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.
13,343
datasets available to search
ShareScore release 0.9.0
Dataset results
13,343 results for “Primary”
Data from: Combined analysis of micro RNA and proteomic profiles and interactions in patients with primary lung adenocarcinoma and lung adenocarcinoma brain metastases
<p>We carried out an analysis of miRNAs expression profiles and protein spectrums of non-metastatic primary lung adenocarcinoma (LP) and patients with brain metastases (BM) to better explore the molecular basis of BM. Files containing raw data of miRNA expression and proteomic profiles in the manuscript "Combined analysis of micro RNA and proteomic profiles and interactions in patients with primary lung adenocarcinoma and lung adenocarcinoma brain metastases".</p>
EduRa database: room models based on room acoustic measurements in primary and preschools
<p>This database provides five representative rooms in primary schools and preschools for acoustic simulations. A set of (binaural) room impulse responses (RIRs) simulated using an adult and a child artificial head are included for each room.</p> <p>Room acoustic measurements were carried out in Aachen’s primary schools and preschools, where 8 classrooms, 10 playrooms, 3 gyms, 3 multi-purpose rooms and 3 sports rooms were assessed. The dimensions and room acoustic parameters were then clustered to achieve five representative sceneries. Shoebox models with little furniture were created using the average dimension of each cluster, and room acoustic simulations yielding for the average reverberation time of each cluster were done to obtain the (binaural) RIRs.</p>
OPT data from: A novel cis-regulatory element drives early expression of Nkx3.2 in the gnathostome primary jaw joint
<p><span>The acquisition of movable jaws was a major event during vertebrate evolution. The role of NK3 homeobox 2 (Nkx3.2) transcription factor in patterning the primary jaw joint of gnathostomes (jawed vertebrates) is well known, however, knowledge about its regulatory mechanism is lacking. In this study, we report a proximal enhancer element of <em>Nkx3.2</em> that is deeply conserved in most gnathostomes but undetectable in the jawless hagfish and lamprey. This enhancer is active in the developing jaw joint region of the zebrafish <em>Danio rerio</em>, and was thus designated as <em>jaw joint regulatory sequence 1</em> (JRS1). We further show that JRS1 enhancer sequences from a range of gnathostome species, including a chondrichthyan and mammals, have the same activity in the jaw joint as the native zebrafish enhancer, indicating a high degree of functional conservation despite the divergence of cartilaginous and bony fish lineages or the transition of the primary jaw joint into the middle ear of mammals. Finally, we show that deletion of JRS1 from the zebrafish genome using CRISPR/Cas9 results in a significant reduction of early gene expression of <em>Nkx3.2</em> and leads to transient jaw joint deformation and partial fusion. The emergence of this <em>Nkx3.2 </em>enhancer in early gnathostomes may have contributed to the origin and shaping of the articulating surfaces of vertebrate jaws.</span></p>
Data Set of Publication - Outcome of Scleral Rupture Primary Management Without Vitrectomy Jakarta Eye Trauma Study
<p>This dataset was collected for research purposes. The dataset was about the scleral rupture we found in our teritories</p>
Data from: Emerging experience-dependent dynamics in primary somatosensory cortex reflect behavioral adaptation
<p><span><span>Behavioral experience and flexibility are crucial for survival in a constantly changing environment. Despite evolutionary pressures to develop adaptive behavioral strategies in a dynamically changing sensory landscape, the underlying neural correlates have not been well explored. Here, we use genetically encoded voltage imaging to measure signals in primary somatosensory cortex (S1) during sensory learning and behavioral adaptation in the mouse. In response to changing stimulus statistics, mice adopt a strategy that modifies their detection behavior in a context dependent manner as to maintain reward expectation. Surprisingly, neuronal activity in S1 shifts from simply representing stimulus properties to transducing signals necessary for adaptive behavior in an experience dependent manner. Our results suggest that neuronal signals in S1 are part of an adaptive framework that facilitates flexible behavior as individuals gain experience, which could be part of a general scheme that dynamically distributes the neural correlates of behavior during learning. </span></span></p>
Ipsilateral stimulus encoding in primary and secondary somatosensory cortex of awake mice
<p>Data and code to accompany "Ipsilateral stimulus encoding in primary and secondary somatosensory cortex of awake mice" by Pala and Stanley, in press, Journal of Neuroscience, 2022.</p>
LC-MS raw data for proteomic elucidation of the targets and primary functions of picornavirus 2A protease
<p>This dataset contains LC-MS raw data for pulldowns from the project "Proteomic elucidation of the targets and primary functions of picornavirus 2A protease." The descriptions of the raw data files are in Summary_Table_MS_RawData.pdf.</p>
