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8,565 results for “characterization”
REFLOW ETN. ESR10. DPS and STRUBIAS characterization
<p>The dataset includes information on the physical and chemical characterization of different dairy processing sludge (DPS) and STRUBIAS products. All the DPS samples were collected from 3 different sites and on different date. STRUBIAS products include struvite, biochar, hydrochar and sludge ash. Information like source and production progress of all samples are in the second sheet (sample profile) of this dataset.</p>
Characterization of photodiodes for detection of variations in part-to-part gap and weld penetration depth during remote laser welding of copper-to-steel battery tab connectors
<p>In this folder, .csv files and Matlab scripts for processing data from experimental campaign that has been reported in the following paper:<br> Chianese, G., Franciosa, P., Nolte, J., Ceglarek, D., and Patalano, S., “Characterization of photodiodes for detection of variations in part-to-part gap and weld penetration depth during remote laser welding of copper-to-steel battery tab connectors.” Journal of Manufacturing Science and Engineering. In-press.</p> <p>As the experimental campaign is made up of two phases, files are divided in two folders:<br> (i) Phase I - Weld penetration depth; and,<br> (ii) Phase II - Part-to-part gap.</p> <p>In each of these two folders, there are:<br> (i) a Matlab live script that, once the code is run, allows the user to select the signals (please, select all of them);<br> (ii) functions to run the code;<br> (iii) Matlab variable files;<br> (iii) a folder with .csv files that contain signals recorded during experimental campaign;<br> (iv) an Excel file reporting experimental setup and process parameters;<br> (v) a PDF file with the live script and results of the data processing for the readers that cannot run Matlab codes.</p>
Data for deJonge et al. - Characterizing an invasion assemblage: first comparison of insect communities on native and introduced subspecies of Phragmites australis in Ontario, Canada
<p>Data for deJonge et al. publication "Characterizing an invasion assemblage: first comparison of insect communities on native and introduced subspecies of <em>Phragmites australis </em>in Ontario, Canada". Data are produced from a 2016-2017 survey of 28 geographically paired sites across Ontario, Canada containing introduced <em>Phragmites australis </em>ssp. <em>australis </em>or native <em>Phragmites australis </em>ssp. <em>americanus</em>. The dataset includes for each site basic descriptions of site characteristics (e.g., latitude, stem density), the stem attack rate (% of live stems containing at least one insect) of fourteen insect taxa, and alpha-diversity indices calculated from the attack rates ("FullSiteData" tab). It also includes basic presence and absence data for each taxon across the fourteen sites of each subspecies ("Presence-AbsenceData" tab), and paired differences between native and introduced sites in alpha- and beta-diversity indices, and stem attack rates by taxon ("PairedData(Native-Introduced)" tab).</p>
Warburg effect characterizes the skeletal muscle in Fabry Disease: experimental evidence and clinical implications
<p>Skeletal muscle (SM) pain and fatigue are common in Fabry disease (FD), and strongly impact the patient’s quality of life. Still, the SM in FD is poorly investigated. Although energetic alterations are reported in cells from FD patients, they have never been related to fatigue and pain. Given the pivotal relevance of energetics for SM health, we undertook the investigation of the SM. We consistently observed a reduced tolerance to aerobic activity and lactate accumulation in FD-humanized mouse model and patients. Accordingly, in sedentary mouse FD SM we detected an increase in fast/glycolytic-fibers, mirrored by an upregulation of glycolytic enzymes and glucose-transporters. In fibroblasts derived from FD patients, we confirmed a high glycolytic-rate and accordingly, metabolomic/lipidomic-analysis revealed that lipids are underutilized as energetic fuel in FD-patients. In the quest for a tentative mechanism, we explored analogies with genetic myopathies, that show altered expression of energetic metabolism. Specifically, we explored HIF-1 upregulation and found it increased in FD mice and patients. From a screening of miRNAs associated with metabolic stress, we found the significant upregulation of miR-17, which has been previously associated with HIF-1 up-regulation. A specific antagomir targeting miR-17 was able to inhibit HIF-1 accumulation and revert metabolic-remodeling in FD-cells. Our findings unveil an anaerobic glycolytic-switch under normoxia, known as Warburg Effect, which is induced by miR-17-mediated-upregulation of HIF-1. The miR-17/HIF-1 pathway can be a new therapeutic target in FD, and Exercise-testing and blood lactate may become a new diagnostic and monitoring-tool in FD.</p>
Genomic characterization of a wild-like tomato accession from Arizona
