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2,326 results for “clusters”
Smart Energy Multilayered Clustering Dataset - I
<p>Clustering data-set for multilayered contextualized smart energy blockchain traces</p>
Data from: A structured training program for health workers in intravenous treatment with fluids and antibiotics in nursing homes: a modified stepped-wedge cluster-randomised trial to reduce hospital admissions
Objectives: Hospitalization is potentially detrimental to nursing home patients and resource demanding for the specialist health care. This study assessed if a brief training program in administrating intravenous fluids and antibiotics in nursing homes could reduce hospital transfers and ensure high quality care locally. Design: A pragmatic and modified cluster randomized stepped-wedge trial with randomization on nursing home level. Participants: 330 cases in 296 nursing home residents from 30 nursing homes were included. Cases were patients provided intravenous antibiotics or intravenous fluids, in nursing home or hospital. Primary outcome was localization of treatment, secondary outcomes were number of days treated, days of hospitalization among admitted patients, type of antibiotics used and 30-day mortality. Intervention: The nursing homes sequentially received a one-day educational program for the health workers including theory and practical training in intravenous treatment of dehydration and infection, run by two skilled nurses. After completing the training program, the nursing homes had competence to provide intravenous treatment locally. Results: The intervention had a highly significant effect on treatment in nursing homes (OR 8.35, 2.08 to 33.6; P<0.01, or RR 2.23, 1.48 to 2.56). The number treated in nursing homes was stable over time; the number treated in hospital gradually decreased (chi square for trend P< 0.001). Among patients receiving intravenous antibiotics in the nursing homes, 50 (46%) died within 30 days, compared to 30 (36%) treated in the hospital (P=0.19). Among patients receiving intravenous fluids locally, 21 (19%) died within 30 days, compared to 2 (8%) in the hospital group (P=0.34). Mortality was associated with reduced consciousness and elevated c-reactive protein. Conclusions: A brief educational program delivered to nursing home personnel was feasible and effective in reducing acute hospital admissions from nursing homes for treatment of dehydration and infections.
Data from: Intra-specific relatedness, spatial clustering and reduced demographic performance in tropical rainforest trees
Intra-specific negative density dependence promotes species coexistence by regulating population sizes. Patterns consistent with such density dependence are frequently reported in diverse tropical tree communities. Empirical evidence demonstrating whether intra-specific variation is related to these patterns, however, is lacking. The present study addresses this important knowledge gap by genotyping all individuals of a tropical tree in a long-term forest dynamics plot in tropical China. We show that related individuals are often spatially clustered, but having closely related neighbors reduces the growth performance of focal trees. We infer from the evidence, that dispersal limitation and negative density dependence are operating simultaneously to impact the spatial distributions of genotypes in a natural population. Furthermore, dispersal limitation decreases local intra-specific genetic diversity and increases negative density dependence thereby promoting niche differences and species co-existence as predicted by theory.
Data from: Fe-S cluster biosynthesis controls uptake of aminoglycosides in a ROS-less death pathway
All bactericidal antibiotics were recently proposed to kill by inducing reactive oxygen species (ROS) production, causing destabilization of iron-sulfur (Fe-S) clusters and generating Fenton chemistry. We find that the ROS response is dispensable upon treatment with bactericidal antibiotics. Furthermore, we demonstrate that Fe-S clusters are required for killing only by aminoglycosides. In contrast to cells, using the major Fe-S cluster biosynthesis machinery, ISC, cells using the alternative machinery, SUF, cannot efficiently mature respiratory complexes I and II, resulting in impendence of the proton motive force (PMF), which is required for bactericidal aminoglycoside uptake. Similarly, during iron limitation, cells become intrinsically resistant to aminoglycosides by switching from ISC to SUF and down-regulating both respiratory complexes. We conclude that Fe-S proteins promote aminoglycoside killing by enabling their uptake.
