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.
10,735
datasets available to search
ShareScore release 0.9.0
Dataset results
10,735 results for “dependability”
[Dataset] Intensity and Dimensionality-Dependent Dynamics of Laser-Proton Acceleration in 1D, 2D, and 3D Particle-in-Cell Simulations
<p>The included Jupyter Notebooks (.ipynb) were used to generate figures and make calculations for the work. The resulting image files are saved in Figure_Outputs.tar.gz. The other archives (1D.tar.gz, 2DS.tar.gz, 2DP.tar.gz, 3D.tar.gz, laser_focus.tar.gz, and EField.tar.gz) are compressed directories containing EPOCH PIC simulation outputs for the paper (relevant directories should be extracted to replicate analysis with provided files). </p> <p>Since the last version, a new figure (Figure 6, an ion phase space) has been added. Notebooks for later figures have been renumbered and the figure outputs have been updated. </p>
Temperature-dependent responses to light and nutrients in phytoplankton
<p>These files contain all data necessary to create the figures published in the study "Temperature-dependent responses to light and nutrients in phytoplankton"</p> <ul> <li>The uploaded files contain all T-scripts and tables used for the analyses of this study</li> <li>All data needed for the R-scripts are available in the folder '<em>RTables'</em></li> <li>A<em> READMe</em> file that descripes all data files is avalable in the ZIP file</li> </ul> <ol> <li>R-scripts "a-growthrates_RFU.R": Contains the calculation of the maximum linear growth rate using theRFU measurements (needed table is "incubation.txt")</li> <li>R-script: "b_gamlss_growthrates_RFU.R": We used a GAMLSS to search for a model that best described the observed growth rates and used a null model that predicts additive effect on growth (needed table is "growthrates_RFUbased.txt") - generates data for Figure 3 and Figure 3, and Table 2</li> <li>R-script "c_plots.R": Contains all R codes to generate all figures </li> <li>R-script "d_gamlss_growthrates_OD.R": Contains the same statistical analyses (GAMLSS) as used for the results of this study, but this time with the growth rates based on Optical Density data and RFU data (for appendix).</li> </ol>
Sex- and social context-dependent differences in mice head movement during social interactions
<p>Data set and code for the paper : <span>S<span>ex- and social context-dependent differences in mice head movement during social interactions. </span></span></p> <p><span>Adèle Phalip<sup>1,</sup>*, Shai Netser<sup>1</sup> and Shlomo Wagner<sup>1</sup></span></p> <p><span> </span></p> <p><sup><span>1</span></sup><span>Sagol Department of Neurobiology, Faculty of Natural Sciences, University of Haifa, Haifa, Israel</span></p> <p><span> </span></p> <p><span><span><span>*Corresponding author: </span><span><a href="mailto:adele.phalip@gmail.com"><span>adele.phalip@gmail.com</span></a></span></span></span></p>
Feeding-state dependent neuropeptidergic modulation of reciprocally interconnected inhibitory neurons biases sensorimotor decisions in Drosophila
<p>Raw and source data related to the study "Feeding-state dependent neuropeptidergic modulation of reciprocally interconnected inhibitory neurons biases sensorimotor decisions in Drosophila"</p> <p>Please not that protein-deprived (pd) and sucrose annotation are used interchangeabley in the dataset</p> <p> </p>
Primary data for "Temperature-dependence of the clear-sky feedback in radiative-convective equilibrium"
<p>Primary data for the manuscript "Temperature-dependence of the clear-sky feedback in radiative-convective equilibrium".</p> <p>The archive is described in more detail in the enclosed README file.</p>
Confocal images from: Cell density, alignment, and orientation correlate with C-signal-dependent gene expression during Myxococcus xanthus development
<p>Starving <em>Myxococcus xanthus</em> bacteria use short-range C-signaling to coordinate their movements and construct multicellular mounds, which mature into fruiting bodies as rods differentiate into spherical spores. Differentiation requires efficient C-signaling to drive the expression of developmental genes, but how the arrangement of cells within nascent fruiting bodies (NFBs) affects C-signaling is not fully understood. Here, we used confocal microscopy and cell segmentation to visualize and quantify the arrangement, morphology, and gene expression of cells near the bottom of NFBs at much higher resolution than previously achieved. We discovered that "transitioning cells" (TCs), intermediate in morphology between rods and