cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.20186321.v3
title: Comprehensive Identification of Human Cell Type Chromatin Activity-Specific and Cell Type Expression-Specific MicroRNAs.

description: 1. Dataset 1: A miRNA catalog with cell-type-specific expression and a miRNA catalog of cell-type-specific chromatin activity 2.Dataset 2: Results of disease association enrichment analysis for each cell type-specific miRNA set
DOI: 10.6084/m9.figshare.7070177.v2
title: Groundwater model data and code

description: Model results and code from the manuscript: Zipper et al., "Groundwater controls on post-fire permafrost thaw: Water and energy balance effects"
DOI: 10.6084/m9.figshare.7375901.v1
title: Supplementary Material for: Systematic Review and Meta-Analysis of the Impact of Hypoxia on Infarcted Myocardium: Better or Worse?

description: <b><i>Background/Aims:</i></b> Patients with myocardial infarction and hypoxemia require supplemental oxygen. However, the current therapeutic paradigm is contradicted by several recent studies in which the post-infarcted heart appears to benefit from systemic hypoxia. With this systematic review and meta-analysis, we aimed to discover whether systemic hypoxia is beneficial or detrimental to the infarcted myocardium. <b><i>Methods:</i></b> We conducted an electronic search of the PubMed, EMBASE, and Web of Science databases and extracted the outcomes of cardiac function, geometry, and hemodynamics. A random-effect model was applied when the I<sup>2</sup> value of greater than 50%. The sensitivity analysis was performed by omitting one study at a time, and publication bias was assessed using Egger’s test. In addition, the quality of studies was evaluated using the risk of bias tool devised by the Systematic Review Centre for Laboratory Animal Experimentation. <b><i>Results:</i></b> Six reports comprising 14 experiments were ultimately screened from among 10,323 initially identified preclinical studies. Few studies reported the method of randomization and none described allocation concealment, random outcome assessment or blinding. Overall, chronic hypoxia was found to have a beneficial effect on the ejection fraction (standard mean difference [SMD] = 5.39; 95% confidence interval [CI], 3.83 to 6.95; <i>P</i> &lt; 0.001) of the infarcted heart, whereas acute hypoxia significantly improved hemodynamics, as indicated by an increase in the maximal rate of rise of left ventricular pressure (SMD = 1.27; 95% CI, 0.27 to 2.28; <i>P</i> = 0.013) and cardiac output (SMD = 1.26; 95% CI, 0.34 to 2.18; <i>P</i> = 0.007) and a decrease in total systematic vascular resistance (SMD = –0.89; 95% CI, –1.24 to –0.53; <i>P</i> &lt; 0.001). Furthermore, a reduced oxygen content increased the stroke volume (<i>P</i> = 0.010). However, hypoxia reduced the end-systolic (SMD = –2.67; 95% CI, –4.09 to –1.26; <i>P</i> &lt; 0.001) and end-diastolic (SMD = –3.61; 95% CI, –4.65 to –2.57; <i>P</i> &lt; 0.001) left ventricular diameters and increased the total pulmonary resistance (SMD = 0.76; 95% CI, 0.20 to 1.33; <i>P</i> = 0.008), pulmonary arterial mean pressure (SMD = 2.02; 95% CI, 0.23 to 3.81; <i>P</i> = 0.027), and left atrial pressure (SMD = 1.20; 95% CI, 0.57 to 1.82; <i>P</i> &lt; 0.001). <b><i>Conclusion:</i></b> Hypoxia significantly improved heart function after infarction, with particular beneficial effects on systolic function and hemodynamics. However, it had slightly adverse effects on pulmonary circulation and left ventricular geometry. A lower inspired oxygen concentration may improve cardiac function, although further research is needed to determine the optimum level of hypoxia. Finally, more studies of hypoxia and myocardial infarction in larger species are required before these findings can be incorporated into therapeutic guidelines.
DOI: 10.17632/795dsfy2vk
title: Supplemental Material: Dupilumab’s Impact on Sleep Disruptions in Atopic Dermatitis: A Systematic Review and Meta-Analysis

description: Supplemental Material: Dupilumab’s Impact on Sleep Disruptions in Atopic Dermatitis: A Systematic Review and Meta-Analysis
DOI: 10.17632/795dsfy2vk.1
title: Supplemental Material: Dupilumab’s Impact on Sleep Disruptions in Atopic Dermatitis: A Systematic Review and Meta-Analysis

description: Supplemental Material: Dupilumab’s Impact on Sleep Disruptions in Atopic Dermatitis: A Systematic Review and Meta-Analysis
DOI: 10.6084/m9.figshare.16869367.v1
title: Supplementary Material – Diversity of macrophytes in the Amazon deforestation arc: information on their distribution, life-forms and habits

