Find research datasets worth reusing
Search datasets from major research repositories and use ShareScore to quickly assess how well each record supports discovery, access, and reuse.
8,565
datasets available to search
ShareScore release 0.9.0
Dataset results
8,565 results for “characterization”
Data from: Characterization of a male reproductive transcriptome for Peromyscus eremicus (Cactus mouse)
Rodents of the genus Peromyscus have become increasingly utilized models for investigations into adaptive biology. This genus is particularly powerful for research linking genetics with adaptive physiology or behaviors, and recent research has capitalized on the unique opportunities afforded by the ecological diversity of these rodents. Well characterized genomic and transcriptomic data is intrinsic to explorations of the genetic architecture responsible for ecological adaptations. Therefore, this study characterizes the transcriptome of three male reproductive tissues (testes, epididymis and vas deferens) of Peromyscus eremicus (Cactus mouse), a desert specialist. The transcriptome assembly process was optimized in order to produce a high quality and substantially complete annotated transcriptome. This composite transcriptome was generated to characterize the expressed transcripts in the male reproductive tract of P. eremicus, which will serve as a crucial resource for future research investigating our hypothesis that the male Cactus mouse possesses an adaptive reproductive phenotype to mitigate water-loss from ejaculate. This study reports genes under positive selection in the male Cactus mouse reproductive transcriptome relative to transcriptomes from Peromyscus maniculatus (deer mouse) and Mus musculus. Thus, this study expands upon existing genetic research in this species, and we provide a high quality transcriptome to enable further explorations of our proposed hypothesis for male Cactus mouse reproductive adaptations to minimize seminal fluid loss.
Data from: Optimization and characterization of PLGA nanoparticles loaded with Astaxanthin and evaluation of anti-photodamage effect in vitro
<p><span><span>Astaxanthin is a xanthophyll carotenoid with </span><span>high</span><span> beneficial biological activities, such as antioxidant function and scavenging oxygen free radicals, but its application is limited because of poor water solubility and low bioavailability. Here, we prepared and optimized poly (lactic-co-glycolic acid) (PLGA) nanoparticles loaded with astaxanthin using the emulsion solvent evaporation technique and investigated the anti-photodamage effect in Ha</span><span>C</span><span>a</span><span>T</span><span> cells. The four-factor three-stage Box-Behnken design was used to optimize the nanoparticle formulation. The experimental determination of the optimal nanoparticle size was 154.4 ± 0.35 nm, the zeta potential was 22.07 ± 0.93 mV, encapsulation efficiency was 96.42 ± 0.73%, and drug loading capacity was 7.19 ± 0.12%. The physicochemical properties of the optimized nanoparticles were characterized by dynamic light scattering, SEM, TEM, FTIR, XRD, DSC, and TGA. <i>In vitro</i> study exhibited the excellent cell viability and cellular uptake of optimized nanoparticle on Ha</span><span>C</span><span>a</span><span>T</span><span> cells. The anti-photodamage studies (cytotoxicity assay, ROS content, and JC-1 assessment) demonstrated that the optimized nanoparticles were more effective and safer than pure astaxanthin in Ha</span><span>C</span><span>a</span><span>T</span><span> cells. These results suggest that our PLGA-coated astaxanthin nanoparticles synthesis method was highly feasible, and can be used in cosmetics or the treatment of skin diseases.</span></span></p>
Development of tools to rapidly identify cryptic species and characterize their genetic diversity in different European kelp species