Data from: Cluster expansion of apolipoprotein D (ApoD) genes in teleost fishes
Background: Gene and genome duplication play important roles in the evolution of gene function. Compared to individual duplicated genes, gene clusters attract particular attention considering their frequent associations with innovation and adaptation. Here, we report for the first time the expansion of the apolipoprotein D (ApoD) ligand-transporter genes in a cluster manner specific to teleost fishes. Results: Based on comparative genomic and transcriptomic analyses, protein 3D structure comparison, positive selection detection and breakpoints detection, the single ApoD gene in the ancestor expanded into two clusters following a dynamic evolutionary pattern in teleost fishes. Orthologous genes show conserved expression patterns, whereas lineage-specific duplicated genes show tissue-specific expression patterns and even evolve new gene expression profiles. Positive selection occurred in branches before and after gene duplication, especially for lineage-specific duplicated genes. Cluster analyses based on protein 3D structure comparisons, especially comparisons of the four loops at the opening side, show gene duplication-segregating patterns. Duplicated ApoD genes are predicted to be associated with forkhead transcription factors and MAPK genes. ApoD clusters are located next to the breakpoints of genome rearrangements. Conclusions: Here, we report the expansion of ApoD genes specific to teleost fishes in a cluster manner for the first time. Neofunctionalization and subfunctionalization were observed at both the protein and expression levels after duplication. Evidence from different aspects, i.e., abnormal expression-induced disease in humans, fish-specific expansion, predicted associations with forkhead transcription factors and MAPK genes, specific expression patterns in tissues related to sexual selection and adaptation, duplicated genes under positive selection and their location next to the breakpoints of genome rearrangements, suggests the potentially advantageous roles of ApoD genes in teleost fishes. The cluster expansion of ApoD genes specific to teleost fishes provides thus an ideal evo-devo model for studying gene duplication, cluster maintenance and new gene function emergence.
Additional Data from ``Developments in Stochastic Coupled Cluster Theory: The initiator approximation and application to the Uniform Electron Gas''
<p>We describe further details of the Stochastic Coupled Cluster method and a diagnostic of such calculations, the shoulder height, akin to the plateau found in Full Configuration Interaction Quantum Monte Carlo. We describe an initiator modification to Stochastic Coupled Cluster Theory and show that initiator calculations can be extrapolated to the unbiased limit. We apply this method to the 3D 14-electron uniform electron gas and present complete basis set limit values of the CCSD and previously unattainable CCSDT correlation energies for up to $r_s=2$, showing a requirement to include triple excitations to accurately calculate energies at high densities.</p>
DM-PhyClus: A Bayesian phylogenetic algorithm for infectious disease transmission cluster inference
<p>The files include the simulated datasets and the chain results for the simulation study described in, </p> <p>DM-PhyClus: A Bayesian phylogenetic algorithm for infectious disease transmission cluster inference</p> <p>Those are all compressed R data files (gzip format).</p>
Data and script for "rec-1 loss of function increases recombination in the central gene clusters at the expense of autosomal pairing centers."
Open the record for dataset details and reuse information.
METHODOLOGICAL FOUNDATIONS OF TEACHING ENGLISH IN THE HIGHER EDUCATIONAL INSTITUTIONS BASED ON THE CLUSTER APPROACH
Open the record for dataset details and reuse information.
