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.
23,351
datasets available to search
ShareScore release 0.9.0
Dataset results
23,351 results for “Comparative”
Supplementary Figure 1 from "Comparative analysis of squamate brains unveils multi-level variation in cerebellar architecture associated with locomotor specialization"
<p> </p> <p>Published as part of <a href="https://doi.org/10.1038/s41467-019-13405-w"><strong>Macrì, S <em>et al</em>., 2019, Nature Communications: 10(1):5560</strong></a></p> <p><strong>"Comparative analysis of squamate brains unveils multi-level variation in cerebellar architecture associated with locomotor specialization"</strong> DOI: https://doi.org/10.1038/s41467-019-13405-w</p> <p> </p> <p><strong>Supplementary Fig. 1:</strong> <strong>Definition of 3D anatomical landmarks.</strong> <strong>a</strong>, Position of 3D anatomical landmarks on the whole brain of the lizard <em>Agama agama</em> in dorsal (top left panel), ventral (top right), and lateral (bottom) views. <strong>b</strong>, Position of 3D anatomical landmarks on the isolated cerebellum of <em>Agama agama</em> in pial surface (left panel) and lateral (right) views. <strong>c</strong>, Schematic representation of the whole-brain of <em>Agama agama</em> highlighting the five major regions used for landmarking. <strong>d</strong>, Table showing the definition of 3D anatomical landmarks with associated number (see <strong>a</strong>, <strong>b</strong>) and brain region (see <strong>c</strong>).</p>
Data from: Pollinator shifts, contingent evolution, and evolutionary constraint drive floral disparity in Salvia (Lamiaceae): evidence from morphometrics and phylogenetic comparative methods
Switches in pollinators have been argued to be key drivers of floral evolution in angiosperms. However, few studies have tested the relationship between floral shape evolution and switches in pollination in large clades. In concert with a dated phylogeny, we present a morphometric analysis of corolla, anther connective, and style shape across 44% of nearly 1,000 species of Salvia (Lamiaceae) and test four hypotheses of floral evolution. We demonstrate that floral morphospace of New World (NW) Salvia is largely distinct from that of Old World (OW) Salvia and that these differences are pollinator driven; that shifts in floral morphology sometimes mirror shifts in pollinators; that anther connectives (key constituents of the Salvia staminal lever) and styles co-evolved from curved to linear shapes following shifts from bee to bird pollination; and that morphological differences between NW and OW bee flowers are partly the legacy of constraints imposed by an earlier shift to bird pollination in the NW. The distinctive staminal lever in Salvia is a morphologically diverse structure that has evolved in concert with both the corolla and style, under different pollinator pressures, and in contingent fashion.
Data from: Comparing the indirect effects between exploiters in predator-prey and host-pathogen systems
DataS1 <p>These files are Maple and Matlab scripts for analyzing the predator-prey and host-pathogen models in "Comparing the indirect effects between exploiters in predator-prey and host-pathogen systems" and generating the figures in that study. </p>
Data from: Testing the greater male variability hypothesis: male mountain chickadees exhibit larger variation in reversal learning compared to females
The 'greater male variability hypothesis' predicts that males exhibit larger ranges of variation in cognitive performance compared to females, however, support for this hypothesis has come exclusively from studies of humans. This scenario aligns with the fact that the vast majority of the literature assessing sex differences in cognition is based on studies of humans and a few other mammals. In order to elucidate the underpinnings of cognitive variation and the potential for fitness consequences, we must investigate sex differences in cognition in non-mammalian systems as well. Here we assess the performance of male and female food-caching birds on a spatial learning and memory task and a reversal spatial task to address whether there are sex differences in mean cognitive performance or in the range of variation in performance. For both tasks, male and female mean performance was similar across four years of testing; however, males did exhibit a wider range of variation in performance on the reversal spatial task compared to females. The implications for mate choice and sexual selection of cognitive abilities are discussed, with a call for further investigation into sex-related cognitive variation.