<p>Marine ecosystems formed by kelp forests are severely threatened by global change and local coastline disturbances in many regions. In order to take appropriate conservation, mitigation and restoration actions, it is crucial to identify the most diverse populations which could serve as a "reservoir" of genetic diversity. This requires the development of specific tools, such as microsatellite markers to investigate the level and spatial distribution of genetic diversity. Here, we tested new polymorphic microsatellite loci from the genome of the kelp, <i>Lamina</i><i>ria digitata,</i> and tested them for cross-amplification and polymorphism in four closely related congeneric species (<i>Laminaria hyperborea, Laminaria ochroleuca, Laminaria rodriguezii and Laminaria pallida</i>). Adding these 20 new microsatellite loci to the ten <i>L. digitata</i> loci previously developed by Billot et al. (1998) and Brenan et al. (2014) and to the ten <i>L. ochroleuca</i> loci previously developed by Coelho et al. (2014), we retained a total of 30 polymorphic loci for <i>L. digitata</i>, 19 for <i>L. hyperborea</i>, 16 for <i>L ochroleuca</i>, 19 for<i> L. rodriguezii</i> and 12 for<i> L. pallida</i>. These markers have been tested for the first time in the last two species. As predicted, the proportion of markers that cross-amplified between species decreased with increasing genetic distance. In addition, as problems of species identification were reported in this genus, mainly between <i>L. digitata </i>and <i>Hedophyllum nigripes</i>,<i> </i>but also between <i>L. digitata, L. hyperborea </i>and<i> L. ochroleuca </i>in areas where their range distributions overlap, we report a rapid PCR identification method based on species-specific cox1 mitochondrial primers that allows these four species of kelp to be rapidly distinguished.</p>
Data and simulations files for the article "Accurate modeling and characterization of photothermal forces in optomechanics"
<p>Data and simulations files for the article "Accurate modeling and characterization of photothermal forces in optomechanics".</p>
Minimum number of experimental data for the thermal characterization of a hot water storage tank. Videos of temperature evolution
<p>Videos that show the evolution of the instantaneous temperature profile measured and determined with the models and in the cases developed in the paper "Minimum number of experimental data for the thermal characterization of a hot water storage tank" by the same authors. Thermocline thickness evolution is also shown.</p> <p>Video 1. Evolution of the instantaneous temperature profile estimated with the 5 MEL models during the charging period. Evolution of thermocline thickness during the same period is displayed in a separate frame also for all MEL models.<br> Video 2. Evolution of the instantaneous temperature profile estimated with the 5 MDH models during the charging period. Evolution of thermocline thickness during the same period is displayed in a separate frame also for all MDH models.</p>
Genomic and functional characterization of a mucosal symbiont involved in early-stage colorectal cancer
<p>Files Uploaded</p> <p>1. 16S Phylum level LDA analysis of colonoscopy biopsies </p> <p>16S_LDA_analysis_upload_20210710.tar.gz </p> <p>2. 16S DNA fastq files</p> <p>FASTQ_Generation_2019-03-16_17_29_28Z-167483978.zip</p> <p>3. Whole genome sequence analysis of b fragilis isolates from colonoscopy isolates</p> <p>WGS_b_fragilis_analysis_20210709_upload.tar.gz</p> <p>4. Sample sheet describing the b fragilis sample fastq files.</p> <p>16S sequencing sample sheet.docx</p> <p>5. b fragilis whole genome sequence fastq files</p> <p>Sample-*.fastq.gz</p>
A model-based approach to characterize enzyme-mediated response to antibiotic treatments: towards a model-guided classification
<p>This dataset, taken together with the scripts at <a href="https://gitlab.inria.fr/Public/InBio/esbl-escape">https://gitlab.inria.fr/Public/InBio/esbl-escape</a>, allows one to reproduce the analyses and figures of the article "A model-based approach to characterize enzyme-mediated response to antibiotic treatments: towards a model-guided classification".</p>
Characterization of Irreversible Land Subsidence in the Yazd-Ardakan Plain, Iran from 2003 to 2020 InSAR Time Series
