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.
222
datasets available to search
ShareScore release 0.7.1
Dataset results
222 results for “co-occurrence”
Co-occurrence of in-stream nitrogen fixation and denitrification across a nitrogen gradient in a western U.S. watershed, 2015 - 2016
This data was collected as part of the NSF CAREER Grant DEB 14-51919 to Amy Marcarelli to evaluate if nitrogen fixation and denitrification co-occur in streams across a gradient of nitrate concentrations. This data was collected during summer 2015 and 2016 in the Portneuf River watershed near Pocatello, ID. In summer 2015, rates of nitrogen fixation were only measured on rock substrate and denitrification only on sediment substrate. In summer 2016, both process rates were measured on both rock and sediment substrate to more accurately capture variation in rates.
The co-occurrence of MHW characteristics and in situ sampling from CCE-CalCOFI Augmented Cruises in the California Current System,1983~2021
The intensity and duration of each MHW event and the anomalies of in situ nitracline and plankton abundance in the Southern California Current System (the region south of line 76.7; 29-36°N, 117-125°W) were calculated. In situ data are available from ~quarterly CalCOFI cruises. Data collected from 1983 onward were utilized, including nitrate, picoplankton and bacteria abundance, size-fractionated Chla concentration, vertically-integrated Chla, vertically-integrated primary production, phytoplankton taxon-specific pigments from High-Performance Liquid-Chromatography (HPLC) analysis, zooplankton displacement volume (ZDV), zooplankton taxon-specific abundance, and fish egg and larvae abundance.
The co-occurrence of MHW characteristics and satellite-observed Chlorophyll concentration in the California Current System,1996~2020
The characteristics of each MHW event and the most negative anomalies of satellite-observed Chlorophyll concentration in each MHW event in the Southern California Current System (30-35.5°N, 117-125 °W) were calculated.
Co-occurrences of trending keywords in popular tech media (01.2016-02.2020)
<p><strong>Sources with weights</strong></p> <pre> Arstechnica: 1/8, Euractiv: 1/8, Fastcompany: 1/8, The Register: 1/8, Techcrunch: 1/8, The Guardian: 1/8, Venturebeat: 1/8, The Verge: 1/8</pre> <p><strong>Methodology</strong></p> <ul> <li>Exploring the relationship between topics</li> <li>Pairs of terms which are mentioned together in media articles</li> <li>Most trending social issues and technologies have been selected (e.g. 'gdpr', '5G')</li> <li>The co-occurrence analysis is calculated for pairs consisting of emerging social issues and trending uni/bigrams</li> <li>The number of times the terms appear in articles together with a social issue is divided by the number of times the social issue is mentioned across all articles</li> <li>A single index is constructed for all word pairs by weighted average (taking into account the prevalence of the given source)</li> </ul>
Exploring archaeal and bacterial diversity and co-occurrence in Lake Geneva
<p>Fastq files, OTU tables, tags list.</p>
Soil depth matters: Shift in composition and inter-kingdom co-occurrence patterns of microorganisms in forest soils
<p>Soil depth represents a strong physiochemical gradient that greatly affects soil-dwelling microorganisms. Fungal communities are typically structured by soil depth, but how other microorganisms are structured is less known. Here, we tested whether depth-dependent variation in soil chemistry affects the distribution and co-occurrence patterns of soil microbial communities. This was investigated by DNA metabarcoding in conjunction with network analyses of bacteria, fungi, as well as other micro-eukaryotes, sampled in four different soil depths in Norwegian birch forests. Strong compositional turnover in microbial assemblages with soil depth was detected for all organismal groups. Significantly greater microbial diversity and fungal biomass appeared in the nutrient-rich organic layer, with sharp decrease towards the less nutrient-rich mineral zones. The proportions of copiotrophic bacteria, Arthropoda and Apicomplexa were markedly higher in the organic layer, while patterns were opposite for oligotrophic bacteria, Cercozoa, Ascomycota and ectomycorrhizal fungi. Network analyses indicated more intensive inter-kingdom co-occurrence patterns in the upper mineral layer (0-5 cm) compared to the above organic and the lower mineral soil, signifying substantial influence of soil depth on biotic interactions. This study supports the view that different microbial groups are adapted to different forest soil strata, with varying level of interactions along the depth gradient.</p>
Data from: Co-occurrence among three divergent plant-castrating fungi in the same silene host species