Data from: Phylogenetic comparative methods on phylogenetic networks with reticulations
The goal of Phylogenetic Comparative Methods (PCMs) is to study the distribution of quantitative traits among related species. The observed traits are often seen as the result of a Brownian Motion (BM) along the branches of a phylogenetic tree. Reticulation events such as hybridization, gene flow or horizontal gene transfer, can substantially affect a species' traits, but are not modeled by a tree. Phylogenetic networks have been designed to represent reticulate evolution. As they become available for downstream analyses, new models of trait evolution are needed, applicable to networks. One natural extension of the BM is to use a weighted average model for the trait of a hybrid, at a reticulation point. We develop here an efficient recursive algorithm to compute the phylogenetic variance matrix of a trait on a network, in only one preorder traversal of the network. We then extend the standard PCM tools to this new framework, including phylogenetic regression with covariates (or phylogenetic ANOVA), ancestral trait reconstruction, and Pagel's λ test of phylogenetic signal. The trait of a hybrid is sometimes outside of the range of its two parents, for instance because of hybrid vigor or hybrid depression. These two phenomena are rather commonly observed in present-day hybrids. Transgressive evolution can be modeled as a shift in the trait value following a reticulation point. We develop a general framework to handle such shifts, and take advantage of the phylogenetic regression view of the problem to design statistical tests for ancestral transgressive evolution in the evolutionary history of a group of species. We study the power of these tests in several scenarios, and show that recent events have indeed the strongest impact on the trait distribution of present-day taxa. We apply those methods to a dataset of Xiphophorus fishes, to confirm and complete previous analysis in this group. All the methods developed here are available in the Julia package PhyloNetworks.
Data from: Lousy grouse: comparing evolutionary patterns in Alaska galliform lice to understand host evolution and host-parasite interactions
Understanding both sides of host-parasite relationships can provide more complete insights into host and parasite biology in natural systems. For example, phylogenetic and population genetic comparisons between a group of hosts and their closely associated parasites can reveal patterns of host dispersal, interspecies interactions, and population structure that might not be evident from host data alone. These comparisons are also useful for understanding factors that drive host-parasite coevolutionary patterns (e.g., codivergence or host switching) over different periods of time. However, few studies have compared the evolutionary histories between multiple groups of parasites from the same groups of hosts at a regional geographic scale. Here, we used genomic data to compare phylogenomic and population genomic patterns of Alaska ptarmigan and grouse species (Aves: Tetraoninae) and two genera of their associated feather lice: Lagopoecus and Goniodes. We used whole-genome sequencing to obtain hundreds of genes and thousands of single nucleotide polymorphisms (SNPs) for the lice and double digest restriction associated DNA sequences to obtain SNPs from Alaska populations of two species of ptarmigan. We found that both genera of lice have some codivergence with their galliform hosts, but these relationships are primarily characterized by host switching and phylogenetic incongruence. Population structure was also uncorrelated between the hosts and lice. These patterns suggest that grouse, and ptarmigan in particular, share habitats and have likely had historical and ongoing dispersal within Alaska. However, the two genera of lice also have sufficient dissimilarities in the relationships with their hosts to suggest there are other factors, such as differences in louse dispersal ability, that shape the evolutionary patterns with their hosts.
