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1,026 results for “Linked data”
MS data linked to manuscript: https://doi.org/10.3390/pharmaceutics13122121
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MS data linked to manuscript: https://doi.org/10.3390/pharmaceutics15020700
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MS data linked to manuscript: https://doi.org/10.1093/nar/gkac1049
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MS data linked to manuscript: https://doi.org/10.3390/pharmaceutics15020700
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Molecular dynamics simulation trajectory data for "Permeability and ammonia selectivity in aquaporin TIP2;1: linking structure to function"
<p>Trajectories and input files corresponding to entries in Supplementary Table S1.</p>
xLiD-Lexica: Cross-lingual Linked Data Lexica
<p>We provide <strong>cross-lingual linked data lexica called xLiD-Lexica</strong>. The data set contains the <strong>cross-lingual groundings of linked data resources from the Linked Open Data cloud as RDF data</strong>, which can be easily integrated into the LOD data sources. In addition, we created a SPARQL endpoint over ourxLiD-Lexica to allow users to easily access them using SPARQL query language. Multilingual and cross-lingual information access can be facilitated by the availability of such lexica, e.g., allowing for an easy mapping of natural language expressions in different languages to linked data resources from LOD. Many tasks in natural language processing, such as natural language generation, cross-lingual entity linking, text annotation and question answering, can benefit from our xLiD-Lexica.</p> <p>More information can be found in the <a href="http://dbis.informatik.uni-freiburg.de/content/team/faerber/papers/xLiD_LREC2014.pdf"><strong>LREC'14 paper <em>xLiD-Lexica: Cross-lingual Linked Data Lexica</em></strong></a> and on our website <strong><a href="https://km.aifb.kit.edu/sites/xlid-lexica/">https://km.aifb.kit.edu/sites/xlid-lexica/</a></strong>.</p> <p>Please cite this data set as follows (see also <a href="https://dblp.org/rec/bibtex/conf/lrec/ZhangFR14">DBLP</a>):</p> <pre><code>Lei Zhang, Michael Färber, Achim Rettinger. "xLiD-Lexica: Cross-lingual Linked Data Lexica". In: Proceedings of the 9th International Conference on Language Resources and Evaluation (LREC 2014). Reykjavik, Iceland, 2014, pp. 2101–2105.</code></pre> <p> </p> <p><strong>Example queries:</strong></p> <p>1. Retrieve all entities with surface form which contain "iPhone":</p> <pre><code class="language-sql">Select ?resource, ?label, ?probability from <http://www.xlid-lexica.org> where { ?resource <http://www.xlid-lexica.org/block> ?b1 . ?b1 <http://www.xlid-lexica.org/res#sf> ?sf . ?b1 <http://www.xlid-lexica.org/res#priorProbability> ?probability . ?sf <http://www.xlid-lexica.org/block> ?b2. ?b2 <http://www.xlid-lexica.org/sf#label> ?label . ?label bif:contains "iPhone" . } order by DESC(?probability) limit 100</code></pre> <p>2. Retrieve the top 100 resources for a given surface form ("iphone"):</p> <pre><code class="language-sql">Select ?resource, ?probability from <http://www.xlid-lexica.org> where { ?resource <http://www.xlid-lexica.org/block> ?b1 . ?b1 <http://www.xlid-lexica.org/res#sf> ?sf . ?b1 <http://www.xlid-lexica.org/res#priorProbability> ?probability . ?sf <http://www.xlid-lexica.org/block> ?b2. ?b2 <http://www.xlid-lexica.org/sf#label> "iphone"@en . } order by DESC(?probability) limit 100</code></pre> <p>3. Retrieve the top 100 resources for a given surface form ("iphone", case-insensitive):</p> <pre><code class="language-sql">Select ?resource, ?probability from <http://www.xlid-lexica.org> where { ?resource <http://www.xlid-lexica.org/block> ?b1 . ?b1 <http://www.xlid-lexica.org/res#sf> ?sf . ?b1 <http://www.xlid-lexica.org/res#priorProbability> ?probability . ?sf <http://www.xlid-lexica.org/block> ?b2. ?b2 <http://www.xlid-lexica.org/sf#label> ?surfaceform . filter(regex(?surfaceform, "^iphone$", "i")) } limit 100</code></pre> <p>4. Retrieve the top 100 surface forms per entity:</p> <pre><code class="language-sql">Select ?label ?probability from <http://www.xlid-lexica.org> where { <http://dbpedia.org/resource/IPhone_5> <http://www.xlid-lexica.org/block> ?b1. ?b1 <http://www.xlid-lexica.org/res#sf> ?sf. ?b1 <http://www.xlid-lexica.org/res#priorProbability> ?probability. ?sf <http://www.xlid-lexica.org/block> ?b2. ?b2 <http://www.xlid-lexica.org/sf#label> ?label. ?b2 <http://www.xlid-lexica.org/block#lang> "en". } order by DESC(?probability) limit 100</code></pre> <p> </p>
Data from Demonstration of quantum network protocols over a 14-km urban fiber link
<p>Datasets used to create all plots and results found in the paper "Data from Demonstration of quantum network protocols over a 14-km urban fiber link" from AG Eschner, Saarland University</p>
Amateur Radio Spot Data for "First Observations Linking Large-Scale Traveling Ionospheric Disturbances to Polar Vortex Strength"