<p>Tomato domestication history has been revealed to be a highly complex story. A major contributor to this complexity is an evolutionary intermediate group (Solanum lycopersicum var. cerasiforme (Alef.) Voss; SLC) between the cultivated tomato (Solanum lycopersicum var. lycopersicum L.; SLL) and its wild relative (Solanum pimpinellifolium L.; SP). SLC includes accessions with a broad spectrum of genomic and phenotypic characteristics. Some of the SLC accessions were previously hypothesized to be spreading northward from South America into Mesoamerica and that migration probably entailed reversal to wild-like phenotypes such as smaller fruits. Prior to this study, the northernmost confirmed extension of the SLC was limited to northern Mexico. In this study, we employed genomic methods to investigate the origin of a wild-like tomato found in a garden in Scottsdale Arizona, USA. The so-called "Arizona tomato" featured a vigorous growth habit and carried small fruits weighing 2-3 grams. Our phylogenomic analyses revealed the identity of the Arizona tomato as a member of the Mexican SLC population (SLC MEX). To our knowledge, this is the first report of an SLC accession, confirmed using genomics, growing spontaneously in Arizona. This finding could have implications for conservation biology as well as agriculture.</p>
Green synthesis of ZnO nanoparticles using Cocos nucifera leaf extract: Characterization, antimicrobial, antioxidant, and photocatalytic activity
<p>Zinc oxide nanoparticles (ZnO NPs) have been successfully prepared using <em>Cocos nucifera</em> leaf extract and investigated with their antimicrobial, antioxidant, and photocatalytic activity. The structural, compositional, and morphological properties of the NPs were recorded and studied systematically to confirm the synthesis. The aqueous suspension of NPs showed a UV-Vis. absorption maxima of 370 nm indicating primarily its formation. The XRD analysis identified the NPs with hexagonal wurtzite structure with an average particle size of 16.6 nm. The FTIR analysis identified some biomolecules and functional groups in the leaf extract as responsible for the encapsulation and stabilization of ZnO NPs. The EDX analysis showed the desired elemental compositions in the material. A flower-shaped morphology of ZnO NPs was observed by SEM with a grain size of around 15 nm. The optical properties of the NPs were studied by UV-Vis spectroscopy and the bandgap was calculated as 3.37 eV. The Prepared ZnO NPs have demonstrated antimicrobial activity against <em>T. harzianum</em>, and <em>S. aureus</em> with a ZOI (zone of inhibition) of 14 and 10 mm, respectively. The photocatalytic behavior of ZnO NPs showed absorbance degradation at around 640 nm and discolored methylene blue dye after one hour with a degradation maximum of 84.29 %. Thus, the prepared ZnO NPs could be used potentially in antibiotic development, pharmaceutical industries, and as photocatalysts. </p>
Data from: Nanoscale characterization of collagen structural responses to in situ loading in rat Achilles tendons
<p>This dataset is originally used in:</p> <p>I. Silva Barreto, M. Pierantoni, M. Hammerman, E. Törnquist, S. Le Cann, A. Diaz, J. Engqvist, M. Liebi, P. Eliasson, H. Isaksson, <em>Nanoscale characterization of collagen structural responses to in situ loading in rat Achilles tendons</em>, <strong>Matrix Biology</strong> (2022), doi:https://doi.org/10.1016/j.matbio.2022.11.006</p> <p><strong>Abstract:</strong> The specific viscoelastic mechanical properties of Achilles tendons are highly dependent on the structural characteristics of collagen at and between all hierarchical levels. Research has been conducted on the deformation mechanisms of positional tendons and single fibrils, but knowledge about the coupling between the whole tendon and nanoscale deformation mechanisms of more commonly injured energy-storing tendons, such as Achilles tendons, remains sparse. By exploiting the highly periodic arrangement of tendons at the nanoscale, <em>in situ</em> loading of rat Achilles tendons during small-angle X-ray scattering acquisition was used to investigate the collagen structural response during load to rupture, cyclic loading and stress relaxation. The fibril strain was substantially lower than the applied tissue strain. The fibrils strained linearly in the elastic region of the tissue, but also exhibited viscoelastic properties, such as an increased stretchability and recovery during cyclic loading and fibril strain relaxation during tissue stress relaxation. We demonstrate that the changes in the width of the collagen reflections could be attributed to strain heterogeneity and not changes in size of the coherently diffracting domains. Fibril strain heterogeneity increased with applied loads and after the toe region, fibrils also became increasingly disordered. Additionally, a thorough evaluation of radiation damage was performed. In conclusion, this study clearly displays the simultaneous structural response and adaption of the collagen fibrils to the applied tissue loads and provide novel information about the transition of loads between length scales in the Achilles tendon.</p> <p>Any queries related to the data set or the publication may be directed to Hanna Isaksson by email (hanna.isaksson@bme.lth.se).</p>
Characterizing phenotypic diversity in marine populations of the threespine stickleback