Data from: 'In and out of' the Qinghai-Tibet Plateau and the Himalayas: centers of origin and diversification compared across five clades of Eurasian montane and alpine passerine birds
<p>Encompassing some of the major hotspots of biodiversity on Earth, large mountain systems have long held the attention of evolutionary biologists. The region of the Qinghai-Tibet Plateau (QTP) is considered a biogeographic source for multiple colonization events into adjacent areas including the northern Palearctic. The faunal exchange between the QTP and adjacent regions could thus represent a one-way street ('out of' the QTP). However, immigration into the QTP region has so far received only little attention, despite its potential to shape faunal and floral communities of the QTP. In this study, we investigated centers of origin and dispersal routes between the QTP, its forested margins and adjacent regions for five clades of alpine and montane birds of the passerine superfamily Passeroidea (Johansson et al., 2008; Selvatti et al., 2015). We performed an ancestral area reconstruction using BioGeoBEARS and inferred a time-calibrated backbone phylogeny for 279 taxa of Passeroidea. The oldest endemic species of the QTP was dated to the early Miocene (ca. 18 Ma). Several additional QTP endemics evolved in the mid to late Miocene (12–7 Ma). The inferred centers of origin and diversification for some of our target clades matched the 'out of Tibet hypothesis' or the 'out of Himalayas hypothesis' for others they matched the 'into Tibet hypothesis'. Three radiations included multiple independent Pleistocene colonization events to regions as distant as the Western Palearctic and the Nearctic. We conclude that faunal exchange between the QTP and adjacent regions was bidirectional through time, and the QTP region has thus harbored both centers of diversification and centers of immigration.</p>
Comparing Lifeact and Phalloidin for super-resolution imaging of actin in fixed cells
<p>Visualizing actin filaments in fixed cells is of great interest for a variety of topics in cell biology such as cell division, cell movement, and cell signaling. We investigated the possibility of replacing phalloidin, the standard reagent for super-resolution imaging of F-actin in fixed cells, with the actin binding peptide `lifeact'. We compared the labels for use in single molecule based super-resolution microscopy, where AlexaFluor 647 labeled phalloidin was used in a (d)STORM modality and Atto 655 labeled lifeact was used in a single molecule imaging, reversible binding modality. We found that imaging with lifeact had a comparable resolution in reconstructed images and provided several advantages over phalloidin including lower costs, the ability to image multiple regions of interest on a coverslip without degradation, simplified sequential super-resolution imaging, and more continuous labeling of thin filaments.</p>
Comparing the effect of TGF-β receptor inhibition on human mesenchymal stem/stromal cells derived from endometrium, bone marrow and adipose tissues
<p><strong>Figure S1: Differences between bmMSC donors. A)</strong> Graph showing two groups of bmMSCs with and without effect of A83-01 treatment on % SUSD2<sup>+</sup> cells. <strong>B)</strong> Graph showing no difference in the number of cells following A83-01 treatment in the two groups of donor cells from <strong>A</strong>. Plots are median for n=3 biological samples per treatment group.</p>
A comparative assessment of the dentoskeletal effects of clear aligners versus miniplate-supported posterior intrusion with fixed appliances in adult anterior open bite patients. A multi-centre, retrospective cohort study.
<p>In this retrospective study, the aim was to evaluate the dentoskeletal effects of clear aligner treatment (Invisalign®) versus miniplate-supported posterior intrusion (MSPI) in adults with anterior open bite.</p>
Opportunities and challenges in achieving co-management in marine protected areas in East Africa: a comparative case study
<p>As marine ecosystems decline globally, scientists recommend increasing the coverage of marine protected areas (MPAs), but many are not effectively managed to deliver benefits. Community integration into MPA decision-making can increase management effectiveness by supporting behaviour change, but this poses implementation challenges. We examine differences in adaptive capacity, community engagement, and perceived MPA benefits using interviews and focal group meetings with two fishing communities from MPAs with different management strategies and geographic settings: a centrally managed MPA in Kenya and a co-managed MPA in Tanzania. We hypothesized that perceptions of MPA benefits and MPA support would be higher among fishers and fish vendors in the more collaboratively designed system in Tanzania, and supported by greater adaptive capacity. Indeed, far fewer Kenyan participants (37%) felt they benefited from the MPA compared to Tanzanian participants (95%). However, agency and trust were largely similar and challenges existed in both systems that reduced collaborative action including low interaction/communication between staff and community, internal leadership challenges, and social conflict. We identified pathways towards improved co-management that transcend systems: institutional prioritization of community integration, investment in community leadership, mapping social networks during MPA establishment, and adequate staffing and operational budgets.</p>