Effect of heterogeneous substrate adhesivity of follower cells on speed and tension profile of leader cells in primary keratocyte collective cell migration
<p><span>In single keratocyte motility, membrane tension is reported to be high at cell-fronts and believed to establish front coherence. To understand role of membrane mechanics in collective cell migration, we study membrane height fluctuations in cell sheets from fish scales using interference reflection microscopy (IRM). We report the monolayer to have cells lacking substrate adhesion and show that such "non-sticky" cells can form bridges between leader cells and far-away follower cells. Do such interactions alter motility and membrane mechanics in such leaders? We find non-significant, but reduced speed for leaders with "non-sticky" followers in comparison to other leaders. Cells show high phenotypic variability in their membrane fluctuation tension profiles. On average, this tension is found to be lower at cell fronts than the mid-section. However, leaders with non-sticky followers are more prone to display higher tension at their front and have a negative correlation between cell speed and front-mid tension difference. We, thus, conclude that intracellular tension gradients are heterogeneous in cell sheets and substrate adhesivity of followers can control the coupling of the gradient to cell speed.</span></p>
dataset related to article "EXPANDING THE GENETIC SPECTRUM OF PRIMARY FAMILIAL BRAIN CALCIFICATION DUE TO SLC2OA2 MUTATIONS: A CASE SERIES"
<p>Sanger sequences (.abi files) of all patients of our Fondazione Besta Cohort.</p>
Data tables for primary and secondary datasets
<p>These tables contain select information used to create Fig. 1 in arxiv: <a href="https://arxiv.org/abs/2102.01079">2102.01079</a>.</p> <p>PRIMARY.csv contains information for pairs of stars in the primary data set. SECONDARY.csv contains information for pairs of stars in the secondary data set.</p>
Long-term resilience of primary sex ratios in a species with temperature dependent sex determination after decades of climate warming
<p><span>Species with environmental sex determination (ESD) have persisted through deep time, despite massive environmental perturbation in the geological record. Understanding how species with temperature-dependent sex determination (TSD), a type of ESD, persist through climate change is particularly timely given the current climate crisis, as highly biased sex ratios and extinction are predicted. Since 1982, we have studied primary sex ratios of a reptile with TSD (<em>Chelydra serpentina</em></span><span>). Primary sex ratios remained unchanged over time, despite warming in the environment. Resilience of the primary sex ratio occurred via a portfolio effect, realized through remarkable intra-annual variation in nest-level sex ratios, leading to a relatively consistent mean annual sex ratio. Intra-annual variation in nest-level sex ratios was related to variation in egg burial depth coupled with large clutch sizes, creating thermal gradients in the nest, and promoting mixed-sex clutches. Further, both locally and globally, sustained increases in nighttime air temperature contribute more to warming than increases in daily maximum temperature, but development rate was affected more strongly by maximum daily air temperature, conferring additional resilience to overall warming. Our study suggests that some TSD species may be resilient to warming and provides an example of how ESD may persist under environmental change.</span><span><br></span></p>
reference image data (primary views) for an office building near LAX
<p>image data compressed by view and season (months 1-2-3, 4-5-6, 7-8-9, 10-11-12)</p> <p>see 10.5281/zenodo.6322418 for source files</p>
A global 0.05° dataset for gross primary production of sunlit and shaded vegetation canopies (1992–2020)
<p>Distinguishing gross primary production of sunlit and shaded leaves (GPP<sub>sun</sub> and GPP<sub>shade</sub>) is crucial for improving our understanding of the underlying mechanisms regulating long-term GPP variations. Here we produce a global 0.05°, 8-day dataset for GPP, GPP<sub>shade</sub> and GPP<sub>sun</sub> over 1992-2020 using an updated two-leaf light use efficiency model (TL-LUE), which is driven by the GLOBMAP leaf area index, CRUJRA meteorology, and ESA-CCI land cover. Our products estimate the mean annual totals of global GPP, GPP<sub>sun</sub>, and GPP<sub>shade</sub> over 1992-2020 at 125.0±3.8 (mean ± std) Pg C a<sup>-1</sup>, 50.5±1.2 Pg C a<sup>-1</sup>, and 74.5±2.6 Pg C a<sup>-1</sup>, respectively, in which EBF (evergreen broadleaf forest) and CRO (crops) contribute more than half of the totals. They show clear increasing trends over time, in which the trend of GPP (also GPP<sub>sun</sub> and GPP<sub>shade</sub>) for CRO is distinctively greatest, and that for DBF (deciduous broadleaf forest) is relatively large and GPP<sub>shade</sub> overwhelmingly outweighs GPP<sub>sun</sub>. This new dataset advances our in-depth understanding of large-scale carbon cycle processes and dynamics.</p>
Linking variation in planktonic primary production to coral reef fish growth and condition
