cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.27074920.v2
title: Model-Based Clustering of Categorical Data Based on the Hamming Distance

description: A model-based approach is developed for clustering categorical data with no natural ordering. The proposed method exploits the Hamming distance to define a family of probability mass functions to model the data. The elements of this family are then considered as kernels of a finite mixture model with an unknown number of components. Conjugate Bayesian inference has been derived for the parameters of the Hamming distribution model. The mixture is framed in a Bayesian nonparametric setting, and a transdimensional blocked Gibbs sampler is developed to provide full Bayesian inference on the number of clusters, their structure, and the group-specific parameters, facilitating the computation with respect to customary reversible jump algorithms. The proposed model encompasses a parsimonious latent class model as a special case when the number of components is fixed. Model performances are assessed via a simulation study and reference datasets, showing improvements in clustering recovery over existing approaches. Supplementary materials for this article are available online, including a standardized description of the materials available for reproducing the work.
DOI: 10.6084/m9.figshare.7961018.v1
title: Integrated Proteomics and Metabolomics Analysis Reveals Differential Lipid Metabolism in HUVEC under high and low shear stress

description: A table containing a list of proteins identified in HUVEC under low and high in vitro Shear stress.
DOI: 10.6084/m9.figshare.12554822.v3
title: Dataset of search trends-based analysis of public attention in the early outbreak of COVID-19 in China.xlsx

description: Statistics results of Baidu index and Google trends on keywords related to the epidemic from January 10 to February 28
DOI: 10.6084/m9.figshare.28650620.v2
title: Large old trees are refuges for avian frugivores under strong urbanisation pressures

description: We investigated the perching and feeding activities of avian frugivores on large trees along an urbanisation gradient in Wuhan, a rapidly expanding metropolis in China. Across three species of large fleshy-fruited trees, we recorded behaviours for a total of 4,857 bird individuals from 41 species, among which 944 individuals from 27 species were observed perching or feeding. Althoughoverall bird diversitydeclined with increasing urbanisation, the proportion of bird species utilising large trees for perching and/or feeding significantly increased towards more urbanised areas. These findings suggestthat large trees provide essential shelterand supplementaryfood resources in cities, with their ecological importance amplifying more pronounced as urbanisation intensifies. Our study highlights the vital role of large old trees in sustaining urban biodiversity and preserving key biological interactions, advocating for their prioritisationin urban planning and conservation strategies as integral components of resilient city landscapes.
DOI: 10.6084/m9.figshare.9986246.v1
title: Temporal stability of soil moisture in banana cropping area in the Brazilian semiarid region

description: ABSTRACT Soil moisture is essential for agricultural production. Knowledge on its spatial-temporal variability is indispensable to support agriculture, and it is strongly influenced by cultural practices, soil cover conditions and irrigation methods. Thus, this study aimed to evaluate the temporal stability and spatial distribution of soil moisture as a function of the use of banana leaves as soil cover in a plot under conventional sprinkler irrigation and cultivated with banana in the Brazilian semiarid region. The study area was divided in two sectors, with and without covering using banana leaves. Soil moisture was monitored before and after irrigation, at 16 times, using FALKER HidroFarm sensors installed on a transect with 11 units spaced by 8 m, in each sector. The data were analyzed using descriptive statistics, temporal stability and Spearman correlation test. The morphology of the banana leaves and the irrigation system used contributed to lower soil moisture in the covered sector at all monitoring times. Variations in the physical-hydraulic properties of the soil promoted variations in soil moisture with the position of the sensors in the ground. The temporal stability technique allowed the identification of points that represent the mean behavior of soil moisture throughout the area. The use of banana leaf residues caused less soil wetting using sprinkler irrigation, indicating the need to pre-grind the material or use localized irrigation systems, practices that are not very accessible to small farmers.
DOI: 10.6084/m9.figshare.13578008.v1
title: Metadata record for: The DecNef data collection, fMRI data from closed-loop decoded neurofeedback experiments

description: This dataset contains key characteristics about the data described in the Data Descriptor The DecNef data collection, fMRI data from closed-loop decoded neurofeedback experiments. <br> Contents: <br> 1. human readable metadata summary table in CSV format 2. machine readable metadata file in JSON format
DOI: 10.6084/m9.figshare.16963897.v1
title: Senior et al. Ecosphere.xlsx