spores, comprised 10 to 15% of the total population. Spores appeared midway between the center and the edge of NFBs early in their development and near the center as maturation progressed. The developmental pattern as well as C-signal-dependent gene expression in TCs and spores were correlated with cell density, the alignment of neighboring rods, and the tangential orientation of rods early in the development of NFBs. These dynamic radial patterns support a model in which the arrangement of cells within the NFBs affects C-signaling efficiency to regulate precisely the expression of developmental genes and cellular differentiation in space and time. Developmental patterns in other bacterial biofilms may likewise rely on short-range signaling to communicate multiple aspects of cellular arrangement, analogous to juxtacrine and paracrine signaling during animal development.</p>
Raw images for bead aggregation assays - Heterophilic and homophilic cadherin interactions in intestinal intermicrovillar links are species dependent
<p>Intermicrovillar links are formed by two non-classical members of the cadherin superfamily of calcium-dependent cell adhesion proteins: protocadherin-24 (PCDH24, also known as CDHR2) and the mucin-like protocadherin (CDHR5). Images in this data set are for bead aggregations assays used to identify the PCDH24 and CDHR5 domains involved in both heterophilic and homophilic adhesion for human and mouse proteins.</p>
Data for behavioral state-dependent habitat selection analysis of translocated female greater sage-grouse, North Dakota 2018-2020
<p>This dataset is associated with the article, "Behavioral state-dependent habitat selection and implications for animal translocations" (Picardi et al., 2021, Journal of Applied Ecology).</p> <p>Post-release monitoring of translocated animals can be used to inform future translocation protocols. In particular, quantifying habitat selection of translocated individuals may help identify features that characterize suitable settlement habitat and inform the choice of future release sites; however, because translocated animals undergo post-release behavioral modification, the underlying behavioral state needs to be taken into account.</p> <p>We analyzed behavioral state-dependent habitat selection in female greater sage-grouse (<i>Centrocercus urophasianus</i>) translocated from Wyoming to North Dakota, USA, using Hidden Markov Models in combination with Integrated Step Selection Analysis. This dataset includes GPS tracks (resampled at a 6-hour resolution using a Continuous Time Movement Model) for 48 individuals translocated between 2018 and 2020, along with environmental variables associated with each location. We segmented each track into behavioral phases corresponding to an exploratory state, characterized by broad and directed movements, and a restricted state, characterized by short and tortuous movements. Then, we quantified habitat selection in each state while also accounting for seasonality and individual reproductive status.</p> <p>Habitat selection of translocated sage-grouse differed between the post-release exploration and the settlement phase. While in the exploratory state, sage-grouse exhibited natal habitat preference induction by selecting for high sagebrush cover, typical of their natal area but not of the release area. In the restricted state, sage-grouse selected for gentle topography and also adjusted their habitat selection based on the season and their reproductive needs.</p>
Tracing topography-dependent diagenesis and pedogenesis with iron oxides and magnetic particles on a volcano
<p>Data supporting this research are available for people who engage in scientific research. Note that the data can not be used for any commercial activities.</p>
Analysis of ancestry heterozygosity suggests that hybrid incompatibilities in threespine stickleback are environment-dependent
