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.
4,753
datasets available to search
ShareScore release 0.9.0
Dataset results
4,753 results for “SHAPE”
Fig. 8 in Gladius shape variation in coleoid cephalopod Trachyteuthis from the Upper Jurassic Nusplingen and Solnhofen Plattenkalks
Fig. 8. Stratigraphic occurrence and possible phylogenetic relationships of fossil octobrachians.
The role of chemical properties of the material deposited in nests of white stork in shaping enzymatic activity and fungal diversity - dataset
<p>Dataset to paper: Błońska E., Jankowiak R., Lasota J., Krzemińska N., Zbyryt A., Ciach M. 2024. The role of chemical properties of the material deposited in nests of white stork in shaping enzymatic activity and fungal diversity. Environmental Science and Pollution Research 31, 2: 2583-2594. https://doi.org/10.1007/s11356-023-31383-x</p> <p>This study was financially supported by the National Science Centre, Poland (grant no. 2021/41/B/NZ8/03456).</p>
Climate, inter-serotype competition and arboviral interactions shape Dengue dynamics in Thailand
Open the record for dataset details and reuse information.
Resources for studying the aesthetic and diversity values of plants and pets in shaping biodiversity loss belief among urban residents
<p><span>Considering the issues of data transparency and the cost of reproduction, all data and code snippets of the study titled "From beauty to belief: The aesthetic and diversity values of plants and pets in shaping biodiversity loss belief among urban residents" are deposited here.</span></p>
Code and data for "Cell shape and orientation control galvanotactic accuracy"
<p>This is the code and the data required to reproduce the results from "Cell shape and orientation control galvanotactic accuracy" Ifunanya Nwogbaga and Brian A. Camley, arXiv:2407.17420 2024, in press in Soft Matter, DOI https://doi.org/10.1039/D4SM00952E</p>
MASCS 1.0: Synchronous atmospheric and oceanic data from a cross-shaped moored array in the northern South China Sea during 2014–2015
<p>This work presents a cross-shaped moored array dataset (MASCS 1.0) comprising five buoys and four moorings with synchronous atmospheric and oceanic data in the northern South China Sea during 2014–2015. The atmospheric data are observed by two meteorological instruments at the buoys. The oceanic data consist of sea surface waves measured using a wave recorder, temperature, and salinity from the surface to a depth of 400 m, and at 10 and 50 m above the ocean bottom using conductivity, temperature, and depth recorders. It also includes currents from the surface to a depth of 850 m measured using acoustic Doppler current profilers and measured at 10, 50, and 100 m above the floor using current meters. Additional measurements were taken for sea surface radiation, air visibility, chlorophyll, turbidity, and chromophoric dissolved organic matter at buoy 3, located at the center of the moored array. The data reveals air–sea interactions and oceanic processes in the upper and bottom ocean, especially the transition of the air–sea interface and ocean conditions from summer to winter monsoon and the effects of six tropical cyclones on the moored array. Multiscale processes were also recorded, such as air–sea fluxes, tides, internal waves, and low-frequency flows. The data are valuable and have many potential applications, including analyzing the phenomena and mechanisms of air–sea interactions and ocean dynamics and validating and improving numerical model simulations, data reanalysis, and assimilations.</p>
Dataset Questionnaire Driving Repeat Purchases and E-WOM: How Price, Reputation, Hedonic Appeal, and Social Interaction Shape Consumer Behavior in Indonesia's E-Commerce Smartphone Market
<p>The following dataset is a dataset from a study that investigated price advantage, reputation, hedonic effort, and social interaction influence customer satisfaction, which in turn impacts repurchase intention and e-WOM (electronic word-of-mouth).</p>
Repository for "Light-induced cortical excitability reveals programmable shape dynamics in starfish oocytes"
<p>Data and code repository for paper "Light-induced cortical excitability reveals programmable shape dynamics in starfish oocytes". DOI tbd.</p>
TACO: a benchmark for connectivity-invariance in shape correspondence