<p class="MsoNormal">The threespine stickleback (<em>Gasterosteus aculeatus</em>) is an important model for studying the evolution of vertebrate morphology. Sticklebacks inhabit freshwater, brackish, and marine northern hemisphere waters. Anadromous and marine populations (hereafter marine) are assumed to have remained unchanged morphologically from ancestral marine sticklebacks, despite marine environments varying on regional and local scales. Recent studies suggest that genetic and phenotypic structure exists in marine populations, yet the scale of this variation, and its ecological causes remain unclear. Our goal was to assess morphological trait variation in marine stickleback populations around Southern British Columbia (BC) and determine if oceanographic and habitat characteristics were associated with this variation. Between May-July 2019, we sampled 534 sticklebacks from 15 sites around Vancouver Island, a region characterized by a large diversity of oceanographic and habitat features. We characterized trait variation using two-dimensional (2D) geometric morphometric analysis, comparing individuals between oceanographic regions and habitats. We focused on head and body shape. We found that marine sticklebacks varied morphologically among and between regions and habitats, but the variation did not appear to be related to environmental variation. Sexual dimorphism was the largest source of variation, but oceanographic and habitat variables influenced differences between sexes. We concluded that marine sticklebacks offer abundant opportunities for expanding our knowledge of drivers of morphology.</p>
Dataset supporting publication: "Experimental Characterization of a Smart Material via DIC"
<p>Dataset supporting publication: “Experimental Characterization of a Smart Material via DIC” (publication available in <a href="https://zenodo.org/record/7266424#.Y1_dynbMJPY">GEOFIT Zenodo</a>)</p> <p>Datasets resultant from structural health monitoring activities (accelerometer data).</p> <p>When no extensometer is available in a generic tensile-compression test carried out by a universal testing machine (for instance the model BIONIX from Material Testing Systems (MTS), the test results only provide the relative displacement between the machine grips. The test does not provide any information on the local behaviour of the material. This contribution presents the potential of an application of Digital Image Correlation (DIC) toward the reconstruction of the behaviour along the specimen. In particular, the authors test a Ni-Ti shape memory alloys (SMA) specimen with emphasis on the coupling of the two measurement techniques. The activity reported in this work have been founded by European Union Horizon 2020 research and innovation program under grant agreement No 792210 (GEOFIT).</p>
Construction and characterization of a genome-scale ordered mutant collection of Bacteroides thetaiotaomicron
<p>Ordered transposon-insertion collections, in which specific transposon-insertion mutants are stored as monocultures in a genome-scale collection, represent a promising tool for genetic dissection of human gut microbiota members. However, publicly available collections are scarce and the construction methodology remains in the early stages of development. This dataset contains the raw data associated with the statistics and figures reported in an accompanying paper which describes the assembly of a genome-scale ordered collection of transposon-insertion mutants in the model gut anaerobe <em>Bacteroides</em> <em>thetaiotaomicron</em> VPI-5482 that we created as a resource for the research community.</p>
Neutron Bragg edge imaging for strain characterization in powder bed additive manufacturing environments
<p>The paper describes an approach to disentangle the recorded transmission spectrum obtained from Bragg edge imaging. The transmission spectrum of the samples embedded in their corresponding powder was successfully extracted, proven by the coinciding strain maps produced. The horizontal profiles from the maps were plotted together with neutron diffraction results and they agree very well. The uploaded data were the raw data obtained from Bragg edge imaging and neutron diffraction experiments used to construct the strain maps and plots shown in the paper.</p>
Data deposition for "Reliability and accuracy of single-molecule FRET studies for characterization of structural dynamics and distances in proteins"
<p>The deposited data for the publication "Reliability and accuracy of single-molecule FRET studies for characterization of structural dynamics and distances in proteins".</p> <p>Data contains folder and sub-folders for the raw data, Main excel sheet named as "MasterTable_FRET-Challenge-Protein-Dynamics_Nat_Meth_Agam et al" has most of the data used in the publication. Another excel sheets "Data List for FIgures for Agam et al_revised" and "Data List for Supplmentary FIgures for Agam et al_revised" have the information regarding the Figure-wise data description and where the respective data locates.</p>
Characterization and cellular localization of a SFT-2/Got-1- like transporter protein of Leishmania infantum