<p>This repository contains the raw data amateur radio data used to compute the Large Scale Traveling Ionosphic Disturbance activity presented the<br>Geophysical Research Letters manuscript<br>"First Observations Linking Large-Scale Traveling Ionospheric Disturbances to Polar Vortex Strength".</p> <p>This dataset has monthy *.tar files containing daily bzip2 Comma Separated Value (CSV) files of data from the following amateur radio spotting networks for the time period November 2018 - May 2019:</p> <ol> <li><a href="https://pskreporter.info/" target="_blank" rel="noopener">PSKReporter (https://pskreporter.info/)</a></li> <li><a href="https://www.wsprnet.org/" target="_blank" rel="noopener">Weak Signal Propagation Reporter Network (WSPRNet, https://www.wsprnet.org/)</a></li> <li><a href="https://reversebeacon.net/" target="_blank" rel="noopener">Reverse Beacon Network (https://reversebeacon.net/)</a></li> </ol> <p>Where necessary, spots have been geolocated using latitudes and longitudes from <a href="https://www.qrz.com/">https://www.qrz.com/</a>.</p> <p>We are grateful to the operators of PSKReporter, WSPRNet, and the Reverse Beacon Network for the use of their data.</p> <p>The columns of each CSV file correspond to the following values:</p> <p># [0] UTC Datetime <br># [1] Transmitter Call Sign<br># [2] Transmitter Maidenhead Grid Square<br># [3] Transmitter Geographic Latitude<br># [4] Transmitter Geographic Longitude<br># [5] Source of Transmitter Gride Information<br>#<br># [6] Receiver Maidenhead Grid Square<br># [7] Receiver Geographic Latitude<br># [8] Receiver Geographic Longitude<br># [9] Source of Receiver Gride Information<br>#<br># [11] Frequency (Hz)<br># [12] Signal to Noise Ration (SNR) [dB]<br># [13] Mode<br>#<br># [14] Source<br># [15] Sender Status<br># [16] Inter-Modulation Distortion (IMD)<br># [17] ipOriginID<br># [18] sendeMobileLocator<br># [19] c1<br># [10] c2<br># [21] mode2</p> <p># Computed Fields<br># [22] Great Circle Short Path [km]<br># [23] Great Circle Short Path Midpoint Geographic Latitude<br># [24] Great Circle Short Path Midpoint Geographic Longitude</p> <p>This dataset is designed to be used with the LSTID autodetection software available at <a href="https://doi.org/10.5281/zenodo.13630867" target="_blank" rel="noopener">https://doi.org/10.5281/zenodo.13630867</a>.</p>
Data and Codes used in the study: Flickering Gamma-Ray Flashes, the Missing Link between Gamma Glows and TGFs
<p>Description is given in the uploaded pdf document: Data_codes_description.pdf</p>
Data and code for "Compulsivity is linked to suboptimal choice variability but unaltered reinforcement learning under uncertainty"
<p>Data and code for "Compulsivity is linked to suboptimal choice variability but unaltered reinforcement learning under uncertainty". See https://github.com/jlexternal/RLVOLUNP_CIT_ana for directory structure. </p>
Estimating the burden of underdiagnosis within England: a modelling study of linked primary care data
<p>These datasets are the modelling outputs supporting our paper titled: <strong><span>Estimating the burden of underdiagnosis within England: a modelling study of linked primary care data. </span></strong><span>The details of how these data were produced were described in the paper. </span></p> <p> </p> <p> </p>
Data from: Linking genetic diversity and temporal fluctuations in population abundance of the introduced feral cat (Felis silvestris catus) on the Kerguelen Archipelago.
Linking temporal variations of genetic diversity, including allelic richness and heterozygosity, and spatio-temporal fluctuations in population abundance has emerged as an important tool for understanding demographic and evolutionary processes in natural populations. This so-called 'genetic monitoring' was conducted across 12 consecutive years (1996-2007) at three sites for the feral cat, introduced onto the Kerguelen Archipelago fifty years ago. Temporal changes in allelic richness and heterozygosity at 18 microsatellite DNA loci were compared to temporal changes in the adult population abundance index, obtained by typical demographic monitoring. No association was found at the island spatial scale but we observed an association between genetic diversity and adult population indices from year to year within each study site. More particularly, the magnitude of successive increases or decreases in the adult population abundance index appeared to be the major factor linking the trajectories of genetic diversity and adult population abundance indices. Natal dispersal and/or local recruitment, both facilitated by high juvenile survival when the adult population size is small, are proposed as the major demographic processes contributing to such an observed pattern. Finally, we suggested avoiding the use of the harmonic mean as an estimator of long-term population size to study the relationships between demographic fluctuations and heterozygosity in populations characterized by strong multi-annual density fluctuations.