The competitive exclusion principle postulates that different species can only coexist in sympatry if they occupy distinct ecological niches. The goal of this study was to understand the geographical distribution of three species of Microbotryum anther-smut fungi that are distantly related but infect the same host plants, the sister species Silene vulgaris and S. uniflora, in western Europe. We used microsatellite markers to investigate pathogen distribution in relation to host specialization and ecological factors. Microbotryum violaceo-irregulare was only found on S. vulgaris at high elevations in the Alps. Microbotryum lagerheimii could be subdivided into two genetically differentiated clusters, one on S. uniflora in the UK and the second on S. vulgaris in the Alps and Pyrenees. The most abundant pathogen species, M. silenes-inflatae, could be subdivided into four genetic clusters, co-occurring in the Alps, the UK and the Pyrenees, and was found on both S. vulgaris and S. uniflora. All three fungal species had high levels of homozygosity, in agreement with the selfing mating system generally observed in anther-smut fungi. The three pathogen species and genetic clusters had large range overlaps, but occurred at sites with different elevations, temperatures and precipitation levels. The three Microbotryum species thus do not appear to be maintained by host specialization or geographic allopatry, but instead may occupy different ecological niches in terms of environmental conditions.
Data from: The role of spore size in the global pattern of co-occurrence among Selaginella species
Aim: Separation of regeneration niches may promote coexistence among closely related plant species, but there is little evidence that regeneration traits affect species ranges at large geographic scales. Here we address patterns of co-occurrence within the genus Selaginella, an ancient lineage of free-sporing, heterosporous, vascular plants. Specifically, we ask whether differences between species in spore size are associated with the extent of overlap in their geographic ranges, a measure of opportunity for ecological interaction. Taxon: Selaginella (Selaginellaceae: Lycopodiales) Methods: We used quantile regression to examine the relationship of spore size ratios (pairwise ratios for megaspores and microspores of co-occurring species) to the area of range overlap and to latitude for a worldwide sample of 112 Selaginella species. Phylogenetically informed tests of statistical significance were used for each percentile relationship examined in the quantile regressions. Results: Large pairwise disparities in megaspore sizes were significantly associated with large range overlap. Disparities also tended to be larger at low latitudes. Microspore size differences, in contrast, were unrelated to shared range area or latitude. Main conclusion: Megaspore size appears to affect coexistence at a broad regional scale among Selaginella species, in at least some cases. The pattern is consistent with some degree of competitive structuring of size-related aspects of dispersal and establishment of propagules among some co-occurring species. Habitat complexity, such as open microsites within otherwise closed and shaded vegetation, seems likely to promote reproductive niche separation and may account for the latitudinal structure in Selaginella spore sizes.
Data from: A trait-based framework for discerning drivers of species co-occurrence across heterogeneous landscapes
Null model analysis of species co-occurrence patterns has long been used to gain insight into community assembly but is often limited to identifying non-random patterns without providing clarity about underlying ecological mechanisms. This challenge is especially apparent when sampling units are spread across a heterogeneous landscape or along an environmental gradient because multiple mechanisms can produce similar co-occurrence patterns. We developed a trait-based approach for discriminating between environmental filtering and biotic interactions as the probable driver of co-occurrence patterns across environmentally heterogeneous sites. We demonstrate our framework by analyzing the co-occurrence of small mammals over elevation in three independent mountain ranges in the Great Basin of the western United States. Our sampling design accounts for landscape scale environmental variability and within-site habitat heterogeneity. We identified 52 non-random species pairs, of which 36 were aggregated and 16 were segregated. For each pair, we determined which mechanism was the likely ecological explanation using a hypothesis-testing framework based on functional trait similarity. Expectations of biotic interactions were based on similarity of diet and body size whereas habitat affinity and geographic range were used for environmental filtering. Only four pairs were consistent with expectations under biotic interactions, including pairs for which competitive exclusion has previously been documented. In addition to analyzing individual pairs, we used binomial tests of observed versus expected totals of intra- and inter-guild pairs to determine assemblage-wide deviations from random community structure. Signatures of environmental filtering were consistent across mountain ranges and scales. Despite differences in species composition and significant pairs among data sets, our approach revealed consistent mechanistic conclusions, emphasizing the value of trait-based methods to co-occurrence and community assembly.
