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3,655 results for “Structural data”
Data from: Phylogenetic tree shape and the structure of mutualistic networks
Species community composition is known to alter the network of interactions between two trophic levels, potentially affecting its functioning (e.g. plant pollination success) and the stability of communities. Phylogenies vary in shape with regard to the rate of evolutionary change across a tree (influencing tree balance) and variation in the timing of branching events (affecting the distribution of node ages in trees), both of which may influence the structure of species interaction networks. Because related species are likely to share many of the traits that regulate interactions, the shape of phylogenetic trees may provide some insights into the distribution of traits within communities, and hence the likelihood of interaction among species. However, little attention has been paid to the potential effects of changes in phylogenetic diversity (PD) on interaction networks. Phylogenetic diversity is influenced by species diversity within a community, but also how distantly-related the constituent species are from one another. Here, we evaluate the relationship between two important measures of phylogenetic diversity (tree shape and age of nodes) and the structure of plant-pollinator interaction networks using empirical and simulated data. Whereas the former allows us to evaluate patterns in real communities, the latter allows us to evaluate more systematically the relationship between tree shape and network structure under three different models of trait evolution. In empirical networks, less balanced plant phylogenies were associated with lower connectance in interaction networks indicating that communities with the descendants of recent radiations are more diverged and specialized in their partnerships. In simulations, tree balance and the distribution of nodes through time were included in the best models for modularity, and the second best models for connectance and nestedness. In models assuming random evolutionary change through time (i.e., Brownian motion), less balanced trees and trees with nodes near the tips exhibited greater modularity, whereas in models with an early burst of radiation followed by relative stasis (i.e. early-burst models) more balanced trees and trees with nodes near roots had greater modularity. Synthesis: Overall, these results suggest that the shape of phylogenies can influence the structure of plant-pollinator interaction networks. However, the mismatch between simulations and empirical data indicate that no simple model of trait evolution mimics that observed in real communities.
Data from: Secondary structure models of 18S and 28S rRNAs of the true bugs based on complete rDNA sequences of Eurydema maracandica Oshanin, 1871 (Heteroptera: Pentatomidae)
The sequences of 18S and 28S rDNAs have been used as molecular markers to resolve phylogenetic relationships of Heteroptera for two decades. The complete sequences of 18S rDNAs have been used in many studies, while in most studies only partial sequences of 28S rDNAs have been used due to technical difficulties of amplifying the complete lengths. In this study, we amplified the complete 18S and 28S rDNA sequences of Eurydema maracandica Oshanin, 1871, and reconstructed the secondary structure models of the corresponding rRNAs. In addition, and more importantly, all of the length variable regions of 18S rRNA were compared among 37 families of Heteroptera based on 140 sequences, and the D3 region of 28S rRNA was compared among 51 families based on 84 sequences. It was found that 8 length variable regions could potentially serve as molecular synapomorphies for some monophyletic groups. Therefore discoveries of more molecular synapomorphies for specific clades can be anticipated from amplification of complete 18S and 28S rDNAs of more representatives of Heteroptera.
Data from: The making of winners (and losers): how early dominance interactions determine adult social structure in a clonal fish
Across a wide range of animal taxa, winners of previous fights are more likely to keep winning future contests, just as losers are more likely to keep losing. At present, such winner and loser effects are considered to be fairly transient. However, repeated experiences with winning and/or losing might increase the persistence of these effects generating long-lasting consequences for social structure. To test this, we exposed genetically identical individuals of a clonal fish, the Amazon molly (Poecilia formosa), to repeated winning and/or losing dominance interactions during the first two months of their life. We subsequently investigated whether these experiences affected the fish's ability to achieve dominance in a hierarchy five months later during adulthood. Individuals that had only winning interactions early in life consistently ranked at the top of the hierarchy. Interestingly, individuals with only losing experience tended to achieve the middle dominance rank, whereas individuals with both winning and losing experiences generally ended up at the bottom of the hierarchy. In addition to demonstrating that early social interactions can have dramatic and long-lasting consequences for adult social behaviour and social structure, our work also shows that higher cumulative winning experience early in life can counter-intuitively give rise to lower social rank later in life.