<p>Hybrid incompatibilities occur when interactions between opposite-ancestry alleles at different loci reduce the fitness of hybrids. Most work on incompatibilities has focused on those that are 'intrinsic', meaning they affect viability and sterility in the laboratory. Theory predicts that ecological selection can also underlie hybrid incompatibilities, but tests of this hypothesis using sequence data are scarce. In this article, we compiled genetic data for F<sub>2</sub> hybrid crosses between divergent populations of threespine stickleback fish (<em>Gasterosteus aculeatus</em> L.) that were born and raised in either the field (semi-natural experimental ponds) or the laboratory (aquaria). Because selection against incompatibilities results in elevated ancestry heterozygosity, we tested the prediction that ancestry heterozygosity will be higher in pond-raised fish compared to those raised in aquaria. We found that ancestry heterozygosity was elevated by approximately 3% in crosses raised in ponds compared to those raised in aquaria. Additional analyses support a phenotypic basis for incompatibility and suggest that environment-specific single-locus heterozygote advantage is not the cause of selection on ancestry heterozygosity. Our study provides evidence that, in stickleback, a coarse—albeit indirect—signal of environment-dependent hybrid incompatibility is reliably detectable and suggests that extrinsic incompatibilities can evolve before intrinsic incompatibilities.</p>
Applying the metallicity-dependent binary fraction to double white dwarf formation, Implications for LISA, results
This dataset contains data created by post-processing pipeline to produce the figures from Thiele+2021<br><br>Created using <a href="https://github.com/rodluger/showyourwork">showyourwork</a> from <a href="https://github.com/katiebreivik/hush/tree/ae41b3fbc87d9ef411fec9fd464958c6ab367a2e">this GitHub repo</a> using the following command: <pre><code class="language-bash">cd src/figures && python src/figures/pipeline.py</code></pre>
Data from: Serine ADP-ribosylation marks nucleosomes for ALC1-dependent chromatin remodeling
<p>Serine ADP-ribosylation (ADPr) is a DNA damage-induced post-translational modification catalyzed by the PARP1/2:HPF1 complex. As the list of PARP1/2:HPF1 substrates continues to expand, there is a need for technologies to prepare mono- and poly-ADP-ribosylated proteins for biochemical interrogation. Here we investigate the unique peptide ADPr activities catalyzed by PARP1 in the absence and presence of HPF1. We then exploit these activities to develop a method that facilitates installation of ADP-ribose polymers onto peptides with precise control over chain length and modification site. Importantly, the enzymatically mono- and poly-ADP-ribosylated peptides are fully compatible with protein ligation technologies. This chemoenzymatic protein synthesis strategy was employed to assemble a series of full-length, ADP-ribosylated histones and show that ADPr at H2BS6 or H3S10 converts nucleosomes into robust substrates for the chromatin remodeler ALC1. We found ALC1 preferentially remodels 'activated' substrates within heterogeneous mononucleosome populations and asymmetrically ADP-ribosylated dinucleosome substrates, and that nucleosome serine ADPr is sufficient to stimulate ALC1 activity in nuclear extracts. Our study identifies a biochemical function for nucleosome serine ADPr and describes a new, highly modular approach to explore the impact that site-specific serine mono- and poly-ADPr have on protein function.</p>
Context dependent variation in corticosterone and phenotypic divergence of Rana arvalis populations along an acidification gradient
<p class="Normal1"><span><span><span><span><span><span><span><span><span><span><span><i>Background</i></span></span></span></span></span></span></span></span></span></span></span></p> <p class="Normal1"><span><span><span><span><span><span><span><span><span><span><span>Physiological processes, as immediate responses to the environment, are important mechanisms of phenotypic plasticity and can influence evolution at ecological time scales. In stressful environments, physiological stress responses of individuals are initiated and integrated via the release of hormones, such as corticosterone (CORT). In vertebrates, CORT influences energy metabolism and resource allocation to multiple fitness traits (e.g. growth and morphology) and can be an important mediator of rapid adaptation to environmental stress, such as acidification. The moor frog,<i> Rana arvalis, </i>shows adaptive divergence in larval life-histories and predator defense traits along an acidification gradient in Sweden. Here we take a first step to understanding the role of CORT in this adaptive divergence. We conducted a fully factorial laboratory experiment and reared tadpoles from three populations (one acidic, one neutral and one intermediate pH origin) in two pH treatments (Acid versus Neutral pH) from hatching to metamorphosis. We tested how the populations differ in tadpole CORT profiles and how CORT is associated with tadpole life-history and morphological traits.