<p>This repository contains the data used in <a href="https://agupubs.onlinelibrary.wiley.com/doi/10.1029/2021JB022258">Mirzadeh et al., 2021</a>. It includes two InSAR time-series datasets from Envisat and Sentinel-1 satellite in both ascending and descending orbits, acquired over Yazd-Ardakan Plain, Iran, as well as, the population density information and weather data for this study area.</p> <p>Dataset 1: Envisat ascending track 99 and descending track 20</p> <ul> <li>Date: 06 Sep 2004 - 12 Jul 2010 (17 ascending acquisitions) + 26 Mar 2003 - 23 Oct 2010 (23 descending acquisitions)</li> <li>Processor: ISCE/stripmapStack + MintPy</li> <li>Displacement time-series (in HDF-EOS5 format): timeseries_LODcor_ERA5_ramp_demErr.h5</li> <li>Mean LOS Velocity (in HDF-EOS5 format): velocity.h5</li> <li>Mask Temporal Coherence (in HDF-EOS5 format): maskTempCoh.h5</li> <li>Geometry (in HDF-EOS5 format): geometryRadar.h5</li> </ul> <p>Dataset 2: Sentinel-1 ascending track 130 and descending track 64</p> <ul> <li>Date: 14 Oct 2014 - 28 Mar 2020 (129 ascending acquisitions) + 10 Oct 2014 - 24 Mar 2020 (119 descending acquisitions)</li> <li>Processor: ISCE/topsStack + MintPy</li> <li>Displacement time-series (in HDF-EOS5 format): timeseries_ERA5_ramp_demErr.h5</li> <li>Mean LOS Velocity (in HDF-EOS5 format): velocity.h5</li> <li>Mask Temporal Coherence (in HDF-EOS5 format): maskTempCoh.h5</li> <li>Geometry (in HDF-EOS5 format): geometryRadar.h5</li> </ul> <p>The time series and Mean LOS Velocity (MVL) products can be georeferenced and resampled using the makTempCoh and geometryRadar products, and the MintPy commands/functions.</p>
Data from: Detailed characterization of the UMAMITs proteins provides insight into their evolution, amino acid transport properties, and role in the plant
<p>Amino acid transporters play a critical role in distributing amino acids within the cell compartments and between the plant organs. Despite this importance, relatively few amino acid transporter genes have been characterized and their role elucidated with certainty. Two main families of proteins encode amino acid transporters in plants: the Amino Acid-Polyamine-Organocation superfamily, containing mostly importers, and the Usually Multiple Acids Move In and out Transporter family, apparently encoding exporters, totaling 63 and 44 genes in Arabidopsis, respectively. Knowledge on UMAMITs is scarce, based on six Arabidopsis genes and a handful of genes from other species. To get insight into the role of the members of this family and provide data to be used for future characterization, we studied the evolution of the UMAMITs in plants, and determined the functional properties, the structure, and the localization of the 47 Arabidopsis UMAMITs. Our analysis showed that the AtUMAMITs are essentially localized at the tonoplast or the plasma membrane, and that most of them are able to export amino acids from the cytosol, confirming a role in intra- and inter-cellular amino acid transport. As an example, this set of data was used to hypothesize the role of a few AtUMAMITs in the plant and the cell.</p>
Figure 3 in Biological characterization of the obligate symbiosis between Acropyga sauteri Forel (Hymenoptera: Formicidae) and Eumyrmococcus smithii Silvestri (Hemiptera: Pseudococcidae: Rhizoecinae) on Okinawa Island, southern Japan
Figure 3. Pupae containing the exoskeletons of adults. (a) Female; (b) male.
Figure 2 in Characterization of insect galls from a vegetation area in Altinópolis, São Paulo State, Brazil
Figure 2. Gall morphotypes in host plants from Altinópolis, São Paulo State, Brazil, (A) Leaf gall of Tapirira guianensis (Anacardiaceae); (B) Bud leaf convolute in a complex gall of Moquiniastrum pulchrum (Asteraceae); (C) Leaf gall of Moquiniastrum pulchrum (Asteraceae); (D) Leaf gall of Amphilophium elongatum (Bignoniaceae), arrow on gall; (E) Leaf gall of Caryocar brasiliense (Caryocaraceae), galls in higher magnification in the upper right corner; (F) Leaf gall of Couepia grandiflora (Chrysobalanaceae), arrow on gall; (G) Cylindrical leaf gall with star trichomes of Croton floribundus (Euphorbiaceae), galls in higher magnification in the upper right corner; (H) Exuvia of Cecidomyiidae emerging from previous gall; (I) Adaxial surface of lenticular leaf gall of Croton floribundus (Euphorbiaceae), galls in abaxial surface in the upper right corner; (J) Hollow globoid leaf gall with long trichomes of Croton floribundus (Euphorbiaceae), gall opened, with a larva in higher magnification in the upper right corner; (K) Filled globoid leaf gall of Croton floribundus (Euphorbiaceae); gall opened, with fungus associated in higher magnification in the upper right corner; (L) Leaf vein gall of Croton floribundus (Euphorbiaceae), exuvia leaving the gall in the upper left corner. (Pictures: Urso-Guimarães, M.V.).