description: This data set contains mean tree diameter at breast height and litter condensed tannin concentrations as well as a wide range of soil chemical and biological data collected from plots of 10 full-sibling <i>Picea abies </i>families within a long-established common garden experiment at Sävar, Sweden.<br>Full details can be found in 'Senior et al. Progeny selection for enhanced forest growth alters soil communities and processes. Ecosphere'
DOI: 10.6084/m9.figshare.21680078.v1
title: Noise and mental health

description: This is an original dataset for research on noise pollution and psychosocial stress in Ghana
DOI: 10.4121/uuid:b0b73eda-f654-49d1-a5bc-5896c8016502
title: Supporting data for Entanglement between a Diamond Spin Qubit and a Photonic Time-Bin Qubit at Telecom Wavelength

description: We report on the realization and verification of quantum entanglement between a nitrogen-vacancy electron spin qubit and a telecom-band photonic qubit. First we generate entanglement between the spin qubit and a 637 nm photonic time-bin qubit, followed by photonic quantum frequency conversion that transfers the entanglement to a 1588 nm photon. We characterize the resulting state by correlation measurements in different bases and find a lower bound to the Bell state fidelity of ≥0.77±0.03. This result presents an important step towards extending quantum networks via optical fiber infrastructure.
DOI: 10.6084/m9.figshare.21155786.v1
title: Gene Expression Analyses of Mutant <i>Flammulina velutipes</i> (Enokitake Mushroom) with Clogging Phenomenon

description: Regulation of proper gene expression is important for cellular and organismal survival, maintenance, and growth. Abnormal gene expression, even for a single critical gene, can thwart cellular integrity and normal physiology to cause diseases, aging, and death. Therefore, gene expression profiling serves as a powerful tool to understand the pathology of diseases and to cure them. In this study, the difference in gene expression in <i>Flammulina velutipes</i> was compared between the wild type (WT) mushroom and the mutant one with clogging phenomenon. Differentially expressed transcripts were screened to identify the candidate genes responsible for the mutant phenotype using the DNA microarray analysis. A total of 88 genes including 60 upregulated and 28 downregulated genes were validated using the real-time quantitative PCR analysis. In addition, proteomic differences between the WT and mutant mushroom were analyzed using two–dimensional gel electrophoresis and matrix-assisted laser desorption/ionization-time of flight (MALDI-TOF). Interestingly, the genes identified by these genomic and proteomic analyses were involved in stress response, translation, and energy/sugar metabolism, including HSP70, elongation factor 2, and pyruvate kinase. Together, our data suggest that the aberrant expression of these genes attributes to the mutant clogging phenotype. We propose that these genes can be targeted to foster normal growth in <i>F. velutipes</i>.
DOI: 10.6084/m9.figshare.28477178.v1
title: ree9tr6rr

description: Software Maintainability Analysis
DOI: 10.23645/epacomptox.9879731.v1
title: Database of pharmacokinetic time-series data and parameters for 144 environmental chemicals

description: Time courses of compound concentrations in plasma are used in chemical safety analysis to evaluate the relationship between external administered doses and internal tissue exposures. This type of experimental data is rarely available for the thousands of non-pharmaceutical chemicals to which people may potentially be unknowingly exposed but is necessary to properly assess the risk of such exposures. In vitro assays and in silico models are often used to craft an understanding of a chemical’s pharmacokinetics; however, the certainty of the quantitative application of these estimates for chemical safety evaluations cannot be determined without in vivo data for external validation. To address this need, we present a public database of chemical time-series concentration data from 567 studies in humans or test animals for 144 environmentally-relevant chemicals and their metabolites (187 analytes total). All major administration routes are incorporated, with concentrations measured in blood/plasma, tissues, and excreta . We also include calculated pharmacokinetic parameters for some studies, and a bibliography of additional source documents to support future extraction of time-series. In addition to pharmacokinetic model calibration and validation, these data may be used for analyses of differential chemical distribution across chemicals, species, doses, or routes, and for meta-analyses on pharmacokinetic studies.
DOI: 10.6084/m9.figshare.28113197.v1
title: Supplementary Material for: Trajectories of instrumental activities of daily living and their predictors among older men and women in Hong Kong: a 14-year prospective study

description: Introduction
This study aimed to identify the different patterns of trajectories in Instrumental Activities of Daily Living (IADL) in older men and women, respectively, and to examine the factors associated with the different trajectories.