</span></span></span></span></span></span></span></span></span></span></span></p> <p class="Normal1"><span><span><span><span><span><span><span><span><span><span><span><i>Results</i></span></span></span></span></span></span></span></span></span></span></span></p> <p class="Normal1"><span><span><span><span><span><span><span><span><span><span><span>We found clear differences among the populations in CORT profiles across the developmental stages, but only weak effects of pH treatment on CORT. Tadpoles from the acid origin population had, on average, lower CORT levels than tadpoles from the neutral origin population, and the intermediate pH origin population had intermediate CORT levels. Overall, tadpoles with higher CORT levels developed faster and had shorter and shallower tails as well as shallower tail muscles.</span></span></span></span></span></span></span></span></span></span></span></p> <p class="Normal1"><span><span><span><span><span><span><span><span><span><span><span><i>Conclusions</i></span></span></span></span></span></span></span></span></span></span></span></p> <p class="Normal1"><span><span><span><span><span><span><span><span><span><span><span>Our common garden results indicate among population divergence in CORT levels, likely reflecting acidification mediated divergent selection on tadpole physiology, concomitant to selection on larval life-histories and morphology. However, CORT levels were highly environmental context dependent. Jointly these results indicate a potential role for CORT as a mediator of multi-trait divergence along environmental stress gradients in natural populations. At the same time, the population level differences and high context dependency in CORT levels suggest that snapshot assessment of CORT in nature may not be reliable bioindicators of stress.</span></span></span></span></span></span></span></span></span></span></span></p>
Transgenerational plasticity of dispersal-related traits in a ciliate: genotype-dependency and fitness consequences
<p>The data presented here are those used in the paper : CAYUELA H., JACOB S., SCHTICKZELLE N., VERDONCK R., PHILIPPE H., LAPORTE M., HUET M., BERNATCHEZ L., LEGRAND D. Transgenerational plasticity of dispersal-related traits in a ciliate: genotype-dependency and fitness consequences. Oikos. DOI: 10.1111/oik.08846</p> <p>Phenotypic plasticity, the ability of one genotype to produce different phenotypes in different environments, plays a central role in species' response to environmental changes. Transgenerational plasticity (TGP) allows the transmission of this environmentally-induced phenotypic variation across generations, and can influence adaptation. To date, the genetic control of TGP, its long-term stability, and its potential costs remain largely unknown, mostly because empirical demonstrations of TGP across many generations in several genetic backgrounds are scarce. In the paper of Cayuela et al., we examined how genotype determines the TGP of phenotypic traits related to dispersal, a fundamental process in ecology and evolution. We used an experimental approach in <i>Tetrahymena thermophila</i>, a ciliate model-species, to determine if and how phenotypic changes expressed following a dispersal treatment are inherited over multiple generations. The data include morphological and movement traits, dispersal rates, and cell growth data measured before and after dispersal trials. We considered different genotypes and different populations within each genotype.</p>
Beaked whales and state-dependent decision-making: how does body condition affect the trade-off between foraging and predator avoidance?
<p>Body condition is central to how animals balance foraging with predator-avoidance – a trade-off that fundamentally affects animal fitness. Animals in poor condition may accept greater predation risk to satisfy current foraging "needs", whilst those in good condition may be more risk averse to protect future "assets". These state-dependent behavioural predictions can help interpret responses to human activities, but are little explored in marine animals. This study investigates the influence of body condition on how beaked whales trade off foraging and predator-avoidance. Body density (indicating lipid-energy stores) was estimated for 15 foraging northern bottlenose whales tagged near Jan Mayen, Norway. Composite indices of foraging (diving and echolocation clicks) and anti-predation (long ascents, non-foraging dives and silent periods reducing predator eavesdropping) were negatively related. Experimental sonar exposures led to decreased foraging and increased risk aversion, confirming a foraging/perceived safety trade-off. However, lower lipid stores were not related to a decrease in predator-avoidance versus foraging, i.e. worse condition animals did not prioritise foraging. Individual differences ('personalities') or reproductive context could offer alternative explanations for the observed state-behaviour relationships. This study provides evidence of foraging/predator-avoidance trade-offs in a marine top predator and demonstrates that animals in worse condition might not always take more risks.</p>
