easy-to-install and economical geothermal systems in combination with heat pumps for energy-efficient building retrofits at five pilot sites across Europe - a historic building (ITA), a school (ESP), an indoor swimming pool (IRL), an office building (FRA) and a single-family house (IRL) (GEOFIT,2018). Heat pump tests and experimental laboratory tests with shallow geothermal heat collector types are carried out in climate chambers at the AIT. Material data of different soil types are determined in the thermophysics laboratory. Furthermore, CFD simulations of the conducted experiments are calculated with ANSYS Fluent. All this provides data and know-how for the development of a design tool for ground collector configurations such as helices and slinky loops, which are particularly relevant for building retrofits in GEOFIT. Experimental work focused on near-surface spiral geothermal heat exchanger configurations that can be installed at a maximum depth of five metres. Real-scale experiments were carried out for vertically oriented spiral collectors (helix) in real soil. One objective was to develop a measurement concept in the laboratory environment to create the framework for a reliable database. This database is used as a basis for the further development or new development of engineering design tools. Distributed resistance temperature sensors and a fibre-optic temperature measurement system (DTS) were used. The moisture content of the soil was recorded using soil moisture sensors. A heat flow was conditioned by means of a helix shaped electric heating cable in a 1m³ cuboid soil container. The measurements were carried out in a climate chamber at a defined constant temperature of 10 °C. The evaluation of the transient response behaviour is spatially resolved. This results in coordinate-related temperature points, which describe temperature gradients in all axes of the container over time. Three different types of soil were investigated. The temperature behaviour of humus soil, sand and a mixture of these was investigated experimentally in smaller experiments and the material data such as heat capacity, thermal conductivity and density were determined thermophysically in the laboratory. Based on this data, a CFD model was developed which can be used to modify the geometry parameters of the helix.</p>
Practical Cell Design for PTMA-Based Organic Batteries: an Experimental and Modeling Study - Supporting Dataset
<p>The cycling and impedance data used in the work "Practical Cell Design for PTMA-Based Organic Batteries: an Experimental and Modeling Study" are provided in this repository.<br> The data are reported both as original .txt files with the raw data from the instruments and as processed Matlab files, where the data are structured in cycles.<br> The Excel sheet "Metadata" explains the type of battery associated to each code and file(s).</p> <p><br> </p>
Data and Codes for Experimentally Validated Inverse design of Multi Property Fe-Co-Ni alloys: Data and codes release v1.0.1
<p>Data and Codes for Experimentally Validated Inverse design of Multi-Property Fe-Co-Ni alloys</p>
Disentangling effects of climate and land use on biodiversity and ecosystem services – a multi-scale experimental design
<p>1. Climate and land-use change are key drivers of environmental degradation in the Anthropocene, but too little is known about their interactive effects on biodiversity and ecosystem services. Long-term data on biodiversity trends are currently lacking. Furthermore, previous ecological studies have rarely considered climate and land use in a joint design, did not achieve variable independence or lost statistical power by not covering the full range of environmental gradients.</p> <p>2. Here, we introduce a multi-scale space-for-time study design to disentangle effects of climate and land use on biodiversity and ecosystem services. The site selection approach coupled extensive GIS-based exploration and correlation heatmaps with a crossed and nested design covering regional, landscape and local scales. Its implementation in Bavaria (Germany) resulted in a set of study plots that maximize the potential range and independence of environmental variables at different spatial scales.</p> <p>3. Stratifying the state of Bavaria into five climate zones (reference period 1981–2010) and three prevailing land-use types, i.e. near-natural, agriculture and urban, resulted in 60 study regions (5.8x5.8 km quadrants) covering a mean annual temperature gradient of 5.6–9.8 °C and a spatial extent of ~310x310 km. Within these regions, we nested 180 study plots located in contrasting local land-use types, i.e. forests, grasslands, arable land or settlement (local climate gradient 4.5–10 °C). This approach achieved low correlations between climate and land use (proportional cover) at the regional and landscape scale with |r≤0.33| and |r≤0.29|, respectively. Furthermore, using correlation heatmaps for local plot selection reduced potentially confounding relationships between landscape composition and configuration for plots located in forests, arable land and settlements.</p> <p>4. The suggested design expands upon previous research in covering a significant range of environmental gradients and including a diversity of dominant land-use types at different scales within different climatic contexts. It allows independent assessment of the relative contribution of multi-scale climate and land use on biodiversity and ecosystem services. Understanding potential interdependencies among global change drivers is essential to develop effective restoration and mitigation strategies against biodiversity decline, especially in expectation of future climatic changes. Importantly, this study also provides a baseline for long-term ecological monitoring programs.</p>
Data of "Ductile fracture of high entropy alloys: from the design of an experimental campaign to the development of a micromechanics-based modeling framework"
<p>Data related to the publication (we would be grateful if you could cite the paper in the case in which you are using the data):</p> <p>title = "Ductile fracture of high entropy alloys: from the design of an experimental campaign to the development of a micromechanics-based modeling framework",<br> journal = "Engineering Fracture Mechanics",<br> year = "2022",<br> volume = "275",<br> pages = "108844 ",<br> doi = "https://doi.org/10.1016/j.engfracmech.2022.108844",<br> author = "Antoine Hilhorst, Julien Leclerc, Thomas Pardoen, Pascal J. Jacques, Ludovic Noels, Van-Dung Nguyen"</p> <p>New version following review.</p> <p> </p> <p> </p>
SSiB5/TRIFFID/DayCent-SOM evaluation datasets for the paper Organization and Experimental design
<p>The various data used for the paper "Development of the SSiB5/TRIFFID/DayCent-SOM Model to study the impact of nitrogen dynamics on carbon cycle over terrestrial surface" submitted to The Journal of Advances in Modeling Earth Systems for publication are shared here.</p>
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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.