Methods
We included 2,088 participants with an average age of 70.8 years at baseline from the MrOS and MsOS Hong Kong cohort study (men: 1,074; women: 1,014) and followed up the participants for over 14 years. The group-based trajectory models were used to identify IADL trajectories. Binary logistic regression and multinominal logistic regression models were used to identify factors associated with different trajectories.

Results
Two distinct trajectories were identified for men including ‘slow decliners’ (92.6% of men) and ‘rapid decliners’ (7.4%), while three distinct trajectories were identified for women including ‘slow decliners’ (43.5% of women), ‘intermediate decliners’ (48.2%), and ‘rapid decliners’ (8.3%). Being overweight or obese and slow walking speed were common predictors of more rapid IADL declining trajectories in both men and women. Particularly, having stroke, weak grip strength, and higher level of PM2.5 were associated with the higher risk of being rapid decliners in men, and having osteoporosis and poor self-rated health were associated with more rapid IADL declining trajectories in women.

Conclusion
Sex differences were observed in the IADL declining trajectories. Several risk factors were found that could possibly be useful in identifying and preventing disability in an earlier stage.
DOI: 10.6084/m9.figshare.28737896.v1
title: spine_properties_table.mat

description: This .mat file contains two tables: D1-D5 table is a table of all the spines tracked from D1 to D5 and D5-D10 table is a table of all the spines tracked from D5 to D10. For both tables contain the properties for each spine imaged across the two timepoints in columns D1 (or D5) and D5 (or D10), as well as a column specifying whether the spines was retained, lost, or added.
DOI: 10.17632/5f6dcgpmvw
title: Data for: Enhanced thermal conductivity and reduced viscosity of aegirine-based VR/VGO nanofluids for thermal enhanced oil recovery application

description: The depleting of the available conventional energy supplies together with an industrial shift towards unconventional resources like heavy oil/bitumen has become more pronounced. The steam-based heating methods are primarily used by the oil industry for the heavy oil/bitumen recovery. However, the thermal recovery methods are energy-intensive and have limited applications, especially for both thin and deep reservoirs. Therefore, there is a high priority need to investigate alternative approaches. To date, the most progressive alternative technique that has proven its potential during pilot-plant tests is nanocatalytic in-situ heavy oil/bitumen upgrading via hot-fluid injection. Hence, the continual improvement of this technique is of utmost importance. This study aims to propose a new injecting nanofluid system suitable for high-temperature injection into the reservoir with consecutive heavy oil/bitumen upgrading and recovery. Here we report a new type of copper-based nanofluid using a blend of vacuum gas oil (VGO) and vacuum residue (VR) as the mother solvent. The nanoparticles were prepared by low-temperature hydrothermal synthesis route. Their detailed surface, morphology and size characterizations were achieved by X-ray diffraction, dynamic light scattering and scanning electron microscopy. The stable nanofluids were prepared by dispersing copper-based nanoparticles in a mixture of VGO and VR, at different ratios and temperatures. A set of measurements to determine the thermal conductivity and viscosity of the nanofluid with different loading of nanoparticle were performed. The thermal conductivity values of nanofluid systems are substantially higher than that of the base fluids. The nanofluid for 2wt% of copper-doped aegirine nanoparticles dispersed in VGO and VGO/VR mixture exhibits a maximum thermal conductivity of 20% and 24%, respectively. It was found that the thermal conductivity of nanofluids increases with decreasing the hydrodynamic particle size. Moreover, the presence of chemo-physical interactions between nanoparticles and base fluid further enhances the thermal conductivity. Also, the temperature augmentation in a range from 80 to 110°C exhibited a positive effect on thermal conductivity enhancement of vacuum residue-based nanofluid system. This particular nanofluid may find potential applications in enhancing heavy oil upgrading and recovery.
DOI: 10.6084/m9.figshare.3527672.v1
title: Appendix B. Description of model system.