Data from: Biofilm morphotypes and population structure among Staphylococcus epidermidis from commensal and clinical samples
Bacterial species comprise related genotypes that can display divergent phenotypes with important clinical implications. Staphylococcus epidermidis is a common cause of nosocomial infections and, critical to its pathogenesis, is its ability to adhere and form biofilms on surfaces, thereby moderating the effect of the host's immune response and antibiotics. Commensal S. epidermidis populations are thought to differ from those associated with disease in factors involved in adhesion and biofilm accumulation. We quantified the differences in biofilm formation in 98 S. epidermidis isolates from various sources, and investigated population structure based on ribosomal multilocus typing (rMLST) and the presence/absence of genes involved in adhesion and biofilm formation. All isolates were able to adhere and form biofilms in in vitro growth assays and confocal microscopy allowed classification into 5 biofilm morphotypes based on their thickness, biovolume and roughness. Phylogenetic reconstruction grouped isolates into three separate clades, with the isolates in the main disease associated clade displaying diversity in morphotype. Of the biofilm morphology characteristics, only biofilm thickness had a significant association with clade distribution. The distribution of some known adhesion-associated genes (aap and sesE) among isolates showed a significant association with the species clonal frame, with the exception of. These data challenge the assumption that biofilm-associated genes, such as those on the ica operon, are genetic markers for less invasive S. epidermidis isolates, and suggest that phenotypic characteristics, such as adhesion and biofilm formation, are not fixed by clonal descent but are influenced by the presence of various genes that are mobile among lineages.
Data from: Spatial structure of ecological opportunity drives adaptation in a bacterium
Abundant ecological opportunity is thought to drive adaptation and diversification. The presence of multiple opportunities leads to divergent selection, which can slow adaptation when niche-specific beneficial mutations have antagonistically pleiotropic effects. Alternately, competition for multiple opportunities can generate divergent selection leading to high rates of adaptive differentiation. Which outcome occurs may depend on the spatial structure of those ecological opportunities. In a mixture of resources, competition for multiple opportunities can drive divergent selection; however if each resource is available in a spatially distinct patch, competition for multiple opportunities simultaneously cannot occur. We report the effects of extent and spatial structure of ecological opportunity on the evolutionary dynamics of populations of Pseudomonas fluorescens over 1000 generations. We varied extent of ecological opportunity by varying the number of sugar resources (mannose, glucose, and xylose), and varied spatial structure by providing resources in either mixtures, or spatially distinct patches. We saw that a particularly novel resource (xylose) drove the rate of adaptation when in a mixture but had no effect on diversity. Instead we saw the evolution of a single adaptive strategy that differed with respect to phenotype and degree of specialization, depending on both the extent and spatial structure of ecological opportunity.
Data from: Thermal evolution of the crystal structure and phase transitions of KNbO3
The thermal evolution of the crystal structure and phase transitions of KNbO3 were investigated by high-temperature powder X-ray diffraction and Rietveld refinement of the diffraction data. Two phase transitions from orthorhombic (Amm2) to tetragonal (P4mm) and from tetragonal to cubic (Pm3 ̅m) were confirmed, both on heating and cooling. Both phase transtions are first order based on the observed hysteresis. The mixed displacive and order-disorder nature of the tetragonal to cubic transition is argued based on symmetry and apparent divergence of the atomic positions from pseudo-cubic values. The transition between the orthorhombic and tetragonal phase show no temperature-dependence for atomic positions and only thermal expansion of the unit cell parameters and is thus discussed in relation to a lattice dynamical instability.