<div> <h1>TACO: a benchmark for connectivity-invariance in shape correspondence</h1> </div> <p>In real-world scenarios, a major limitation for shape-matching datasets is represented by having all the meshes of the same subject share their connectivity across different poses. Specifically, similar connectivities could provide a significant bias for shape-matching algorithms, simplifying the matching process and potentially leading to correspondences based on recurring triangle patterns rather than geometric correspondences between mesh parts. As a consequence, the resulting correspondence may be meaningless, and the evaluation of the algorithm may be misled.<br>To overcome this limitation, we introduce TACO, a new dataset where meshes representing the same subject in different poses do not share the same connectivity, and we compute new ground truth correspondences between shapes. We extensively evaluate our dataset to ensure that ground truth isometries are properly preserved. We also use our dataset to validate state-of-the-art shape-matching algorithms, verifying a degradation in performance when the connectivity gets altered.</p> <p> </p> <h2><strong>Dataset structure</strong></h2> <ul> <li>offs: a directory containing all the triangular meshes in the dataset in <a href="https://en.wikipedia.org/wiki/OFF_(file_format)#:~:text=OFF%20(Object%20File%20Format)%20is,higher%2Ddimensional%20objects%20as%20well." target="_blank" rel="noopener">OFF file format</a></li> <li>pairs.txt: a list of all the 420 possible pairs of shapes in the dataset</li> <li>gt_matches: a directory containing all the ground truth correspondences listed in `pairs.txt` and stored in <a href="https://it.mathworks.com/help/matlab/apiref/matfileapi.html">MAT file format</a></li> </ul>
Data from: Host genotype and age shape the leaf and root microbiomes of a wild perennial plant
Bacteria living on and in leaves and roots influence many aspects of plant health, so the extent of a plant's genetic control over its microbiota is of great interest to crop breeders and evolutionary biologists. Laboratory-based studies, because they poorly simulate true environmental heterogeneity, may misestimate or totally miss the influence of certain host genes on the microbiome. Here we report a large-scale field experiment to disentangle the effects of genotype, environment, age and year of harvest on bacterial communities associated with leaves and roots of Boechera stricta (Brassicaceae), a perennial wild mustard. Host genetic control of the microbiome is evident in leaves but not roots, and varies substantially among sites. Microbiome composition also shifts as plants age. Furthermore, a large proportion of leaf bacterial groups are shared with roots, suggesting inoculation from soil. Our results demonstrate how genotype-by-environment interactions contribute to the complexity of microbiome assembly in natural environments.
Data from: Genetic and developmental basis for fin shape variation in African cichlid fishes
Adaptive radiations are often characterized by the rapid evolution of traits associated with divergent feeding modes. For example, the evolutionary history of African cichlids is marked by repeated and coordinated shifts in skull, trophic, fin and body shape. Here, we seek to explore the molecular basis for fin shape variation in Lake Malawi cichlids. We first described variation within an F2 mapping population derived by crossing two cichlid species with divergent morphologies including fin shape. We then used this population to genetically map loci that influence variation in this trait. We found that the genotype–phenotype map for fin shape is largely distinct from other morphological characters including body and craniofacial shape. These data suggest that key aspects of fin, body and jaw shape are genetically modular and that the coordinated evolution of these traits in cichlids is more likely due to common selective pressures than to pleiotropy or linkage. We next combined genetic mapping data with population-level genome scans to identify wnt7aa and col1a1 as candidate genes underlying variation in the number of pectoral fin ray elements. Gene expression patterns across species with different fin morphologies and small molecule manipulation of the Wnt pathway during fin development further support the hypothesis that variation at these loci underlies divergence in fin shape between cichlid species. In all, our data provide additional insights into the genetic and molecular mechanisms associated with morphological divergence in this important adaptive radiation.