Data and Code for: Comparative species abundance modeling of Capitellidae (Annelida) in Tampa Bay, Florida, USA
<p>This publication contains the R-Scripts, RData, data frames, and other supplementary files necessary to reproduce the analyses and figures of Hilliard J, Karlen D, Dix T, Markham S, Schulze A (2020) Comparative species abundance modeling of Capitellidae (Annelida) in Tampa Bay, Florida, USA. Mar Ecol Prog Ser 653:105-119. <a href="https://doi.org/10.3354/meps13484">https://doi.org/10.3354/meps13484</a></p> <p>All files are compressed into a single ZIP folder. The main directory contains a README file that explains the contents of the subdirectories.</p>
Quantifying the effects of species traits on predation risk in nature: a comparative study of butterfly wing damage
<p>1) Evading predators is a fundamental aspect of the ecology and evolution of all prey animals. In studying the influence of prey traits on predation risk, previous researchers have shown that crypsis reduces attack rates on resting prey, predation risk increases with increased prey activity, and rapid locomotion reduces attack rates and increases chances of surviving predator attacks. However, evidence for these conclusions is nearly always based on observations of selected species under artificial conditions. In nature, it remains unclear how defensive traits such as crypsis, activity levels, and speed influence realized predation risk across species in a community. Whereas direct observations of predator-prey interactions in nature are rare, insight can be gained by quantifying bodily damage caused by failed predator attacks. 2) We quantified how butterfly species traits affect predation risk in nature by determining how defensive traits correlate with wing damage caused by failed predation attempts, thereby providing the first robust multi-species comparative analysis of predator-induced bodily damage in wild animals. 3) For 34 species of fruit-feeding butterflies in an African forest, we recorded wing damage and quantified crypsis, activity levels, and flight speed. We then tested for correlations between damage parameters and species traits using comparative methods that account for measurement error. 4) We detected considerable differences in the extent, location, and symmetry of wing surface loss among species, with smaller differences between sexes. We found that males (but not females) of species that flew faster had substantially less wing surface loss. However, we found no correlation between cryptic colouration and symmetrical wing surface loss across species. In species in which males appeared to be more active than females, males had a lower proportion of symmetrical wing surface loss than females. 5) Our results provide evidence that activity greatly influences the probability of attacks and that flying rapidly is effective for escaping pursuing predators in the wild, but we did not find evidence that cryptic species are less likely to be attacked while at rest. 15-Oct-2019</p>
Falling balls in a viscous fluid with contact: Comparing numerical simulations with experimental data
<p>The full results of the numerical computations and the source code for the rigid-body ALE and rigid-body CutFEM discretisations as presented in "H. von Wahl, T. Richter, S. Frei and T. Hagemeier. ‘Falling balls in a viscous fluid with contact: Comparing numerical simulations with experimental data’. In: <em>Phys. Fluids </em>33.3, 033304 (2nd Mar. 2021). doi: <a href="http://10.1063/5.0037971">10.1063/5.0037971</a>. <a href="https://arxiv.org/abs/2011.08691">arXiv:2011.08691</a> [physics.flu-dyn]".</p>
Data from: The Odonate Phenotypic Database, a new open data resource for comparative studies of an old insect order
<p>We present The Odonate Phenotypic Database (OPD): an online data resource of dragonfly and damselfly phenotypes (Insecta: Odonata). Odonata is a relatively small insect order that currently consists of about 6400 species belonging to 32 families. The database consists of a variety of morphological, life-history and behavioral traits, and biogeographical information collected from literature sources. We see taxon-specific phenotypic databases from Odonata and other organismal groups as becoming an increasing valuable resource in comparative studies. Our database has phenotypic records for 1011 of all 6400 known odonate species. The database is accessible at <a href="http://www.odonatephenotypicdatabase.org/">http://www.odonatephenotypicdatabase.org/</a> and also uploaded as a supporting information file with this paper.</p> <p><strong>Update on November 6 2020</strong></p> <p>A total of 397 new taxa have been added to the database (aside from wing pigmentation data, many taxa have information on morphology, distribution and behaviour).</p> <p>Updated (validated) pigmentation status for 20 taxa (for these taxa, columns concerning wing pigment have been changed compared to the original opdb‐file, while all other columns have not been changed).</p>
The influence of thin as compared to thick peri-implant soft tissues on esthetic outcomes. A systematic review and meta-analysis.