Data from: Analysis of genome-wide structure, diversity and fine mapping of Mendelian traits in traditional and village chickens
Extensive phenotypic variation is a common feature among village chickens found throughout much of the developing world, and in traditional chicken breeds that have been artificially selected for traits such as plumage variety. We present here an assessment of traditional and village chicken populations, for fine mapping of Mendelian traits using genome-wide single-nucleotide polymorphism (SNP) genotyping while providing information on their genetic structure and diversity. Bayesian clustering analysis reveals two main genetic backgrounds in traditional breeds, Kenyan, Ethiopian and Chilean village chickens. Analysis of linkage disequilibrium (LD) reveals useful LD (r2greater than or equal to0.3) in both traditional and village chickens at pairwise marker distances of ~10 Kb; while haplotype block analysis indicates a median block size of 11–12 Kb. Association mapping yielded refined mapping intervals for duplex comb (Gga 2:38.55–38.89 Mb) and rose comb (Gga 7:18.41–22.09 Mb) phenotypes in traditional breeds. Combined mapping information from traditional breeds and Chilean village chicken allows the oocyan phenotype to be fine mapped to two small regions (Gga 1:67.25–67.28 Mb, Gga 1:67.28–67.32 Mb) totalling ~75 Kb. Mapping the unmapped earlobe pigmentation phenotype supports previous findings that the trait is sex-linked and polygenic. A critical assessment of the number of SNPs required to map simple traits indicate that between 90 and 110K SNPs are required for full genome-wide analysis of haplotype block structure/ancestry, and for association mapping in both traditional and village chickens. Our results demonstrate the importance and uniqueness of phenotypic diversity and genetic structure of traditional chicken breeds for fine-scale mapping of Mendelian traits in the species, with village chicken populations providing further opportunities to enhance mapping resolutions.
Data from: Comparison of social structures within cities of very different sizes
People make a city, making each city as unique as the combination of its inhabitants. However, some cities are similar and some cities are inimitable. We examine the social structure of 10 different cities using Twitter data. Each city is decomposed to its communities. We show that in many cases one city can be thought of as an amalgamation of communities from another city. For example, we find the social network of Manchester is very similar to the social network of a virtual city of the same size, where the virtual city is composed of communities from the Bristol network. However, we cannot create Bristol from Manchester since Bristol contains communities with a social structure that are not present in Manchester. Some cities, such as Leeds, are outliers. That is, Leeds contains a particularly wide range of communities, meaning we cannot build a similar city from communities outside of Leeds. Comparing communities from different cities, and building virtual cities that are comparable to real cities, is a novel approach to understand social networks. This has implications when using social media to inform or advise residents of a city.
Data from: Knowledge-based prediction of protein backbone conformation using a structural alphabet
Libraries of structural prototypes that abstract protein local structures are known as structural alphabets and have proven to be very useful in various aspects of protein structure analyses and predictions. One such library, Protein Blocks, is composed of 16 standard 5-residues long structural prototypes. This form of analyzing proteins involves drafting its structure as a string of Protein Blocks. Predicting the local structure of a protein in terms of protein blocks is the general objective of this work. A new approach, PB-kPRED is proposed towards this aim. It involves (i) organizing the structural knowledge in the form of a database of pentapeptide fragments extracted from all protein structures in the PDB and (ii) applying a knowledge-based algorithm that does not rely on any secondary structure predictions and/or sequence alignment profiles, to scan this database and predict most probable backbone conformations for the protein local structures. Though PB-kPRED uses the structural information from homologues in preference, if available. The predictions were evaluated rigorously on 15,544 query proteins representing a non-redundant subset of the PDB filtered at 30% sequence identity cut-off. We have shown that the kPRED method was able to achieve mean accuracies ranging from 40.8% to 66.3% depending on the availability of homologues. The impact of the different strategies for scanning the database on the prediction was evaluated and is discussed. Our results highlights the usefulness of the method in the context of proteins without any known structural homologues. A scoring function that gives a good estimate of the accuracy of prediction was further developed. This score estimates very well the accuracy of the algorithm (R2 of 0.82). An online version of the tool is provided freely for non-commercial usage at http://www.bo-protscience.fr/kpred/.