<p><strong>Abstract</strong>: Background: Visceral leishmaniasis affects approximately 12 million people worldwide. Current existing drugs cause several side effects and resistance, the identification of new therapeutic targets for the development of new drugs is necessary. The vesicular trafficking in the parasite flagellar pocket is essential for parasite survival and proliferation, but little is known about the proteins involved in the endocytic/secretory pathways. In this work, we are describing the characterization of a transporter cargo protein SFT-2/Got-1 like in <em>Leishmania infantum</em>. <strong>Material and Methods:</strong> Using bioinformatics tools, the putative Got-1 protein A4HSK3 was characterized structurally and phylogenetically. Molecular biology was used to clone and express the protein and confocal fluorescence to determine its subcellular localization. <strong>Results:</strong> The Got-1 like protein presents four alpha helix TM conserved domains (aa38-aa147) characteristics of the Got-1/SFT-2 family proteins and an important PEN-2 conserved motif LGDYXXF located in the extracellular loop. Confocal microscopy suggests that Got-1/SFT-2 like is localized in the flagellar pocket, and is partially co-localized with the <em>L. infantum</em> presenilin-like protein. Phylogenetically, the <em>Leishmania sp</em> Got-1 like is contained in a subgroup of proteins clearly detached from the other Trypanosomatidae, such as <em>T. cruzi</em> and <em>T. brucei</em>. <strong>Conclusions:</strong> Our data show the presence of an important transported proteins, and its colocalizatoin with the presenilin aspartyl protease in the flagelar pocket of the <em>L. infantum</em> open new perspectives to identify novel targets, which can be an alternative therapeutic strategy against leishmaniasis</p>
Data for: Oligonucleotide mapping via mass spectrometry to enable comprehensive primary structure characterization of an mRNA vaccine against SARS-CoV-2
<p>Oligonucleotide mapping via liquid chromatography mass spectrometry mass spectrometry (LC-MS/MS) was recently developed to support development of Comirnaty®, the world's first commercial mRNA vaccine which immunizes against the SARS-CoV-2 virus. Analogous to peptide mapping of therapeutic protein modalities, oligonucleotide mapping described here provides direct primary structure characterization of mRNA, through enzymatic digestion, accurate mass determinations, and optimized collisionally-induced fragmentation. Sample preparation for oligonucleotide mapping is a rapid, one-pot, one-enzyme digestion. The digest is analyzed via LC-MS/MS with an extended gradient and resulting data analysis employs semi-automated software. In a single method, oligonucleotide mapping readouts include a highly reproducible and completely annotated UV chromatogram with >98% sequence coverage and a microheterogeneity assessment of 5´ terminus capping and 3´ terminus poly(A) tail length. Oligonucleotide mapping was pivotal to ensure the quality, safety, and efficacy of mRNA vaccines by providing: confirmation of construct identity and primary structure and assessment of product comparability following manufacturing process changes. More broadly, this technique may be used to directly interrogate the primary structure of RNA molecules in general.</p>
Characterization of grain carotenoids in global sorghum germplasm to guide genomics-assisted breeding strategies
<p><strong>Background</strong></p> <p>Crop biofortification is a successful strategy to ameliorate Vitamin A deficiency. Sorghum is a good candidate for vitamin A biofortification, as it is a staple food in regions with high prevalence of vitamin A deficiency. β-carotene—the main provitamin A carotenoid—is below the target concentration in sorghum grain, therefore, biofortification breeding is required. Previous studies found evidence that sorghum carotenoid variation is oligogenic, suggesting that marker-assisted selection can be an appropriate biofortification method. However, we hypothesize that sorghum carotenoids have both oligogenic and polygenic components of variation. Genomics-assisted breeding could accelerate breeding efforts, but there exists knowledge gaps in the genetics underlying carotenoid variation, as well as appropriate germplasm to serve as donors.</p> <p><strong>Results</strong></p> <p>In this study, we characterized carotenoids in 447 accessions from the sorghum association panel and carotenoid panel using high-performance liquid chromatography, finding high carotenoid accessions not previously identified. Genome-wide association studies confirmed that zeaxanthin epoxidase is a major gene underlying variation for not only zeaxanthin but also lutein and β-carotene. High carotenoid lines were found to have limited genetic diversity and originated predominantly from only one country. Potential novel genetic diversity for carotenoid content was identified through genomic predictions in 2,495 accessions of unexplored germplasm. Oligogenic variation of carotenoids was confirmed, as well as evidence for polygenic variation, suggesting both marker-assisted selection and genomic selection can facilitate breeding efforts.