<p class="MsoNormal"><span>Within low nutrient tropical oceans, islands and atolls with higher primary production support higher reef fish biomass and reef organism abundance. External energy subsidies can be delivered onto reefs via a range of physical mechanisms. However, the influence of spatial variation in primary production on reef fish growth and condition is largely unknown. It is not yet clear how variability in food delivery onto a reef interacts with reef depth and slope, and affects reef fish productivity. </span><span>Here we test the hypothesis that with increased proximity to deep-water oceanic allochthonous nutrient sources, or at sites where transportation of these water bodies onto reefs is facilitated by shallower reef slopes, parameters of fish growth and condition will be higher, and this pattern will be further emphasised in areas naturally higher in primary production. Contrary to expectations, we found no association between fish growth rate and sites with higher mean chlorophyll values. There were no differences in </span><span>δ</span><sup><span>15</span></sup><span>N or</span><span> δ</span><sup><span>13</span></sup><span>C values in fish collected at greater depths across reefs, suggesting a homogeneous primary production resource. However, the relationship between fish condition and primary production was influenced by depth of collection, driven by higher fish condition at shallow depths within a study site which is a 'hotspot' of primary production. Carbon </span><span>δ</span><sup><span>13</span></sup><span>C values were depleted at sites with increasing primary production, and this trend was reversed by an interactive effect with shallower reef slopes. </span><span>Our results indicate that deep-water ocean nutrient influences did not </span><span>translate into observable increases in overall population growth in </span><span>planktivorous </span><em><span>Chromis fieldi </span></em><span>with</span><span>in the </span><span>10–17.5 m</span><span> </span><span>depth range, but show the importance of site specific variation in hydrodynamics and reef physical characteristics influencing fish carbon isotopic composition and condition. </span></p>
Transcriptional networks underlying a primary ovarian insufficiency disorder in alligators naturally exposed to EDCs: Transformed read counts and supplementary materials
<p>Interactions between the endocrine system and environmental contaminants are responsible for impairing reproductive development and function. Despite the taxonomic diversity of affected species and attendant complexity inherent to natural systems, the underlying signaling pathways and cellular consequences are mostly studied in lab models. To resolve the genetic and endocrine pathways that mediate affected ovarian function in organisms exposed to endocrine disrupting contaminants in their natural environments, we assessed broad-scale transcriptional and steroidogenic responses to exogenous gonadotropin stimulation in juvenile alligators (<em>Alligator missippiensis</em>) originating from a lake with well-documented pollution (Lake Apopka, FL) and a nearby reference site (Lake Woodruff, FL). We found that individuals from Lake Apopka are charachterized by hyperandrogenism and display hyper-sensitive transcriptional responses to gonadotropin stimulation when compared to individuals from Lake Woodruff. Site-specific transcriptomic divergence appears to be driven by wholly distinct subsets of transcriptional regulators, indicating alterations to fundamental genetic pathways governing ovarian function. Consistent with broad-scale transcriptional differences, ovaries of Lake Apopka alligators displayed impediments to folliculogenesis, with larger germinal beds and decreased numbers of late-stage follicles. After resolving the ovarian transcriptome into clusters of co-expressed genes, most site-associated modules were correlated to ovarian follicule phenotypes across individuals. However, expression of two site-specific clusters were independent of ovarian cellular architecture and are hypothesized to represent alterations to cell-autonomous transcriptional programs. Collectively, our findings provide high resolution mapping of transcriptional patterns to specific reproductive function and advance our mechanistic understanding regarding impaired reproductive health in an established model of environmental endocrine disruption.</p>
Molecular deciphering of primary liver neuroendocrine neoplasms confirms its distinct existence with foregut-like profile
<p>Isolated hepatic localizations of neuroendocrine tumors (NETs) are generally considered as metastatic NETs of unknown primary but could correspond to primary hepatic NETs (PHNETs), a poorly explored entity. We aimed to describe the clinicopathological and molecular features of PHNETs and compare them with other primary NETs. We assembled a retrospective cohort of patients managed for hepatic localization of NET without extra-hepatic primary tumor after exhaustive clinical, imaging and immunohistochemical characterization. We performed whole-exome sequencing with mutational and copy number analysis. Transcriptomic profiles were compared to pancreatic (n=31), small-bowel (n=22) and lung (n=15) NETs using principal component analysis, unsupervised clustering and gene-set enrichment analysis.Among 27 screened patients, 16 had PHNET (solitary tumor in 63%, median size 11 cm, G2 NETs in 