Data from: miR-122, small RNA annealing and sequence mutations alter the predicted structure of the Hepatitis C virus 5′ UTR RNA to stabilize and promote viral RNA accumulation
Annealing of the liver-specific microRNA, miR-122, to the Hepatitis C virus (HCV) 5′ UTR is required for efficient virus replication. By using siRNAs to pressure escape mutations, 30 replication-competent HCV genomes having nucleotide changes in the conserved 5′ untranslated region (UTR) were identified. In silico analysis predicted that miR-122 annealing induces canonical HCV genomic 5′ UTR RNA folding, and mutant 5′ UTR sequences that promoted miR-122-independent HCV replication favored the formation of the canonical RNA structure, even in the absence of miR-122. Additionally, some mutant viruses adapted to use the siRNA as a miR-122-mimic. We further demonstrate that small RNAs that anneal with perfect complementarity to the 5′ UTR stabilize and promote HCV genome accumulation. Thus, HCV genome stabilization and life-cycle promotion does not require the specific annealing pattern demonstrated for miR-122 nor 5′ end annealing or 3′ overhanging nucleotides. Replication promotion by perfect-match siRNAs was observed in Ago2 knockout cells revealing that other Ago isoforms can support HCV replication. At last, we present a model for miR-122 promotion of the HCV life cycle in which miRNA annealing to the 5′ UTR, in conjunction with any Ago isoform, modifies the 5′ UTR structure to stabilize the viral genome and promote HCV RNA accumulation.
Data from: Strong population genetic structure in a broadcast-spawning Antarctic marine invertebrate
Although studies of population genetic structure are commonplace, a strong bias exists towards species from low latitudes and with relatively poor dispersal capabilities. Consequently, we used 280 Amplified Fragment Length Polymorphism (AFLP) bands to explore patterns of genetic differentiation among eight populations of a high latitude broadcast-spawning marine mollusc, the Antarctic limpet Nacella concinna. Over three hundred individuals were sampled along a latitudinal gradient spanning the Antarctic Peninsula from Adelaide Island to King George Island (67º–62º S), then to Signy Island (60ºS) and South Georgia (54ºS). Populations from the Antarctic Peninsula exhibited little genetic structure, but were themselves strongly differentiated from both Signy and South Georgia. This finding was analytically highly robust and implies the presence of significant oceanographic barriers to gene flow in a species long regarded as a classic example of a widely-dispersing broadcast-spawner.
Data from: Multiband semimetallic electronic structure of superconducting Ta2PdSe5
We report the electronic structure and related properties of the superconductor Ta2PdSe5 as determined from density functional calculations. The Fermi surface has two disconnected sheets, both derived from bands of primarily chalcogenide p states. These are a corrugated hole cylinder and a heavier complex shaped electron sheet. The sheets contain 0.048 holes and a compensating number of electrons per formula unit, making the material a semimetallic superconductor. The results support the presence of two band superconductivity, although a discrepancy in the specific heat is noted. This discrepancy is discussed as a possible consequence of Pd deficiency in samples.
Data from: Keeping pace with climate change: stage-structured moving-habitat models
Life cycles can limit the abilities of species to track changing climatic conditions. We combined age or stage structure and a moving-habitat model to explore the effects of life history on the persistence of populations in the presence of climate change. We studied four dissimilar plant species in moving patches and found that (1) population growth rates, (2) elasticities with respect to the survival (stasis and shrinkage) components of the projection matrix, and (3) the evenness of the elasticities with respect to the components of the projection matrix all decreased as we increased the translational speeds of the patches. In addition, the value of long-distance dispersal increased with patch speed for three of the four species. Our analyses confirm that rapid growth, high fecundity, and long-distance dispersal can benefit species in moving patches. Thus, species with long generation times and limited dispersal ability are especially vulnerable to habitat movement. Stage-structured moving-habitat models can easily incorporate spatial complexity and can help us predict the effects of shifting climatic conditions.