Identifying Spatial Co-occurrence in Healthy and InflAmed tissues (ISCHIA)
<p>Integrated IBD scRNASeq reference: Seurat object and cell type markers. </p><p>Molecular Cartography (Resolve) data data of human colon samples. 6 ulcerative colitis colon resections: 3 inflamed, 3 non-inflamed areas (4 patients in total). Segmented object (Seurat), and imaging data used for figures: B2-1 and C1-2 (healthy samples), C2-1 and C1-4 (inflamed samples) </p><p>Visium (10X) spatial transcriptomics data of human colon samples. 4 ulcerative colitis colon resections: 2 inflamed, 2 non-inflamed areas (3 patients in total). </p><p>Supplementary Table 1: positively co-occurring ligands and receptors in composition class 5.</p><p> </p><p> </p>
Data from: To lose is to win: long-term co-occurrence of two asexual populations realized by a dormant strategy of the inferior competitor
<p><span>Asexual organisms are ubiquitous. While they are the same single species with the same ecological requirements, multiple asexual genotypes within a species are often found in a single habitat. Niche partitioning in time and space among genotypes has been proposed to explain this phenomenon. However, it is not clear whether these different genotypes co-occur in the long term. </span><span>Therefore, we examined the population dynamics of two asexual <em>Daphnia</em> cf. <em>pulex</em> genotypes (JPN1 and JPN2) over nine years in a small mountain lake. These two genotypes consistently occurred in the same seasons and layers, suggesting that niche partitioning cannot explain their long-term co-occurrence. The abundance of JPN1 was typically higher in most years. However, the abundance of dormant eggs in lake sediments was at the same level between the genotypes. </span><span>The laboratory experiment showed that JPN1 excluded JPN2. However, many JPN2 individuals produced the dormant eggs before JPN1 competitively excluded them from the experiment. Furthermore, the competitively inferior JPN2 produced the dormant eggs abundantly in the medium containing a crowding cue from JPN1. However, no such trend was observed for JPN1. </span><span>These results showed that the competitively inferior asexual genotype could maintain the population with the competitively superior genotype for a long period of time because it had the ability to detect the increase in competitors and produce the dormant eggs each year before being competitively eliminated. </span><span>Based on these results, we suggest that the variation in the genotype-specific response in dormant egg production to environmental change plays a key role in t</span><span>he long-term co-occurrence of different asexual genotypes in single habitats.</span></p>
Data from: Trait hierarchies are stronger than trait dissimilarities in structuring spatial co-occurrence patterns of common tree species in a subtropical forest
<p>1. The dissimilarity and hierarchy of trait values that characterize niche and fitness differences, respectively, have been increasingly applied to infer mechanisms driving community assembly and to explain species co-occurrence patterns. Here, we predict that limiting similarity should result in the spatial segregation of functionally similar species, while functionally similar species will be more likely to co-occur either due to environmental filtering or competitive exclusion of inferior competitors (hereafter hierarchical competition).</p> <p>2. We used a fully mapped 50-ha subtropical forest plot in southern China to explore how pairwise spatial associations between saplings and between adult trees were influenced by trait dissimilarity and hierarchy in order to gain insight into assembly mechanisms. We assessed pairwise spatial associations using two summary statistics of spatial point patterns at different spatial scales and compared the effects of trait dissimilarity and trait hierarchy of different functional traits on the interspecific spatial associations. These comparisons allow us to disentangle the effects of limiting similarity, environmental filtering and hierarchical competition on species co-occurrence.</p> <p>3. We found that trait dissimilarity was generally negatively related with interspecific spatial associations for both saplings and adult trees across spatial scales, meaning that species with similar trait values were more likely to co-occur and thus supporting environmental filtering or hierarchical competition. We further found that trait hierarchy outweighed trait dissimilarity in structuring pairwise spatial associations, suggesting that hierarchical competition played a more important role in structuring our forest community than environmental filtering across life stages.</p> <p>4. This study employed a novel method, by offering the integration of pairwise spatial association and trait dissimilarity as well as trait hierarchy, to disentangle the relative importance of multiple assembly mechanisms in structuring co-occurrence patterns, especially the mechanisms of environmental filtering and hierarchical competition, which lead to indistinguishable co-occurrence patterns. This study also reinforced the importance of trait hierarchy rather than trait dissimilarity in driving neighborhood competition.</p>