81%) following clinical and pathological review. DNA analyses showed “foregut-like” genomic profiles with frequent alterations in pathways of Fanconi DNA repair (75%), histone modifiers (58%), adherens junctions (58%) and cell cycle control (50%). The most frequently involved genes were <em>KMT2A</em> (58%), <em>ATM</em> (42%), <em>CDH1</em>, <em>CDKN2C</em>, <em>FANCF</em> and <em>MEN1</em> (33% each). Transcriptomic analyses showed that PHNETs clustered closer to foregut (pancreatic, lung) NETs than to midgut (small-bowel) NETs, while remaining a distinct entity with specific profile. Assessment of potentially predictive biomarkers suggested efficacy of treatments usually active in foregut NETs. In conclusion, PHNETs display a foregut-like molecular profile distinct from other types of NETs, with recurrent molecular alterations. Upon exhaustive work-up to exclude unrecognized primary tumor, PHNETs should not be considered metastatic NETs from an unknown primary.</p>
Data set from "Absolute Treatment Effects for the Primary Outcome and All-cause Mortality in the Cardiovascular Outcome Trials of New Antidiabetic Drugs – A Meta-Analysis of Digitalized Individual Patient Data"
<p>This data set contains the complete digitalized individual patient data that are used in the manuscript "Absolute Treatment Effects for the Primary Outcome and All-cause Mortality in the Cardiovascular Outcome Trials of New Antidiabetic Drugs – A Meta-Analysis of Digitalized Individual Patient Data", which is accepted from "Acta Diabetologica".<br> The data file is in CSV format and contains the five variables "OutcomeType" (with values "AllcauseMortality" or "PrimaryOutcome"), "Study" (denoting the respective cardiovascular outcome trial), "Treatment" (denoting the respective study treatment or placebo), "Event" (denoting if the respective has been observed (Event=1) or not (Event=0)), and "SurvivalTimeMonths" (denoting the respective time to the event or censoring in months).</p>
MALDI-MS raw files of primary human lung cancer samples, lung cancer patient derived xenografts and lung cancer mouse models
<p>Human primary lung cancer samples, patient derived lung cancer xenografts and lung tumors from the TetO-KRASG12D mouse model were analyzed using MALDI-MS. We determined the spatial distribution and relative abundance of lipids of interest. </p>
Source Data files for: Primary cilia and SHH signaling impairments in human and mouse models of Parkinson's disease
<p>Parkinson’s disease (PD) as a progressive neurodegenerative disorder arises from multiple genetic and environmental factors. However, underlying pathological mechanisms remain poorly understood. Using multiplexed single-cell transcriptomics, we analyze human neural precursor cells (hNPCs) from sporadic PD (sPD) patients. Alterations in gene expression appear in pathways related to primary cilia (PC). Accordingly, in these hiPSC-derived hNPCs and neurons, we observe a shortening of PC. Additionally, we detect a shortening of PC in <em>PINK1</em>-deficient human cellular and mouse models of familial PD. Furthermore, in sPD models, the shortening of PC is accompanied by an increased SHH signal transduction. Inhibition of this pathway rescues the alterations in PC morphology and mitochondrial dysfunction. Thus, increased SHH activity due to ciliary dysfunction is needed for the development of pathoetiological phenotypes observed in sPD, like mitochondrial dysfunction. In sum, altered PC function is part of early PD pathoetiology and inhibiting the overactive SHH signaling is a potential neuroprotective therapy.</p>
Trait shifts in bird communities from primary forest to human settlements in Mexican seasonal forests: Are there ruderal birds?
<p><span><span><span><span>Agriculture, cattle grazing, and human settlements negatively affect bird biodiversity, driving the loss of ecologically specialized species and favoring the dominance of generalists. Because ecological pressures define organisms' success by acting on their intrinsic traits, biodiversity loss due to anthropization might cause directional trait shifts. Here, we use a trait-based approach to find empirical evidence of trait-shifts in bird communities across an anthropization gradient in seasonal forests in central Mexico. We performed point-count bird surveys within a region of tropical deciduous and seasonal oak forests considering three degrees of anthropization: primary forest, secondary growth, and human settlements. A multivariate analysis (PCA) showed similar trait-covariation patterns for both forest types; in the anthropized habitat the bird communities exhibited shorter life-cycles, higher fecundity, and broader ecological niches (diet, foraging habitat, and nesting resources) than those in the primary forests. Our finding of directional trait shifts resembles Evolutionary Ecological Strategies Theory (EES) predictions for successful organisms within highly disturbed anthropized habitats, which are known as a "ruderal adaptative strategy" in the EES framework. The use of trait-based approaches could improve ecological generalizations in bird communities, leading to a better understanding of avian biodiversity's responses to anthropization.</span></span></span></span></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.