</p> <p><strong>Conclusions</strong></p> <p>Sorghum vitamin A biofortification could be beneficial for millions of people who rely on it as a dietary staple. Carotenoid content in sorghum is low, but high heritability suggests that increasing concentrations through breeding is possible. Low genetic diversity among high carotenoid lines might be the main limitation for breeding efforts, therefore further germplasm characterization is needed to assess the feasibility of biofortification breeding. Based on germplasm here evaluated, most countries' germplasm lacks high carotenoid alleles, thus prebreeding will be needed. An SNP marker within the zeaxanthin epoxidase gene was identified as a good candidate for use in marker-assisted selection. Due to the oligogenic and polygenic variation of sorghum grain carotenoids, both marker-assisted selection and genomic selection can be employed to accelerate breeding efforts.</p>
Resilience indicators used in the multidimensional characterization of the resilience of urban areas prone to flash floods in the region of Castilla y León (Spain)
<p>Database containing resilience indicators used in the characterization of all dimensions of resilience (social, economic, ecosystemic, physical, institutional and cultural) in those municipalities susceptible to flash floods in the region of Castilla y León (Spain). The database includes a total of 191 resilience indicators, of which 48 correspond to social resilience, 32 to economic resilience, 34 to ecosystem resilience, 44 to physical resilience, 27 to institutional resilience and 6 to cultural resilience.</p> <p>The Excel (.xlsx) file is organized by dimensions, where the prefix "SOC_" corresponds to the social dimension, "ECON_" to the economic dimension, "ECOS_" to the ecosystemic dimension, "PHY_" to the physical dimension, "INS_" to the institutional dimension and "CUL_" to the cultural dimension. Each dimension of resilience occupies two tabs: the first tab (suffixes "_data") contains the description of the indicators included (i.e., indicator code, unit of measurement, year of information, source of information, direct link to the information and bibliographic references that support the consideration of the different indicators); while the second tab (suffixes "_variables") contains the values of the different indicators (identified by their codes, which appear in the first tab) for each unit of analysis. </p>
Dataset for publication: ExTrack characterizes transition kinetics and diffusion in noisy single-particle tracks
<p>Dataset related to article </p> <p>Simon, F., J.-Y. Tinevez, S. van Teeffelen (2023) ExTrack characterizes transition kinetics and diffusion in noisy single-particle tracks. Journal of Cell Biology</p> <p>Movies: example movies for PBP1b and RodZ. G0 = 370% expression level, G1 = 130% expression level, G2 = 30% expression level.</p> <p>Tracks: resulting tracks from the replicates, each replicate is composed of several movies (one xml file per movie). G0 = 370% expression level, G1 = 130% expression level, G2 = 30% expression level.</p> <p>See the material and method section for more details on the experimental conditions and the analysis pipeline.<br> </p>
Dataset related to the publication "Optical realization of the pascal - Characterization of two gas modulated refractometers"
<p>The data set consists of; The published paper, all figures that present measurement or simulation data in .png and .fig format and the underlying data plotted in the figures in text format. The published plots were generated from the fig files. The text files were generated by reading the plotted data from the fig files. The files are named Fig_XX were XX corresponds to the figure number in the publication. The format of the text file is as follows. Before every data set there is a header consisting of; The number of the subplot where the data is plotted (Plot: XX), the number of the data set in the sub plot (DataSet: XX), and the color of the line or marker in the plot (Color: XX). The description of what each color represents can be found in the publication.</p>
1 PREHEALING: Design of concrete precast elements incorporating sustainable strategies for self-healing to increase their service life. Material characterization
<p>This project deals with the analysis of the performance of concrete with internal curing aggregates (IC), low clinker cementitious materials and steel fibres, to be used in real applications in the field of precast industry.</p> <p>The low clinker cementitious material will be composed of clinker (C), metakaolin (MK) and limestone filler (LF) as powder material. In order to promote the sustainability of these products, a sustainable powder (SP) obtained from wood ash will be included. In addition, aggregates from coal bottom ash (CBA) will be used as internal curing water reservoirs.</p> <p>This section includes the characterization of these materials providing their main properties as particle size distribution, density or absorption, among others</p>
DATASET: Water Phantom Characterization of a Novel Optical Fiber Sensor for LDR Brachytherapy
<p>Dataset for the journal article "Water Phantom Characterization of a Novel Optical Fiber Sensor for LDR Brachytherapy"</p>
ScienceDex guides
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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.