USDA PLANTS structured data DwCA
<p>The PLANTS Database, https://plants.usda.gov/ provides standardized information about the vascular plants, mosses, liverworts, hornworts, and lichens of the U.S. and its territories. It includes names, plant symbols, checklists, distributional data, species abstracts, characteristics, images, crop information, automated tools, onward Web links, and references. This information primarily promotes land conservation in the United States and its territories, but academic, educational, and general use is encouraged. PLANTS reduces government spending by minimizing duplication and making information exchange possible across agencies and disciplines. Data published on EOL by the PLANTS database include attribute data, images and descriptive text.</p> <p> </p> <p>History: before this was the 727.tar.gz This is primarily a trait data resource.</p>
Data from: Refining the trophic diversity, ecological network structure, and bottom-up importance of prey groups for temperate reef fishes
<p>The file "Zarco-Perello et al Temperate Reef Fish Trophic Guilds Complete Diet Dataset.xlsx" contains several spreadsheet tabs related to the analyses carried out in the paper: <i><strong>Refining the trophic diversity, ecological network structure, and bottom-up importance of prey groups for temperate reef fishes: </strong></i><a href="https://doi.org/10.32942/X2CC97">https://doi.org/10.32942/X2CC97</a></p><p>All analyses, with the exception of the network calculations, of the study were carried out in the computer software R. The code is contained in the file "Zarco-Perello et al Temperate Reef Fish Trophic Ecology.R". For trophic network analyses we used the computer program Gephi v0.1 <a href="https://sciwheel.com/work/citation?ids=15257446&amp;pre=&amp;suf=&amp;sa=0">(Bastian et al. 2009).</a></p><p><strong>DATASET DESCRIPTION</strong></p><p><strong>Region of Study</strong></p><p>The region of study encompasses all the temperate reefs of south-western Australia (SWA). Extending along ~1600 km of coast, from Jurien Bay Marine Park (30° 18.6 S, 115° 0.1 E) to the Recherche Archipelago Nature Research (33° 53.7 S, 123° 52.3 E; supplementary Fig. S1), the temperate reefs of SWA are distributed across the Leeuwin and Houtman biogeographical ecoregions <a href="https://sciwheel.com/work/citation?ids=1796477&pre=&suf=&sa=0">(Spalding et al. 2007)</a>, conforming approximately ⅓ of the total distribution of temperate Australia, known as the Great Southern Reef <a href="https://sciwheel.com/work/citation?ids=4498783&pre=&suf=&sa=0">(Bennett et al. 2016).</a></p><p><strong>Species Composition</strong></p><p>The species composition of the metacommunity of temperate reef fishes of the region was obtained from a total of 4589 underwater visual surveys conducted across 206 reefs in 12 locations by the Reef Life Survey (RLS) citizen science program, and the Australian Temperate Reef Collaboration (ATRC, with support from the Department of Biodiversity Conservation and Attractions; https://www.atrc.au) from 1997 to 2021.</p><p><strong>Trophic Information</strong></p><p>All fish species listed in the RLS-ATRC database were classified in trophic guilds based on collected diet information from studies of gut content analyses in SWA, or other Australian and international regions in the absence of local information. A total of 298 fish species composed the metacommunity. For every species, we obtained diet information from the scientific literature reported on Fishbase <a href="https://sciwheel.com/work/citation?ids=10423542&pre=&suf=&sa=0">(Froese and Pauly 2019)</a> and through the search engine Scopus using the search terms: TS = (<i>name of species</i>* OR *<i>common name of species</i>*) AND TS = (diet OR *stomach content* OR *gut content* OR consump* OR herbi* OR predat* OR feeding). Diet information consisted of the average proportions of food items represented as the number of items (%N), percent volume (%V), or biomass (%W) in a population of each species. Preference was given to diet studies conducted in the region of study and those presenting biomass proportions. Species that lacked diet information globally were assigned diet proportions based on phylogenetically related species with similar size and habitat preferences based on the Fish Tree of Life <a href="https://sciwheel.com/work/citation?ids=10720381&pre=&suf=&sa=0&dbf=0">(Chang et al. 2019)</a>.