description: Description of model system.
DOI: 10.6084/m9.figshare.14374271.v1
title: Hands-only CPR data file

description: GraphPad file containing data per phase for each participant
DOI: 10.6084/m9.figshare.14472918.v1
title: Supplementary Material for: Small Airway Dysfunction in Asthma Is Associated with Perceived Respiratory Symptoms, Non-Type 2 Airway Inflammation, and Poor Responses to Therapy

description: <b><i>Background:</i></b> Emerging evidence has indicated that small airway dysfunction (SAD) contributes to the clinical expression of asthma. <b><i>Objectives:</i></b> The aim of the study was to explore the relationships of SAD assessed by forced expiratory flow between 25 and 75% (FEF<sub>25–75</sub>%), with clinical and inflammatory profile and treatment responsiveness in asthma. <b><i>Method:</i></b> In study I, dyspnea intensity (Borg scale), chest tightness, wheezing and cough (visual analog scales, VASs), and pre- and post-methacholine challenge testing (MCT) were analyzed in asthma patients with SAD and non-SAD. In study II, asthma subjects with SAD and non-SAD underwent sputum induction, and inflammatory mediators in sputum were detected. Asthma patients with SAD and non-SAD receiving fixed treatments were prospectively followed up for 4 weeks in study III. Spirometry, Asthma Control Questionnaire (ACQ), and Asthma Control Test (ACT) were carried out to define treatment responsiveness. <b><i>Results:</i></b> SAD subjects had more elevated ΔVAS for dyspnea (<i>p</i> = 0.027) and chest tightness (<i>p</i> = 0.032) after MCT. Asthma patients with SAD had significantly elevated interferon (IFN)-γ in sputum (<i>p</i> &lt; 0.05), and Spearman partial correlation found FEF<sub>25–75</sub>% significantly related to IFN-γ and interleukin-8 (both having <i>p</i> &lt; 0.05). Furthermore, multivariable regression analysis indicated SAD was significantly associated with worse treatment responses (decrease in ACQ ≥0.5 and increase in ACT ≥3) (<i>p</i> = 0.022 and <i>p</i> = 0.032). <b><i>Conclusions:</i></b> This study indicates that SAD in asthma predisposes patients to greater dyspnea intensity and chest tightness during bronchoconstriction. SAD patients with asthma are characterized by non-type 2 inflammation that may account for poor responsiveness to therapy.
DOI: 10.6084/m9.figshare.21365952.v1
title: data.xlsx

description: Fluorescence spectrum
DOI: 10.6084/m9.figshare.27937323.v1
title: Supplementary Material for: Cerebrospinal fluid biomarkers of central nervous system inflammation predict cortical decline in bipolar disorder and ventricular enlargement in healthy controls

description: Introduction: Bipolar disorder has been associated with significant structural brain changes, potentially driven by central nervous system (CNS) inflammation. This study aimed to investigate the relationship between inflammation biomarkers in cerebrospinal fluid (CSF) and longitudinal structural brain changes. 
Methods: We included 29 individuals with bipolar disorder and 34 healthy controls, analyzing three selected inflammation-related biomarkers - interleukin-6 (IL-6), interleukin-8 (IL-8), and chitinase-3-like protein 1 (YKL-40) - in both blood serum and CSF. Structural brain changes were assessed through magnetic resonance imaging (MRI) at two time points, focusing on cortical thickness of the middle temporal cortex and inferior frontal gyrus, as well as ventricular volume.
Results: In healthy controls, baseline CSF levels of YKL-40 predicted ventricular enlargement in both hemispheres. Among individuals with bipolar disorder, higher baseline levels of IL-8 were associated with a decline in cortical thickness in the right and left middle temporal cortex, as well as the right inferior frontal gyrus. No significant associations were observed with serum biomarkers.
Conclusion: These findings suggest that CSF IL-8 may contribute to cortical decline in bipolar disorder. The lack of association between serum biomarkers and brain changes highlights the specificity of CNS inflammation in these processes. Additionally, the observed link between CSF YKL-40 and ventricular enlargement in healthy controls may indicate a role of CNS inflammation processes in normal brain aging.
DOI: 10.6084/m9.figshare.27248328.v2
title: McPed

description: <b>M</b>ulti-modality ground-to-air <b>c</b>ross-view <b>P</b>ose <b>e</b>stimation <b>d</b>ataset for field robots (McPed)
DOI: 10.6084/m9.figshare.14622744.v2
title: Genetic isolation by distance underlies color pattern divergence in red-eyed treefrogs (Agalychnis callidryas)