Co-occurrence of antimicrobials and metals in swine manure as potential drivers of antimicrobial resistance in the environment
<p>In many regions of the United States (US) and other countries, animal manures are often agronomically applied to cropland to recycle nutrients. However, aggregated manure wastes commonly contain contaminants including veterinary antimicrobials, heavy metals, and antimicrobial resistance genes (ARGs) that can stimulate the development and proliferation of antimicrobial resistance (AMR). While the presence of antimicrobials in manure is well-documented, very little has been reported on the co-occurrence of other chemical stressors in swine manure that may stimulate AMR spread in exposed bacteria. This study quantifies and analyzes correlations between antimicrobials, metals, and certain ARGs present in manure samples from swine farms in Iowa, US. Relationships between contaminants and different stages of swine production or feed composition are also investigated. Results revealed notable levels of tetracyclines (up to 1,260 µg g-1 dry weight (d.w.) of manure for oxytetracycline) detected in all samples. Tiamulin, two ionophores (monensin and lasalocid), and one macrolide (tilmicosin) were detected at maximum class concentrations of 9.4, 0.547, and 0.472 µg g-1 d.w., respectively. The median relative abundances of ErmB and TetM were 0.13 and 0.17 copies g-1 wet weight (w.w.) manure (normalized to 16S gene), respectively. Additionally, high levels of copper (Cu), iron (Fe), and zinc (Zn) were detected in all samples, with maximum concentrations of 887, 1,900, and 2,100 µg g-1 d.w., respectively. Notably, uranium was detected in 11 samples, at concentrations up to 0.77 µg g-1. A global analysis of AMR-stressor relationships using Spearman's rank correlation indicates Cu, and Ba are the most positively and significantly correlated with anhydrotetracycline (ATC) and/or anhydrochlortetracycline (ACTC) concentrations in all tested facilities (Cu-ATC: ρ = 0.67, p = 0.0093; Cu-ACTC: ρ = 0.75, p = 0.0022; Ba-ATC: ρ = 0.84, p = 0.0002). Interestingly, ermB and tetM genes were strongly, positively correlated to each other (ρ=0.92, p= 0.000), suggesting possible co-selection, despite the absence of correlation between ARGs and tetracycline concentrations. This study demonstrates the complexity of interactions between antimicrobials, metals, and ARGs in multiple manure storage pits prior to cropland application.</p>
Response of soil fungal communities and their co-occurrence patterns to grazing exclusion in different grassland types
<p>Overgrazing and climate change are the main causes of grassland degradation, and grazing exclusion is one of the most common measures for restoring degraded grasslands worldwide. Soil fungi can respond rapidly to environmental stresses, but the response of different grassland types to grazing control has not been uniformly determined. Three grassland types (temperate desert, temperate steppe grassland, and mountain meadow) that were closed for grazing exclusion for nine years were used to study the effects of grazing exclusion on soil nutrients as well as fungal community structure in the three grassland types. The results showed that (1) in the 0–5 cm soil layer, grazing exclusion significantly affected the soil water content of the three grassland types (<em>P</em><0.05), and the pH, total phosphorous (TP) and nitrogen-to-phosphorous ratio (N/P) changed significantly in all three grassland types (<em>P</em><0.05). Significant changes in soil nutrients in the 5–10 cm soil layer after grazing exclusion occurred in the mountain meadow grasslands (<em>P</em><0.05), but not in the temperate desert and temperate steppe grasslands. (2) For the different grassland types, Archaeorhizomycetes was most abundant in the montane meadows, and Dothideomycetes was most abundant in the temperate desert grasslands and was significantly more abundant than in the remaining two grassland types (<em>P</em><0.05). Grazing exclusion let to insignificant changes in the dominant soil fungal phyla and in α diversity but significant changes in the β diversity of soil fungi (<em>P</em><0.05). (3) Grazing exclusion areas have higher mean clustering coefficients and modularity classes than grazing areas. In particular, the highest modularity class is found in temperate