Data from: Differential host responses to parasitism shape divergent fitness costs of infection
Fitness costs of infection are fundamental to understanding the ecology and evolution of host-parasite interactions. However, these costs, and particularly their underlying mechanisms, are challenging to evaluate in wild populations. Here, we quantified total and species-specific costs of gastrointestinal worms on African buffalo, by combining the power of an anthelmintic treatment experiment that perturbed the entire worm community with a longitudinal study that tracked the two most dominant community members. Reducing all worms improved buffalo body condition, which was strongly associated with increases in survival and reproduction. Species-specific analyses revealed that condition-mediated fitness costs of infection differed between parasite species. Hosts that gained the blood-sucking worm Haemonchus, lost condition, and this loss may have been mediated by reductions in forage intake. Hosts that resisted Haemonchus by elevating IL-4 and eosinophil immune defences were able to reduce their parasite loads and gain back condition. Conversely, hosts that gained Cooperia, a less pathogenic worm, gained condition and had higher survival and reproductive success. Elevating immune defences had no effect on Cooperia abundance. Coupled with the positive relationship observed between Cooperia and host condition, our data suggest that hosts might benefit from tolerating Cooperia rather than incurring the costs of resistance. Overall, our study reveals that differential host responses to parasites play a key role in mediating the costs of infection.
Data from: Fire, grazing, and climate shape plant-grasshopper interactions in a tallgrass prairie
1. Species interactions are integral to ecological community function and the structure of species interactions has repercussions for the consequences of species extinctions. Few studies have examined the role of environmental factors in controlling species interaction networks across time. 2. We examined variation in plant-grasshopper network structural properties in response to three major grassland drivers: periodic fire, ungulate grazing and climate. 3. We sequenced a plant barcoding gene from extracted grasshopper gut contents to characterize diets of 26 grasshopper species. Resulting grasshopper species' diets were combined with long-term plant and grasshopper surveys to assemble plant-grasshopper networks across 13-19 years for 6 watersheds subjected to varying fire and grazing treatments. 4. Network modularity, generality, and predicted grasshopper community robustness to plant species loss all increased in grazed watersheds. Temperature decreased predicted grasshopper community robustness to plant species loss. 5. Grasshopper communities were found to be vulnerable to climatic warming due to host plant loss. However, intermediate disturbance from ungulate grazers may maintain grasshopper diversity and buffer community robustness to species loss. Our results suggest that climate and disturbance shape the structure of ecological interaction networks and thus have many indirect effects on species persistence though direct effects on interaction partners.
Source pool diversity and proximity shape the compositional uniqueness of insular mammal assemblages worldwide
<p>Islands have been the test bed of several theories in community ecology, biogeography, and evolutionary biology. Progress within these disciplines has given a more comprehensive and mechanistic understanding of the processes governing variation in species richness among islands. However, it remains unclear whether these same processes also explain variation in species and phylogenetic composition among islands. Integrating theory from ecology and biogeography, we infer the roles of dispersal, selection, and stochasticity on the composition of insular assemblages within archipelagos. We further assess the influence of source pool diversity and connectivity on the compositional uniqueness of insular assemblages. Island systems worldwide. We compiled data on species composition of non-volant mammals on ∼200 islands in nine archipelagos distributed worldwide from the literature. We used variation partitioning to quantify the relative influence of the environment (selection) and geographic distance (dispersal) relative to a null model (stochasticity, randomness) on taxonomic and phylogenetic compositional turnover within archipelagos. We then used a linear mixed model to gain further insight into the underlying mechanisms shaping variation in assemblage composition among islands at a global scale. Specifically, we assessed the influence of source pool diversity, isolation from the source pool, and island characteristics on compositional uniqueness. Our results suggest that within-archipelago variation in the composition of insular mammal assemblages is associated with stochastic or unmeasured processes rather than abiotic selection or dispersal limitation. The diversity and proximity of the source pool, as well as some island characteristics, explained variation in phylogenetic, but not