description: individual_fastq.zip<br>Raw fastq files for each sequenced individual from Best RADseq libraries. <br>analysis_scripts.zipContains genomic and phenotypic data files and analysis scripts (see readme for details).<br>
DOI: 10.6084/m9.figshare.16764217.v1
title: The traits of 'trait ecologists'

description: Supporting Information and a data set from Dawson, SK, CP Carmona, M González-Suárez, M Jönsson, F de Carvalho, M Mallen-Cooper, Y Melero, H Moor, J Simaika, and AB Duthie. 2021 "The traits of 'trait ecologists': an analysis of the use of trait and functional trait terminology". Ecology and Evolution. http://doi.org/10.1002/ece3.8321<br>SUMMARY OF FILES INCLUDED<br>- Supporting Information 1: Includes two tables of survey questions used in data collection. Table S1.1: Questions asked in online survey and response options where a limited number were selected. Table S1.2: Details asked of survey respondents for classification into fields<br>- Supporting Information 2: Anonymous survey data including data collected on participant opinions and participant traits. <br>- Supporting Information 3: Supporting figures summarising survey data collection, and data collected from a literature review on traits from 16 journals where functional trait-based studies are often published: American Naturalist, AREES, Ecography, Ecology, Ecology Letters, Ecological Monographs, Global Ecology and Biogeography, Functional Ecology, Journal of Animal Ecology, Journal of Applied Ecology, Journal of Ecology, Nature Ecology and Evolution, Oecologia, Oikos, PNAS and TREE. All papers used were published in 2018, and included the term ‘trait*’ in the title, abstract and/or keywords. <br>- Supporting Information 4: An analysis of the agreement among eight authors for the literature review analysis. Each author reviewed a similar number of papers from the a total of 712. This supporting information includes the reviewer methodology and a summary of Cohen's Kappa across reviewers, with code illustrating how the analysis was produced.<br>- A CSV file ('lit_review_data.csv') that includes all of the data collected in the literature review. This includes 712 papers published in 2018 on traits.<br>- A CSV file ('extra_10.csv') that includes all of the data collected from co-authors for the analysis performed in Supporting Information 4.<br>
DOI: 10.6084/m9.figshare.20171258.v1
title: Popis pokazatelja.xlsx

description:  Life expectancy
DOI: 10.6084/m9.figshare.23528739.v1
title: Data for 'Position-dependent resource competition within inflorescences of Sagittaria trifolia'

description:  
trt4: four treatments including control, basal removal, upper removal and throughout removal
BC: two treatments including supplemental pollination and control
DOI: 10.6084/m9.figshare.28135763.v4
title: Sequences MG and 16S

description: Fastq files per sample for shotgun sequencing samples and a .tar file containing the fastq files for 16S sequencing.We also have uploaded both metadata files as well for each sequencing type.
DOI: 10.17632/pp599dy9c8
title: Early Warning Model Dataset for Corporate Segment

description: In dataset, 324 corporate customers were taken as reference. Dataset were created from information's between January 2022 and September 2023 time intervals. Financial ratios are calculated by taking financial information of these customers from balance sheet and income statement items.
DOI: 10.6084/m9.figshare.6834755.v1
title: File S2: Phylogenetic analysis of additional three HGTs (HGT-1, HGT-3 & HGT6) where targeted single gene analysis of publicly accessible genome data identified additional putative recipient taxa.m

description: <b>Phylogenetic analysis of additional three HGTs (HGT-1, HGT-3 & HGT6) where targeted single gene analysis of publicly accessible genome data identified additional putative recipient taxa.</b>
DOI: 10.17632/3w3rb3stt2
title: GAS Data 2015 n=25

description: Objective. The purpose of the current study was to examine outcomes of a modified version of goal attainment scaling following cognitive remediation in a female only residential substance use disorder rehabilitation setting. 
Method. Participants were N=25 female residents of a substance use disorder therapeutic community who were allocated to a four-week cognitive remediation program (n=13) or treatment as usual (n=12) control group in a controlled sequential groups trial. A modified version of goal attainment scaling that uses a goal menu, calculator and control goals was used to set goals at baseline. The primary outcome was goal attainment 21-weeks post-baseline. 
Results. As predicted, target goals were achieved at a higher rate than control goals for those in the Intervention, but not Control group, with a medium effect size (r = 0.5).