steppe grassland grazing exclusion areas. (4) We also found that pH is the main driving factor affecting soil fungal community structure, that plant coverage is a key environmental factor affecting soil community composition, and that grazing exclusion indirectly affects soil fungal communities by affecting soil nutrients. The above results suggest that grazing exclusion may regulate microbial ecological processes by changing the soil fungal β diversity in the three grassland types. Grazing exclusion is not conducive to the recovery of soil nutrients in areas with mountain meadow but improves the stability of soil fungi in temperate steppe grassland. Therefore, the type of degraded grassland should be considered when formulating suitable restoration programmes when grazing exclusion measures are implemented. The results of this study provide new insights into the response of soil fungal communities to grazing exclusion, providing a theoretical basis for the management of degraded grassland restoration.</p>
Sentiment analysis of tech media articles using VADER package and co-occurrence analysis (01.2016-04.2019)
<p>Sentiment analysis of tech media articles using VADER package and co-occurrence analysis</p> <p><strong>Sources with weights:</strong></p> <ul> <li>Euractiv 5%</li> <li>The Conversation 5%</li> <li>Politico Europe 5 %</li> <li>IEEE Spectrum 5 %</li> <li>Techforge 5%</li> <li>Fastcompany 5%</li> <li>The Guardian (Tech) 12%</li> <li>Arstechnica 5%</li> <li>Reuters 5%</li> <li>Gizmodo 9%</li> <li>ZDNet 9%</li> <li>The Register 12%</li> <li>The Verge 9%</li> <li>TechCrunch 9%</li> </ul> <p><strong>Methodology</strong></p> <p>The sentiment analysis has been prepared using VADER*, an open-source lexicon and rule-based sentiment analysis tool. VADER is specifically designed for social media analysis, but can be also applied for other text sources. The sentiment lexicon was compiled using various sources (other sentiment data sets, Twitter etc.) and was validated by human input. The advantage of VADER is that the rule-based engine includes word-order sensitive relations and degree modifiers.</p> <p>As VADER is more robust in the case of shorter social media texts, the analysed articles have been divided into paragraphs. The analysis have been carried out for the social issues presented in the co-occurrence exercise.</p> <p>The process included the following main steps:</p> <ul> <li>The 100 most frequently co-occurring terms are identified for every social issue (using the co-occurrence methodology)</li> <li>The articles containing the given social issue and co-occurring term are identified</li> <li>The identified articles are divided into paragraphs</li> <li>Social issue and co-occurring words are removed from the paragraph</li> <li>The VADER sentiment analysis is carried out for every identified and modified paragraph</li> <li>The average for the given word pair is calculated for the final result</li> </ul> <p>Therefore, the procedure has been repeated for 100 words for all identified social issues.</p> <p>The sentiment analysis resulted in a compound score for every paragraph. The score is calculated from the sum of the valence scores of each word in the paragraph, and normalised between the values -1 (most extreme negative) and +1 (most extreme positive). Finally, the average is calculated from the paragraph results. Removal of terms is meant to exclude sentiment of the co-occurring word itself, because the word may be misleading, e.g. when some technologies or companies attempt to solve a negative issue. The neighbourhood's scores would be positive, but the negative term would bring the paragraph's score down.</p> <p>The presented tables include the most extreme co-occurring terms for the analysed social issue. The examples are chosen from the list of words with 30 most positive and 30 most negative sentiment. The presented graphs show the evolution of sentiments for social issues. The analysed paragraphs are selected the following way:</p> <ul> <li>The articles containing the given social issue are identified</li> <li>The paragraphs containing the social issue are selected for sentiment analysis</li> </ul> <p>*Hutto, C.J. & Gilbert, E.E. (2014). VADER: A Parsimonious Rule-based Model for Sentiment Analysis of Social Media Text. Eighth International Conference on Weblogs and Social Media (ICWSM-14). Ann Arbor, MI, June 2014.</p>
Data for PM2.5/Ozone co-occurrence paper
<p>This repository contains supporting data for the manuscript titled "Increasing co-occurrence of fine particulate matter and ozone extremes in the western United States" by Kalashnikov et al. (2021). Please contact me with any questions at dmitri.kalashnikov@wsu.edu. -Dmitri</p>