</p><p><i><< The tab "Guilds Complete Diet Dataset" contains all the diet information (stomach content proportions) and its sources for all fish species considered in the study >></i></p><p><strong>Trophic guilds classification</strong></p><p>To quantify the diversity of trophic guilds and identify important fish consumers of specific groups of prey, we classified the fish species into trophic guilds performing a multi-step cluster analysis. Firstly, species were grouped into main trophic guilds using the mutually exclusive major categories of prey items. The diet proportions in these categories were used to create a dissimilarity matrix among species based on the Bray-Curtis linkage method using the function <i>vegdist</i> of the R package Vegan <a href="https://sciwheel.com/work/citation?ids=7457489&pre=&suf=&sa=0">(Oksanen et al. 2022)</a>, which was used to run a sequential divisive hierarchical cluster analysis using the function <i>diana</i> (divisive analysis) of the R package Cluster <a href="https://sciwheel.com/work/citation?ids=15165291&pre=&suf=&sa=0">(Maechler et al. 2022)</a>. Subsequently, because there are mismatches in the resolution of diet identification between species belonging to different trophic levels (<i>e.g.</i> the diets of herbivorous fish tend to have higher resolution on macrophytes, while carnivorous species tend to have higher resolution on animal prey), species within each identified main trophic guild were subject to a cluster analysis with higher definition of prey items to identify groups of species with diet specializations using sequential agglomerative hierarchical cluster analysis based on Ward's Method and Bray-Curtis or Euclidean dissimilarity matrix <a href="https://sciwheel.com/work/citation?ids=205080&pre=&suf=&sa=0">(Pineda‑Munoz and Alroy 2014)</a>.</p><p>The stomach content of most scarid species (parrotfish; Labridae: Scarinae) is very difficult to identify due to their pharyngeal mill, which grinds all food items to indiscernible particles. However, they are well identified as a special group that ingest detritus and algae by scraping the reef substrate with their specialized fused teeth. Thus, for the sake of differentiating their trophic guild, the proportions of diet for species of parrotfish was arbitrarily defined based on field observations as sediment and detritus (90%) and short filamentous algae (10%) <a href="https://sciwheel.com/work/citation?ids=11332249&pre=&suf=&sa=0&dbf=0">(Bonaldo et al. 2014)</a>. Additionally, cleaner fish and false cleaners are a special group of fishes that are difficult to group by diet given that they feed on prey that could be identified as zooplankton or zoobenthos, while in fact true cleaners forage, at least in part, on parasitic invertebrates attached to bigger fish, in addition to fish skin and scales <a href="https://sciwheel.com/work/citation?ids=13921938&pre=&suf=&sa=0">(Grutter 1997)</a>; thus, given their particular trophic ecology these labrid and blenny species were arbitrarily grouped in the major trophic group "fish cleaners" for the subsequent specialized trophic group classifications.</p><p>Visual analysis of the differences in multidimensional space between trophic guilds was done with Non-metric Multidimensional Scaling based on the dissimilarity matrix calculated for clustering using the function <i>metaMDS</i> of the R package vegan (reported in supplementary materials; <a href="https://sciwheel.com/work/citation?ids=7457489&pre=&suf=&sa=0">(Oksanen et al. 2022)</a>. Statistical significance in dietary differences among major and specialized trophic guilds (diet proportions ~ trophic guilds) was tested with permutational analysis of variance (PERMANOVA) using the function <i>adonis2 </i>of the R package vegan <a href="https://sciwheel.com/work/citation?ids=7457489&pre=&suf=&sa=0">(Oksanen et al. 2022)</a>, followed by pairwise comparisons using the function <i>pairwise.adonis2</i> of the R package pairwiseAdonis <a href="https://sciwheel.com/work/citation?ids=15190336&pre=&suf=&sa=0">(Martinez 2017)</a>.