Data from: Meerkat close calling patterns are linked to sex, social category, season and wind, but not fecal glucocorticoid metabolite concentrations
It is well established that animal vocalizations can encode information regarding a sender's identity, sex, age, body size, social rank and group membership. However, the association between physiological parameters, particularly stress hormone levels, and vocal behavior is still not well understood. The cooperatively breeding African meerkats (Suricata suricatta) live in family groups with despotic social hierarchies. During foraging, individuals emit close calls that help maintain group cohesion. These contact calls are acoustically distinctive and variable in rate across individuals, yet, information on which factors influence close calling behavior is missing. The aim of this study was to identify proximate factors that influence variation in call rate and acoustic structure of meerkat close calls. Specifically, we investigated whether close calling behavior is associated with sex, age and rank, or stress hormone output (i.e., measured as fecal glucocorticoid metabolite (fGCM) concentrations) as individual traits of the caller, as well as with environmental conditions (weather) and reproductive seasonality. To disentangle the effects of these factors on vocal behavior, we analyzed sound recordings and assessed fGCM concentrations in 64 wild but habituated meerkats from 9 groups during the reproductive and non-reproductive seasons. Dominant females and one-year old males called at significantly higher rates compared to other social categories during the reproductive season. Additionally, dominant females produced close calls with the lowest mean fundamental frequencies (F0) and the longest mean pulse durations. Windy conditions were associated with significantly higher call rates during the non-reproductive season. FGCM concentrations were unrelated to close calling behavior. Our findings suggest that meerkat close calling behavior conveys information regarding the sex and social category of the caller, but shows no association with fGCM concentrations. The change in call rate in response to variation in the social and ecological environments individuals experience indicates some degree of flexibility in vocal production.
Data from: Selection on VPS13A linked to migration in a songbird
Animal migration demands an interconnected suite of adaptations for individuals to navigate over long distances. This trait complex is crucial for small birds whose migratory behaviors—such as directionality—are more likely innate, rather than being learned as in many longer-lived birds. Identifying causal genes has been a central goal of migration ecology, and this endeavor has been furthered by genome-scale comparisons. However, even the most successful studies of migration genetics have achieved low resolution associations, identifying large chromosomal regions that encompass hundreds of genes, one or more of which might be causal. Here we leverage the genomic similarity among golden-winged (Vermivora chrysoptera) and blue-winged warblers (V. cyanoptera) to identify a single gene—Vacuolar Protein Sorting 13A (VPS13A)—that is associated with distinct differences in migration to Central American (CA) or South American (SA) wintering areas. We find reduced sequence variation in this gene-region for SA wintering birds, and show this is the likely result of natural selection on this locus. In humans, variants of VPS13A are linked to the neurodegenerative disorder chorea-acanthocytosis. This new association provides one of the strongest gene-level associations with avian migration differences.
Data from: Linking genetic and ecological differentiation in an ungulate with a circumpolar distribution
Genetic differentiation among populations may arise from the disruption of gene flow due to local adaptation to distinct environments and/or neutral accumulation of mutations and genetic drift resulted from geographical isolation. Quantifying the role of these processes in determining the genetic structure of natural populations remains challenging. Here, we analyze the relative contribution of isolation-by-resistance (IBR), isolation-by-environment (IBE), genetic drift and historical isolation in allopatry during Pleistocene glacial cycles on shaping patterns of genetic differentiation in caribou/reindeer populations (Rangifer tarandus) across the entire distribution range of the species. Our study integrates analyses at range-wide and regional scales to partial out the effects of historical and contemporary isolation mechanisms. At the circumpolar scale, our results indicate that genetic differentiation is predominantly explained by IBR and historical isolation. At a regional scale, we found that environmental dissimilarity and population size significantly explained the spatial distribution of genetic variation among populations belonging to the Euro-Beringian lineage within North America. In contrast, genetic differentiation among populations within the North American lineage was predominantly explained by IBR and population size, but not IBE. We also found discrepancies between genetic and ecotype designation across the Holarctic species distribution range. Overall, these results indicate that multiple isolating mechanisms have played roles in shaping the spatial distribution of genetic variation across the distribution range of a large mammal with high potential for gene flow. Considering multiple spatial scales and simultaneously testing a comprehensive suite of potential isolating mechanisms, our study contributes to understand the ecological and evolutionary processes underlying organism–landscape interactions.