Data for the preprint of "Layer-by-layer unsupervised clustering of statistically relevant fluctuations in noisy time-series data of complex dynamical systems"
<p>README: description of the files. </p> <p>This Zenodo repository contains all the data and original code necessary to reproduce the results of the paper https://doi.org/10.48550/arXiv.2402.07786. The code (continuously mantained and updated) is available open-source as a Python package at https://pypi.org/project/onion-clustering/ and on GitHub (https://github.com/matteobecchi/timeseries_analysis). </p> <p>The repository contains the folders "Fig1", "Fig2" etc, which contain the corresponding Datasets, together with the code to reproduce the figures. Additionally, the folder "FigS1 contains code and data for FigS1. </p> <p>The repository also contains the Supplementary Movies S1 to S4, in .mp4 format. </p>
Cluster investigation results from model-predicted mountain lion feeding sites and non-predicted sites in southwest Wyoming
<p class="MsoNormal">Global positioning system (GPS) receivers allow researchers to collect location data that provide information about fine-scale animal movements. For large carnivores, these data are routinely processed to identify clusters of GPS locations which are investigated to validate feeding sites, estimate prey species composition, and model the likelihood of predation events based on characteristics of GPS location data within clusters. Although developing predation models entails a high level of field effort, researchers are apprehensive in applying system-specific models to other systems both spatially and temporally. Our objectives were to apply and compare multiple predation models to predict and identify feeding events outside of the geographic areas where models were developed. Using our multi-model approach, we identified feeding sites and estimated kill rates and prey composition of mountain lions (<em>Puma concolor</em>) in southwest Wyoming, USA from 2017 to 2019. Our approach increased our field efficiency by reducing potential field site investigations by 63%. We provide results of estimated diet composition in our study area where mountain lion prey included relatively high proportions of pronghorn (12.3%) and smaller mammals, particularly coyotes (7.6%). We also provide a comparison of the predation models developed across unique ecoregions of North America, and how they performed when applied to our area. We believe a similar approach could be adopted for other large carnivore populations where multiple models have been developed to characterize feeding events.</p>
Data from: Gene discovery in Gelsemium highlights conserved gene clusters in monoterpene indole alkaloid biosynthesis
[No abstract filled]
Figure 4 from: Jordan K, Keshavan A, Mandelli M, Henry R (2017) Cluster-viz: A Tractography QC Tool. Research Ideas and Outcomes 3: e12394. https://doi.org/10.3897/rio.3.e12394
Figure 4 - Flowchart of the Cluster-viz web application
The data for a catalog of newly discovered close binary open clusters in the Milky Way from Gaia DR3
<p>The database for a catalog of newly discovered close binary open clusters in the Milky Way from Gaia DR3.</p> <p>It corresponds to the study of Zhongmu Li, Zhanpeng Zhu in 2024, which was submitted to AJ. When one use these data, please cite to that work. </p> <p>The database contains four parts, i.e., a parameter file and four directories. They are explained as follows.</p> <p>The file of ''data_tableI.csv'' gives the spatial positions and parallaxs of 13 newly discovered close binary open clusters (CBOCs).</p> <p>There are 11 columns in this file. The colums are for Name1, RA1, DEC1, Parallax1, Rtidal1, Name2, RA2, DEC2, Parallax2, Rtidal2 respectively. </p> <p>They correspond to the contents of a manuscript that was submitted to AJ.</p> <p>The file of ''data_tableII.csv'' contains the data of the fundamental parameters of 13 newly discovered CBOCs, together with their astrometric information. PBOC means primordial binary open cluster member. Distance modulus, color excess, age, and metal abundance of the clusters were obtained by fitting Parsec isochrones and Powerful CMD code. Proper motion data for the clusters were provided by HR23.</p> <p>Columns 3-14 show the basic parameters (distance modulus, color excess, age, and metal abundance) and errors of the cluster. Columns 15-16 are the proper motion data for the clusters. Column 17 is the number of member stars of the cluster.</p> <p>The file of ''data_tableIII.csv'' contains the data of Parameters for checking gravitationally bound and unbound cluster pairs. The subscripts 1 and 2 indicate the first and second sub-clusters respectively. Rroche is the Roche radius. RV 1, RV 2 and ΔRV denote the radial velocities of two member clusters and their difference. Porb and Vorb denote orbital period and orbital velocity.</p> <p>There are 13 columns in this file. The colums are for Name1, Name2, d12, r1, r2, Rroche, Mass1, Mass2, Porb, RV1, RV2, ΔRV, Vorb respectively. </p> <p>The file of ''memeber_allp.txt'' gives the list of member stars of 13 pairs of clusters. Data provided by HR23.</p> <p>If you have any problems with using these data, send an email to zhongmuli@126.com.</p>