Figure 3 in Characterization of insect galls from a vegetation area in Altinópolis, São Paulo State, Brazil
Figure 3. Gall morphotypes in host plants from Altinópolis, São Paulo State, Brazil. (A) Globoid and fusiform stem galls of Croton floribundus (Euphorbiaceae), arrow on both galls; (B) Immature leaf gall of Bauhinia holophylla (Fabaceae), arrow on gall; (C) Mature leaf gall of Bauhinia holophylla (Fabaceae), arrow on gall; (D) Stem gall of Bauhinia holophylla (Fabaceae); (E) Convex leaf gall of Copaifera langsdorffii (Fabaceae); (F) Globoid glabrous leaf gall of Copaifera langsdorffii (Fabaceae); (G) Globoid leaf gall with red and orange trichomes of Copaifera langsdorffii (Fabaceae); (H) Lenticular leaf gall of Copaifera langsdorffii (Fabaceae); (I) Triangular leaf gall of Copaifera langsdorffii (Fabaceae); (J) Globoid red leaf gall of Copaifera langsdorffii (Fabaceae); (K) Cylindrical leaf gall of Copaifera langsdorffii (Fabaceae); (L) Globoid stem gall of Copaifera langsdorffii (Fabaceae). (Pictures: Urso-Guimarães, M.V.).
Figure 4 in Characterization of insect galls from a vegetation area in Altinópolis, São Paulo State, Brazil
Figure 4. Gall morphotypes in host plants from Altinópolis, São Paulo State, Brazil. (A) Leaf gall of Nectandra sp. (Lauraceae); (B) Leaf gall Ocotea sp. (Lauraceae); (C) Cylindrical and lenticular hairy leaf galls of Diplopterys pubipetala (Malpighiaceae); (D) Lenticular leaf gall of Diplopterys pubipetala (Malpighiaceae); (E) Bud leaf gall of Diplopterys pubipetala (Malpighiaceae); (F) Leaf gall of Miconia stenostachya (Melastomataceae); (G) Leaf hairy gall of Tibouchina sp. (Melastomataceae); (H) Leaf gall of Guarea guidonea (Meliaceae); (I) Leaf gall of Myrcia bella (Myrtaceae); (J) Leaf gall of Eugenia punicifolia (Myrtaceae), arrow on gall; (K) Leaf gall of Eugenia speciosa (Myrtaceae), arrow on gall; (L) Leaf gall of Myrtaceae sp., arrow on gall; (M) Leaf gall of Serjania reticulata (Sapindaceae); (N) Leaf gall of Smilax oblongifolia (Smilacaceae). (Pictures: Urso-Guimarães, M.V.).
Figure 1 in Characterization of insect galls from a vegetation area in Altinópolis, São Paulo State, Brazil
Figure 1. Aerial map of study area in Altinópolis, São Paulo State, Brazil. In the right corner, a map of Altinópolis in light green with the neighboring municipalities in grey, and in the upper right corner, Altinópolis' location in the State of São Paulo (Sources: IBGE and CNES/Airbus. Digital Globe/Google).
dataset for "Atomic force microscopy characterization of Polyester Grafted with poly(styrene sulfonate)"
<p>Atomic Force Microscopy (AFM) raw files of polycaprolactone (PCL) and polyethylene terephthalate (PET) non-functionalized and functionalized with poly(sodium 4-styrene sulfonate) (PNaSS) by thermal radical grafting, thermal radical grafting in the presence of redox initiator (Mohr's salt), and UV grafting. </p> <p>https://chemrxiv.org/engage/chemrxiv/article-details/60c75963842e650a5edb49f6</p> <p>DOI: 10.26434/chemrxiv.14687556</p>
Fig. 1 in Chromosomal characterization of the bonytongue Arapaima gigas (Osteoglossiformes: Arapaimidae)
Fig. 1. Karyotype of Arapaima gigas showing chromosome constrictions in pair 3. Bar = 5 µm.