</p><p><i><< The tabs in the dataset called "Major Guilds Diet Data", "Herbivores Diet Data", "Cleaners Diet Data", "Zoobenthivores Diet Data, "Zooplanktivores Diet Data", and "Piscivores Diet Data" are the datasets with selected diet categories for each guild without "unidentified diet items" and standardized to 100 proportion which were used for the classification of each major trophic guild into specialized trophic guilds. >></i></p><p><strong>Trophic Network Links Between Specialized Guilds</strong></p><p>The trophic links between fishes and their invertebrate and macrophyte prey groups were identified by our trophic guild classification (Other Guilds Links tab in dataset); however, the trophic role of piscivores is faced with what here we called a "matrioshka paradox", because to know their links with other guilds, we must first know the trophic links of their prey. Moreover, this is not straightforward because the highest taxonomic identification of piscivorous prey is usually limited to family level, which could belong to multiple trophic guilds. This paradox is usually not explicitly stated in the literature, and it is unclear how trophic links have been drawn in previous studies without performing detailed quantitative trophic classifications. Here we estimated the trophic links between piscivorous guilds and the rest of fish guilds by (i) assigning each fish family identified in the diets of piscivorous fishes into their respective specialized guilds based in our trophic classification, (ii) pooling their diet proportions into each specialized trophic guilds they could belong to, (iii) standardizing values by number of species in each piscivorous guild, and (iv) dividing by the total sum of diet proportions to estimate their potential predation (0-100%) on other trophic guilds in the trophic network. Trophic links that had pooled diet proportions with values <5% were discarded for clarity of the network (Piscivores Trophic Links tab in dataset). This information was joined with the trophic information from non-piscivorous trophic guilds and formatted as a list of nodes (guilds and prey groups), and links between nodes (source-target) to create the trophic network of the entire temperate reef fish metacommunity (Nodes Network List and Edges Network Lisk tabs in dataset). All network analyses were done using the computer program for network visualization and analyzes Gephi v0.1 <a href="https://sciwheel.com/work/citation?ids=15257446&pre=&suf=&sa=0">(Bastian et al. 2009)</a>.</p><p><i><< The tabs "Piscivores Trophic Links" and "Other Guilds Links" are datasets containing the calculations of the links between specialized trophic links for Piscivores and other guilds respectively used to create the data of the tabs "Nodes Network List" and "Edges Network List" to create the trophic network of the system of study. >></i></p><p><i><< The tab "Herbivory, Omnivory and Carnivory" contains diet proportion data of all fish species of the study formated to build the barplot (Fig. 4) in the manuscript showing the distribution of consumption of macrophytes, invertebrates and fishes >></i></p><p> </p>
A data-and-knowledge driven structure-based molecular generative framework
<p>Dataset for pretraining and finetuning of PocketFlow.</p>
structured illumination micrscopy data to quatify the condensate size
Open the record for dataset details and reuse information.
Data for "Richardson model with complex level structure and spin-orbit coupling for hybrid superconducting islands: Stepwise suppression of pairing and magnetic pinning"
Open the record for dataset details and reuse information.
The raw data needed for benchmarking the use of Foldseek for structure-based domain annotation
<p>For more information refer to:<br>https://github.com/Pooryamb/BenchmarkingFS </p>
Data from: Habitat diversification associated with urban development has a little effect on genetic structure in the annual native plant Commelina communis in an East Asian megacity
<p>Basic statistics for each population and genetic and landscape data between populations.</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.