Dataset for Influence of ecological and social factors on huddling behaviour and cluster organisation in Japanese macaques (Macaca fuscata)
<p>Dataset for Influence of ecological and social factors on huddling behaviour and cluster organisation in Japanese macaques (Macaca fuscata)</p> <p><span>Huddling behaviour is present in many animal species. This behaviour involves maintaining close physical contact with conspecifics to minimise heat loss and, in general, reduce energy expenditure. Additionally, this behaviour also facilitates complex social interactions within a population. In Japanese macaques, this behaviour is observed in many populations across Japan, including Shodoshima, where huddling clusters can reach up to 100 individuals in winter. Based on several studies on this species, it appears that huddling, or <span> </span>in Japanese, is influenced by both meteorological factors and social relationships between individuals. The objective of this study is to understand the determinants that drive the expression, variation, and organisation of huddling behaviour. Two hypotheses were formulated. The first hypothesis posits that the formation and variations in the size and number of clusters are influenced by meteorological factors, while the second hypothesis suggests that the number and position of individuals within a cluster is related to existing relationships between individuals. To test these, data on the number, size, and individuals composing a cluster were collected, allowing building huddling social networks. Simultaneously, meteorological measurements were taken, along with observations on dominance and grooming interactions between individuals. This allowed us to create several statistical models and social networks for comparison. Our results suggest that the initiation of huddling is mainly related to solar radiation energy, while variations in number and size could be explained by temperature. Moreover, the organisation within a cluster is not random but reflects relationships between individuals. However, it is not a single parameter but rather a combination of social relationships that underpin the organisation of individuals within clusters.</span></p>
Quantification and Clustering of Immune States in Lymphocyte Populations of Hepatitis B Cirrhosis
<p><span>Quantification and Clustering of Immune States in Hepatitis B Cirrhosis</span></p>
Geometries for "Reduced Scaling Correlated Natural Transition Orbitals for Multilevel Coupled Cluster Calculations"
<p>Formaldehyde, formaldehyde-in-water, and azobenzene dye geometries used in "Reduced Scaling Correlated Natural Transition Orbitals for Multilevel Coupled Cluster Calculations" in xyz-format.</p>
Solvothermal Synthesis Combined with Design of Experiments—Optimization Approach for Magnetite Nanocrystal Clusters
<p>The upload archive consists of all the obtained results based on DLS ( commonly known as <strong>dynamic light scattering</strong>) measurements. More detain you could find in the cited article above.</p>
Data from: Stoichiometry controls activity of phase-separated clusters of actin signaling proteins
Biomolecular condensates concentrate macromolecules into foci without a surrounding membrane. Many condensates appear to form through multivalent interactions that drive liquid-liquid phase separation (LLPS). LLPS increases the specific activity of actin regulatory proteins toward actin assembly by the Arp2/3 complex. We show that this increase occurs because LLPS of the Nephrin–Nck–N-WASP signaling pathway on lipid bilayers increases membrane dwell time of N-WASP and Arp2/3 complex, consequently increasing actin assembly. Dwell time varies with relative stoichiometry of the signaling proteins in the phase-separated clusters, rendering N-WASP and Arp2/3 activity stoichiometry dependent. This mechanism of controlling protein activity is enabled by the stoichiometrically undefined nature of biomolecular condensates. Such regulation should be a general feature of signaling systems that assemble through multivalent interactions and drive nonequilibrium outputs.
Spatio-Temporal Clustering Benchmark for Collective Animal Behavior
<p>Synthetic datasets for the paper "Spatio-Temporal Clustering Benchmark for Collective Animal Behavior".</p> <p>The full_data.zip contains all 3600 datasets, and the Excel files contain information about the generated large datasets from which we sampled the respective 3600 datasets.</p>
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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.