Characterization of metapopulation of Ellobium chinense through Pleistocene expansions and four covariate COI guanine-hotspots linked to G-quadruplex conformation
<p>Please refer to the publication Shin et al. (2021): "Shin CR, Choi EH, Kim G. et al. (2021). Characterization of metapopulation of <em>Ellobium chinense</em> through Pleistocene expansions and four covariate COI guanine-hotspots linked to G-quadruplex conformation. Scientific Reports 11: 12239.</p> <p><span>The land snail <i>Ellobium chinense</i> (Pulmonata, Ellobiida, Ellobiidae), which inhabits the salt marshes along the coastal areas of northwestern Pacific, is an endangered species on the IUCN Red List. Over recent decades, the population size of <i>E. chinense</i> has consistently decreased due to environmental interference caused by natural disasters and human activities. Here, we provide the first assessment of the genetic diversity and population genetic structures of northwestern Pacific <i>E. chinense </i>based on <i>COI</i> and 10 microsatellite markers. The analyses of 140 <i>COI </i>data from South Korea and Japan and 54 microsatellite data from South Korea revealed that <i>E. chinense</i> has high haplotype and low nucleotide diversity without showing any genetic structures that reflect geographical isolations. It strongly implies that the subfamily Ellobiinae may have first appeared around the Eocene Optimum immediately after the Paleocene–Eocene Thermal Maximum (PETM; ca. 55 mya) and the examined <i>E. chinense</i> populations in Northwestern Pacific may have been maintained in a metapopulation under the influence of the Kuroshio warm currents through the Late-Middle Pleistocene (0.350−0.126 mya) and Late Pleistocene (0.126−0.012 mya). We also found four phylogenetic groups, regardless of geographical distributions, which were easily distinguishable by four unidirectional and stepwise adenine-to-guanine transitions in <i>COI</i> (sites 207-282-354-420: A-A-A-A, A-A-G-A, G-A-G-A, and G-G-G-G). Additionally, the four <i>COI</i> hotspots were robustly connected with a high degree of covariance between them. We discuss the role of these covariate guanines which link to form four consecutive G-quadruplexes, and their possible beneficial effects under positive selection pressure. </span></p>
Data for: Characterizing individual tree-level snags using airborne lidar-derived forest canopy gaps within closed-canopy conifer forests
<p><span>1. Airborne lidar is often used to calculate forest metrics about trees but it may also provide a wealth of information about the space between trees. Forest canopy gaps are defined by the absence of vegetative structure and serve important roles for wildlife, such as facilitating animal movement. Forest canopy gaps also occur around snags, keystone structures that provide important substrates to wildlife species for breeding, roosting, and foraging.</span></p> <p><span>2. We wanted to test a method for quantifying canopy gaps around individual snags and live trees, with the working hypothesis that snags would have more gaps surrounding them overall than live trees. We evaluated canopy gaps around individual snags (n=270) and live trees (n=2186) and evaluated correlations between canopy structure and snag occurrence in dense conifer stands of the Idaho Panhandle National Forest, USA. We paired airborne lidar with ground reference data collected at fixed-radius plots (n=53) to evaluate local gap structure. The R package ForestGapR was used to quantify canopy gaps throughout the canopy to determine where the differences were greatest. A canopy space profile was created for each tree by mapping gaps (a) vertically every 2 m in height (2–50 m above ground), and (b) horizontally across small (16 m<sup>2</sup>), medium (36 m<sup>2</sup>), and large (64 m<sup>2</sup>) footprint sizes.</span></p> <p><span>3. Our results suggest this method is robust for quantifying canopy gaps around individual trees. The canopy space profiles were distinctly different for snags and live trees, with more canopy gaps within the area surrounding snags relative to live trees. The greatest differences occurred at mid-canopy heights (~20 m above ground) and at the smallest footprint size (16 m<sup>2</sup>).</span></p> <p><span>4. These results show potential to improve understanding of gap dynamics in closed-canopy conifer forests, and we suggest snag modeling could be improved by incorporating lidar-derived canopy gap analyses alongside existing methodologies.</span></p>
Characterization of triacylglycerol secretion with shikonin derivatives in Lithospermum erythrorhizon
<p><span>This dataset contains data from electron microscopy and biochemical analyses described in the paper: "Tatsumi, K., et al. Excretion of triacylglycerol as a matrix lipid facilitating apoplastic accumulation of a lipophilic metabolite shikonin" submitted to Journal of Experimental Botany. The raw data underlying the paper are given as separate excel files, which are deposited to 'Data'. The Excel file 'result03_positive_181119_Yazaki_Lab_5.xlsx' is the data of LC-MS for Figure 3 of the above paper. Another Excel file 'GC-FID_rawdata-processed.xlsx' is the raw data for the quantitative analysis of fatty acids by GC-FID as well as the processed data shown in Figure 5 and Supporting Figure S7. The third Excel file 'lipidome_data_processed.xlsx' is the data of lipidome analysis shown in Supporting Figures S3, S5, and S6.</span></p>
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>
ScienceDex guides
Understand access before you commit
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.