<p>Dataset for all analyses in the paper.</p>
FIG. 2. — A in The comparative milk-suckling reptile
FIG. 2. — A woodcut of the ATU 285A fable De homine paupere et serpente. From Steinhöwel (1479).
Data from: Comparative genomics reveals high rates of horizontal transfer and strong purifying selection on rhizobial symbiosis genes
<p class="western"><span>Horizontal transfer (HT) alters the repertoire of symbiosis genes in rhizobial genomes and may play an important role in the on-going evolution of the rhizobia-legume symbiosis. To gain insight into the extent of HT of symbiosis genes with different functional roles (nodulation, N-fixation, host benefit, and symbiont fitness), we conducted comparative genomic and selection analyses of the full genome sequences from 27 rhizobial genomes. We find that symbiosis genes experience high rates of HT among rhizobial lineages but also bear signatures of purifying selection (low Ka:Ks). HT and purifying selection appear to be particularly strong in genes involved in initiating the symbiosis (e.g. nodulation) and in genome-wide association candidates for mediating variation in benefits provided to the host. These patterns are consistent with rhizobia adapting to the host environment through the loss and gain of symbiosis genes, but not with host-imposed positive selection driving divergence of symbiosis genes through recurring bouts of positive selection.</span></p>
Dataset for "Influence of curing temperature on belite cement hydration: a comparative study with Portland cement" paper
<p>Dataset for paper (doi: <a title="Persistent link using digital object identifier" href="https://doi.org/10.1016/j.cemconres.2021.106499" target="_blank" rel="noreferrer noopener"><span>https://doi.org/10.1016/j.cemconres.2021.106499</span></a>) with the abstract "Belite cements (BCs) could be a more sustainable binder than Portland cements (PCs) but adequate knowledge of the hydration features has still to be built. In particular, the mild curing hydration temperature effects have been extensively studied for PCs but not for BCs. This research was triggered by a previous work reporting improved mechanical strengths of BCs at higher curing temperatures. Here, we report the hydration characteristics of a BC at 20, 40 and 60ºC and compared to those of a typical PC. We have corroborated previous findings and used a multi-technique approach including Rietveld phase analysis, thermal analysis, calorimetry, silicon MAS-NMR, mercury intrusion porosimetry and chiefly synchrotron X-ray microtomography, to thoroughly understand the different behavior. In a nutshell, the improved mechanical performances at mild curing temperatures for BCs are due to a much larger belite degree of reaction without a significant porosity coarsening."</p>
Data sets comparing Ca(2+) dynamics in whole-cell and β-escin-based perforated patch clamp recordings in adult mouse brain slices.
<p># Hess-et-al-beta-escin-2020<br> Data of the "Data in Brief" article concerning the added buffer approach with beta-escin perforated patch.</p> <p>A joint work by: Simon Hess (`simon.hess@uni-koeln.de`), Christophe Pouzat (`christophe.pouzat@math.unistra.fr`), and Peter Kloppenburg (`peter.kloppenburg@uni-koeln.de`).</p> <p>## Content</p> <p>This repository contains:</p> <p>- Directory `data_whole_cell` contains the experimental data in [HDF5](https://en.wikipedia.org/wiki/Hierarchical_Data_Format) format. The data contains recordings of _Substantia nigra_ dopaminergic neurons recorded in the whole-cell configuration.<br> - Directory `data_beta_escin` contains the experimental data in [HDF5](https://en.wikipedia.org/wiki/Hierarchical_Data_Format) format. The data contains recordings of _Substantia nigra_ dopaminergic neurons recorded in the β-escin perforated patch clamp configuration.</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.