taxonomic, compositional uniqueness globally. Within archipelagos, the largely unexplained variation in compositional turnover points to the overwhelming influence of extinction mediated by ecological drift or other stochastic processes, which obscures or overrides the signature of selection and/or dispersal. Globally, isolated islands associated with highly diverse source pools exhibit high phylogenetic uniqueness whereas well-connected islands associated with small source pools show the opposite trend. Phylogenetically unique assemblages also tend to occur on islands with a small elevational span and low annual temperature variation. Taken together, our results suggest that source pool diversity, along with the potential for colonization from those pools, plays an important role in shaping the composition of insular mammal assemblages worldwide. </p>
Connectional asymmetry of the inferior parietal lobule shapes hemispheric specialization in humans, chimpanzees, and rhesus macaques
<p>The inferior parietal lobule (IPL) is one of the most expanded cortical regions in humans relative to other primates. It is also among the most structurally and functionally asymmetric regions in the human cerebral cortex. Whether the structural and connectional asymmetries of IPL subdivisions differ across primate species and how this relates to functional asymmetries remain unclear. We identified IPL subregions that exhibited positive allometric in both hemispheres, scaling across rhesus macaque monkeys, chimpanzees, and humans. The patterns of IPL subregions asymmetry were similar in chimpanzees and humans, but no IPL asymmetries were evident in macaques. Among the comparative sample of primates, humans showed the most widespread asymmetric connections in the frontal, parietal, and temporal cortices, constituting leftward asymmetric networks that may provide an anatomical basis for language and tool use. Unique human asymmetric connectivity between the IPL and primary motor cortex might be related to handedness. These findings suggest that structural and connectional asymmetries may underlie hemispheric specialization of the human brain.</p>
Data from: Genomic architecture and introgression shape a butterfly radiation
We probe the history of rapidly radiating Heliconius butterflies by means of 20 new genome assemblies and employ them to investigate the genomic architecture of gene flow among lineages. By developing a test to distinguish incomplete lineage sorting from introgression, we demonstrate that histories of loci that differ from the species tree arose mostly through introgression. Moreover, these loci are underrepresented in low recombination and gene-rich regions, consistent with the purging of introgressed alleles tightly linked with incompatibility loci. Additionally, our analysis identifies an inversion that captures a color pattern switch locus which was transferred between lineages via introgression and is convergent with a similar rearrangement in another part of the genus. This analysis of multiple de novo genome sequences enables an improved understanding of the importance of introgression and selective processes in adaptive radiation.
Skull shape of a widely-distributed, endangered marsupial reveals little evidence of local adaptation between fragmented populations
<p>The biogeographical distribution of diversity among populations of threatened mammalian species is generally investigated using population genetics. However, intraspecific phenotypic diversity is rarely assessed beyond taxonomy-focused linear measurements or qualitative descriptions. Here, we use a technique widely used in the evolutionary sciences – geometric morphometrics – to characterize shape diversity in the skull of an endangered marsupial, the northern quoll, across its 5,000 km distribution range along Northern Australia. Skull shape is a proxy for feeding, behaviour, and phenotypic differentiation, allowing us to ask if populations can be distinguished and if patterns of variation indicate adaptability to changing environmental conditions. We analysed skull shape in 101 individuals across four mainland populations and several islands. We assessed the contribution of population, size, sex, rainfall, temperature, and geography to skull shape variation using Principal Components Analysis, Procrustes ANOVA, and variation partitioning analyses. The populations harbour similar amounts of broadly overlapping skull shape variation, with relatively low geographic effects. Size predicted skull shape best, coinciding with braincase size variation and differences in zygomatic arches. Size-adjusted differences in populations explained less variation with far smaller effect sizes, relating to changes in the insertion areas of masticatory muscles, as well as the upper muzzle and incisor region. Climatic and geographic variables contributed little. Strikingly, the vast majority of shape variation - 76% - remained unexplained. Our results suggest a uniform intraspecific scope for shape variation, possibly due to allometric constraints or phenotypic plasticity beyond the relatively strong allometric effect. The lack of local adaptation indicates that cross-breeding between populations will not reduce local morphological skull (and probably general musculoskeletal) adaptation because none exists. However, the potential for heritable morphological variation (e.g. specialization to local diets) seems exceedingly limited. We conclude that 3D geometric morphometrics can provide a comprehensive, statistically rigorous phenomic contribution to genetics-based conservation studies.</p>