Data from: Linking intra- and interspecific assortative mating: consequences for asymmetric sexual isolation
Assortative mating is of interest because of its role in speciation and the maintenance of species boundaries. However, we know little about how within-species assortment is related to interspecific sexual isolation. Most previous studies of assortative mating have focused on a single trait in males and females, rather than utilizing multivariate trait information. Here we investigate how intraspecific assortative mating relates to sexual isolation in two sympatric and congeneric damselfly species (genus Calopteryx). We connect intraspecific assortment to interspecific sexual isolation by combining field observations, mate preference experiments and enforced copulation experiments. Using canonical correlation analysis, we demonstrate multivariate intraspecific assortment for body size and body shape. Males of the smaller species mate more frequently with heterospecific females than males of the larger species, which showed less attraction to small heterospecific females. Field experiments suggest that sexual isolation asymmetry is caused by male preferences for large heterospecific females, rather than by mechanical isolation due to interspecific size differences or female preferences for large males. Male preferences for large females and male-male competition for high quality females can therefore counteract sexual isolation. This sexual isolation asymmetry therefore indicates that sexual selection currently opposes a species boundary.
Data from: Integrating three comprehensive datasets shows that mitochondrial DNA variation is linked to species traits and paleogeographic events in European butterflies.
Understanding the dynamics of biodiversity, including the spatial distribution of genetic diversity, is critical for predicting responses to environmental changes, as well as for effective conservation measures. This task requires tracking changes in biodiversity at large spatial scales and correlating with species functional traits. We provide three comprehensive resources to understand the determinants for mitochondrial DNA differentiation represented by i) 15,609 COI sequences and ii) 14 traits belonging to 307 butterfly species occurring in Western-Central Europe and iii) the first multi-locus phylogenetic tree of all European butterfly species. By applying phylogenetic regressions we show that mitochondrial DNA spatial differentiation (as measured with Gst, G'st, D and Dst) is negatively correlated with species traits determining dispersal capability and colonization ability. Thanks to the high spatial resolution of the COI data, we also provide the first zoogeographic regionalization maps based on intraspecific genetic variation. The overall pattern obtained by averaging the spatial differentiation of all Western-Central European butterflies shows that the paradigm of long-term glacial isolation followed by rapid pulses of post-glacial expansion has been a pervasive phenomenon in European butterflies. The results and the extensive datasets we provide here constitute the basis for genetically-informed conservation plans for a charismatic group in a continent where flying insects are under alarming decline.
Data from: Linking genotype to phenotype in a changing ocean: inferring the genomic architecture of a blue mussel stress response with genome-wide association
A key component to understanding the evolutionary response to a changing climate is linking underlying genetic variation to phenotypic variation in stress response. Here we use a genome-wide association approach (GWAS) to understand the genetic architecture of calcification rates under simulated climate stress. We take advantage of the genomic gradient across the blue mussel hybrid zone (Mytilus edulis and Mytilus trossulus) in the Gulf of Maine (GOM) to link genetic variation with variance in calcification rates in response to simulated climate change. Falling calcium carbonate saturation states are predicted to negatively impact many marine organisms that build calcium carbonate shells - like blue mussels. We sampled wild mussels and measured net calcification phenotypes after exposing mussels to a "climate change" common garden, where we raised temperature 3°C, decreased pH by 0.2 units, and limited food supply by filtering out planktonic particles > 5 μm, compared to ambient GOM conditions in the summer. This climate change exposure greatly increased phenotypic variation in net calcification rates compared to ambient conditions. We then used regression models to link the phenotypic variation with over 170,000 single nucleotide polymorphism loci (SNPs) generated by genotype by sequencing to identify genomic locations associated with calcification phenotype, and estimate heritability and architecture of the trait. We identified at least one of potentially 2-10 genomic regions responsible for 30% of the phenotypic variation in calcification rates that are potential targets of natural selection by climate change. Our simulations suggest a power of 13.7% with our study's average effective sample size of 118 individuals and rare alleles, but a power of > 90% when effective sample size is 900.
Data for: "Possible link between decadal variability in precipitation in the South China Sea and the North Atlantic Oscillation during the 20th century: A perspective from coral geochemical records"
<p>This dataset includes all the data for the paper "Possible link between decadal variability in precipitation in the South China Sea and the North Atlantic Oscillation during the 20th century: A perspective from coral geochemical records" by Cui et al.</p>
Dynamic loading of human engineered heart tissue enhances contractile function and drives a desmosome-linked disease phenotype (TEM data)
<p>This is the TEM imaging data for the desmosome analysis as reported in the manuscript titled "Dynamic loading of human engineered heart tissue enhances contractile function and drives a desmosome-linked disease phenotype."</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.