Data for "Resource use divergence facilitates the evolution of secondary syntopy in a continental radiation of songbirds (Meliphagoidea): insights from unbiased co-occurrence analyses"
<p>These two files contain data needed to replicate analyses in the associated article.</p> <p>AUTHOR of data files: Vladimir Remes<br> CONTACT: vlad.remes/at/gmail,com<br> AUTHORS of the article: V. Remes, L. Harmackova<br> DATE CREATED: 8 November 2022<br> ARTICLE: published in Ecography</p> <p> </p> <p>The file named "data_syntopy.xlsx" has two sheets:<br> "data": contains the data<br> "legend": contains explanations of data columns</p> <p>The file was saved in MS Excel for Mac 16.65.</p> <p><br> The file named "tree_Mel.tre" is the phylogenetic tree in the parenthetic format used for the analyses. It has been pruned from the tree published by Marki et al. (2017) Mol Phyl Evol 107, 516–529. It was saved using the write.nexus function from the "ape" package for R software.</p>
Predator-prey co-occurrence in harvest blocks
<p>Forest harvesting alters habitat, impacts wildlife, and disrupts ecosystem function. Across the boreal forest of Canada, forest harvesting affects ungulate prey species and their predators, with cascading impacts on other species, including threatened woodland caribou. We used camera and vegetation data and occupancy modeling to investigate what characteristics in and around forestry harvest blocks influenced the occupancy and co‐occurrence of primary prey (elk, moose, mule deer, white‐tailed deer) and predators (black bear, cougar, grizzly bear, wolf) in harvest blocks. Occupancy was linked to forage, the surrounding habitat and anthropogenic disturbance, and silviculture practices. Black and grizzly bear occupancy was influenced by the presence of deer, and bear–deer co‐occurrence was influenced by site‐specific silviculture practices and surrounding anthropogenic disturbance. In the context of caribou recovery, our results indicate that forestry within caribou ranges could consider site‐specific silviculture practices and landscape‐level planning to reduce use of harvest blocks by primary prey. Future caribou recovery efforts may also consider the roles of deer and bears in caribou predation risk. Our study provides the first insights into the impacts of forestry and silviculture on boreal forest predator–prey co‐occurrence and provides practical management applications to mitigate the impacts of anthropogenic activities on the boreal forest ecosystem into the future.</p>
Data for: Predator co-occurrence in alpine and Arctic tundra in relation to fluctuating prey
<p>Large carnivores influence ecosystem dynamics in multiple ways, e.g. by suppressing meso-carnivores and providing carrions for smaller scavengers. Loss of large carnivores is suggested to cause meso-carnivore increase and expansion. Moreover, competition between meso-carnivores may be modified by the presence of larger carnivores. In tundra ecosystems, the smallest meso-carnivore, the Arctic fox, has experienced regional declines, whereas its larger and competitively superior congener, the red fox, has increased, potentially due to changes in the abundance of apex predators. We explored if variation in occurrence of wolverine and golden eagle impacted the occurrence and co-occurrence of Arctic fox and red fox in relation to varying abundances of small rodents within the Scandinavian tundra. We applied multi-species occupancy models to an extensive wildlife camera dataset from 2011-2020 covering 98 sites. Daily detection/non-detection of each species per camera trap site and study period (late winter; March-May) was stacked across years and species occupancy was related to small rodent abundance while accounting for time of year and status of simulated carcass. Arctic fox was more likely to co-occur with red fox when wolverine was present, and less likely to co-occur with red fox when golden eagles were present and wolverine absent. Red foxes increased in occupancy when co-occurring with the larger predators. Arctic fox responded more strongly to small rodent abundance than red fox and co-occurred more often with the other species at carcasses when rodent abundance was low. Our findings suggest that the interspecific interactions within this tundra predator guild appear to be surprisingly intricate, driven by facets of fear of predation, interspecific mediation and facilitation, and food resource dynamics. These dynamics of intraguild interactions may dictate where and when conservation actions targeted towards the Arctic fox should be implemented.</p>
Grey Level Co-Occurrence Matrix and Learning Algorithms to Quantify and Classify Use-Wear on Experimental Flint Tools
<p>These are the images and the grey levels co-occurence matrix analysis results from my experimental dataset</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.