Implicit visuospatial attention shapes numerosity adaptation and perception
<ul> <li>The folder Dataset contains two subfolders referring to the main experiments. Each subfolder contains additional subfolders In which are stored the single subjects’ data for each experimental condition.</li> </ul> <p>In Experiment 1 each file contains two matlab tables called “TBase” and “TAdapt”. Each row of the table is a trial and each column contains the following information:</p> <p>1<sup>st</sup>: Numerosity of the test stimulus</p> <p>2<sup>nd</sup>: Response</p> <p>3<sup>rd</sup>: Reaction Times</p> <p>4<sup>th</sup>: Accuracy </p> <p>5<sup>th</sup>: Test/Adapt side</p> <p>6<sup>th</sup>: N° of presented Adaptors</p> <p> </p> <p>In Experiment 2 each file contains a single table called “T”. Each row of the table is a trial and each column contains the following information:</p> <p>1<sup>st</sup>: Numerosity of the test stimulus</p> <p>2<sup>nd</sup>: Response</p> <p>3<sup>rd</sup>: Stimulus position</p> <p>4<sup>th</sup>: N° of presented stimuli</p>
The genetic architecture of temperature adaptation is shaped by population ancestry and not by selection regime
<p class="western"><span>Understanding the genetic architecture of temperature adaptation is key for characterizing and predicting the effect of climate change on natural populations. One particularly promising approach is Evolve and Resequence (E&R), which combines advantages of experimental evolution such as time series, replicate populations and controlled environmental conditions, with whole genome sequencing. </span></p> <p class="western"><span>The recent analysis of replicate populations from two different </span><span><i>Drosophila simulans</i></span><span> founder populations, which were adapting to the same novel hot environment, uncovered very different architectures - either many selection targets with large heterogeneity among replicates or fewer selection targets with a consistent response among replicates. </span></p> <p class="western"><span>Here, we exposed the founder population from Portugal to a cold temperature regime. Although almost no selection targets were shared between the hot and cold selection regime, the adaptive architecture was similar: we identified a moderate number of targets under strong selection (19 selection targets, mean selection coefficient = 0.072) and very parallel responses in the cold evolved replicates. This similarity across different environments indicates that the adaptive architecture depends more on the ancestry of the founder population than the specific selection regime. These observations will have broad implications for the correct interpretation of the genomic responses to a changing climate in natural populations.</span></p> <p class="western"> </p>
Natural selection shapes variation in genome-wide recombination rate in Drosophila pseudoobscura
<p>While recombination is widely recognized to be a key modulator of numerous evolutionary phenomena, we have a poor understanding of how recombination rate itself varies and evolves within a species. Here, we performed a comprehensive study of recombination rate (rate of meiotic crossing over) in two natural populations of <i>Drosophila pseudoobscura</i> from Utah and Arizona, USA. We used an amplicon sequencing approach to obtain high-quality genotypes in approximately 8000 individual backcrossed offspring (17 mapping populations with roughly 530 individuals each), for which we then quantified crossovers. Interestingly, variation in recombination rate within and between populations largely manifested as differences in genome-wide recombination rate rather than remodeling of the local recombination landscape. Comparing populations, we discovered individuals from the Utah population displayed on average 8% higher crossover rates than the Arizona population, a statistically significant difference. Using a Q<sub>ST</sub>-F<sub>ST</sub> analysis, we found that this difference in crossover rate was dramatically higher than expected under neutrality, indicating that this difference may have been driven by natural selection. Finally, using a combination of short and long read whole-genome sequencing, we found no significant association between crossover rate and structural variation at the 200-400kb scale. Our results demonstrate that (1) there is abundant variation in genome-wide crossover rate in natural populations, (2) at the 200-400kb scale, recombination rate appears to vary largely genome wide, rather than in specific intervals and (3) interpopulation differences in recombination rate may be the result of local adaptation.</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.