On the shape-dependent propulsion of nano- and microparticles by traveling ultrasound waves
<p>Supplementary data for the following manuscript: Johannes Voß, Raphael Wittkowski, "On the shape-dependent propulsion of nano- and microparticles by traveling ultrasound waves ", <em><strong>Nanoscale Adv.</strong></em>, 2020,<strong>2</strong>, 3890-3899, doi=10.1039/D0NA00099J</p>
Data from: Asynchrony, density dependence, and persistence in an amphibian
<p>The wood frog (<em>Rana sylvatica</em> = <em>Lithobates sylvaticus</em>) is a common, early-spring breeding anuran species in the United States and Canada. Females typically lay their egg masses in concentrated areas of a few meters over several days. Most female wood frogs mature after two years. Each female lays one egg mass in a given year, and most show high (~100%) site fidelity after first breeding, although a small portion of juveniles disperse up to 2000 m away from their natal site before their first breeding season. The lifespan of wood frogs depends on latitude, but they rarely live longer than five years. From 2000 to 2020 we conducted wood frog egg mass counts in 64 freshwater nonpermanent wetlands in the 3212 hectare Yale-Myers Forest in northeastern Connecticut, USA. The wetlands varied in surface area (average = 2642 m<sup>2</sup>, range = 24–41361 m<sup>2</sup>, CV = 252), canopy closure (i.e., global site factor; average = 52%, range = 0–98%, CV = 68), depth (average = 52 cm, range = 22–118, CV = 46), and egg mass counts (average = 71, range = 0–1113, CV = 130). As each female only lays one egg mass per year (i.e., only produces one clutch) and site fidelity is high, egg mass counts offer an accurate proxy for the number of breeding females within a pond in a given year. Previous work indicates egg mass counts are an accurate and precise technique for monitoring wood frog populations.</p>
Data for "On the resolution-dependence of cloud fraction in radiative-convective equilibrium"
<p>Cloud-resolving model output and analysis scripts for the paper "On the resolution-dependence of anvil cloud fraction and precipitation efficiency in radiative-convective equilibrium"</p>
UDPipe Models for Morphologically enhanced Universal Dependencies for Korean (morphUD)
<p>UDPipe 1 (https://ufal.mff.cuni.cz/udpipe/1) models for Morphologically enhanced Universal Dependencies for Korean (morphUD) including ko.vectors.xz files for morphUD and wordUD. </p> <p>Embedding files are available at https://doi.org/10.5281/zenodo.5869738</p> <blockquote> <p><strong>udpipe</strong> --train --tokenizer="dimension=64;epochs=100;segment_size=50;initialization_range=0.2;batch_size=50;learning_rate=0.005;learning_rate_final=0.001;dropout=0.3;early_stopping=1" --tagger="models=2;templates_1=tagger;guesser_suffix_rules_1=8;guesser_enrich_dictionary_1=6;guesser_prefixes_max_1=0;use_lemma_1=0;use_xpostag_1=1;use_feats_1=1;provide_lemma_1=0;provide_xpostag_1=1;provide_feats_1=1;prune_features_1=0;templates_2=lemmatizer;guesser_suffix_rules_2=8;guesser_enrich_dictionary_2=6;guesser_prefixes_max_2=4;use_lemma_2=1;use_xpostag_2=0;use_feats_2=0;provide_lemma_2=1;provide_xpostag_2=0;provide_feats_2=0;prune_features_2=1" --parser="iterations=30;embedding_upostag=20;embedding_feats=20;embedding_xpostag=0;embedding_form=300;embedding_form_file={wordUD|morphUD}.txt.embeding.vec;embedding_lemma=0;embedding_deprel=20;learning_rate=0.01;learning_rate_final=0.001;l2=0.5;hidden_layer=200;batch_size=10;transition_system=projective;transition_oracle=dynamic;structured_interval=10" --heldout={UD_Korean-GSD|UD_Korean-Kaist}/ko_{gsd|kaist}-ud-dev.conllu {UD_Korean-GSD|UD_Korean-Kaist}/ko_{gsd|kaist}-ud-{wordUD|morphUD}.model {UD_Korean-GSD|UD_Korean-Kaist}/ko_{gsd|kaist}-ud-train.conllu</p> </blockquote>
Data and Code for "Phase-dependent microwave response of a graphene Josephson junction"
<p>This data set contains the measurement data and its metadata of the publication "Phase-dependent microwave response of a graphene Josephson junction". Additionally, the MatLab scripts for raw data processing are provided.</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.