description: <b>Table S1 – </b>List of macrophyte species found in 36 sampling sites in Paragominas, Ipixuna do Pará and Tomé-açu, state of Pará, Brazil, along with the life-forms, the frequency of occurrence of each species, the type of ecosystem they were found and the herbarium vouchers.<br>see Original Paper: http://dx.doi.org/10.1590/2175-7860202172117<br>
DOI: 10.6084/m9.figshare.24158976.v1
title: Data from: "Sonochemical synthesis and ion transport properties of surfactant-stabilized carbon nanotube porins"

description: Data reliant to the manuscript titled: "Sonochemical synthesis and ion transport properties of surfactant-stabilized carbon nanotube porins"
DOI: 10.6084/m9.figshare.19233540.v1
title: Transformed and filtered metabolite abundances

description: Metabolites with RSD &lt; 30% in pooled QCs were removed, yielding 365 metabolites in positive mode and 414 in negative mode. Metabolite intensities were normalized by sample weight and total ion count, and signal drift corrected with QC-RSC. Missing values were imputed with half-minimum values, and intensities were log2-transformed and auto-scaled before merging positive and negative datasets. Duplicate metabolites were removed using a workflow described in the publication.
DOI: 10.6084/m9.figshare.878107.v5
title: Video recording of freely diffusing 200nm polystyrene nanoparticles using dark field microscopy

description: Dark field recording of 200nm polystyrene (Kisker Biotech PPs-02) particles which were diluted in essentially particle-free double distilled H2O. The temperature was 25 °C. The concentration was amounted to approximately 3x10^9 ml. The video file was captured with a PCO Edge CCD camera at 30 FPS mounted on a Olympus BX51 microscope (100-fold oil immersion objective) which was illuminated with a CytoViva dark field oil condenser. The pixel size of the video is 63nm. Please note that the video is splitted into mutiple archives. Please download all archives to get the full video. <strong>This video is part of a puplication:</strong> <strong>Wagner, T., Lipinski, H.-G. & Wiemann, M., 2014. Dark field nanoparticle tracking analysis for size characterization of plasmonic and non-plasmonic particles. Journal of Nanoparticle Research, 16(5), p.2419. Available at: http://link.springer.com/10.1007/s11051-014-2419-x</strong>
DOI: 10.6084/m9.figshare.28350434.v1
title: Effect of Adverse Childhood Events on Smoking among Public & Private University Students

description: Effect of Adverse Childhood Events on Smoking among Public & Private University Students
DOI: 10.6084/m9.figshare.23701743.v1
title: Alphafold structure files of novel isoforms

description: Each folder, whose name consists of gene name and isoform ID, corresponds to each isoform structure files.
DOI: 10.6084/m9.figshare.19087016.v1
title: MD simulation trajectories for CpG methylation project

description: The dataset includes MD simulation trajectories for CpG methylation project
DOI: 10.6084/m9.figshare.20209700.v1
title: data

description: Underlying dataset
DOI: 10.6084/m9.figshare.7577561.v1
title: Supplementary Material for: Divergence and Convergence: How Do Income Inequalities in Mortality Change over the Life Course?

description: <b><i>Background:</i></b> Do inequalities in health by income increase or decrease with age? The empirical evidence is not conclusive and competing theories arrive at different conclusions. <b><i>Objective:</i></b> This study examined inequality in mortality by income over the adult life course with longitudinal data on people aged 30–99 between the years 1990 and 2009. Each person was followed for 19 years. <b><i>Methods:</i></b> We used Swedish total population data with 5,011,414 individual observations. We calculated the probability of having died for ages between 31 and 99. This approach to calculating death risk incorporates selective mortality during the follow-up period into the measure. Age and year standardized income positions were calculated for all individuals. Inequality was assessed by comparing the top 10% income group and the bottom 10% income group. Relative inequality was measured by risk ratios (RR) and absolute inequality by percentage point differences. <b><i>Results:</i></b> The results showed that the highest relative income inequality in mortality was at age 56 for men (RR: 4.7) and at age 40 for women (RR: 4.1) with differing patterns across the younger age categories between the sexes. The highest absolute income inequality in mortality was found at age 78 for men (19% difference) and at age 89 for women (14% difference) with similar patterns for both sexes. Both measures of inequality decreased after the peak, with small or no inequalities above age 95. Income inequality in mortality remained in advanced age, with larger absolute inequalities in older ages and larger relative inequalities in younger ages. <b><i>Conclusion:</i></b> The results for absolute and relative measures of inequality differed substantially; this highlights the importance of discussing and making an active choice of inequality measure. To explain and understand the patterns of inequality in mortality over the adult life course, we conclude that the “age-as-leveler” and “cumulative disadvantage” theories are best applied to an absolute measure of inequality.
DOI: 10.6084/m9.figshare.23799141.v1
title: Supplementary Material for: Efficacy of Blue LED Phototherapy on Sleep Quality, Behavioral and Psychological Symptoms of Dementia: A Double-blind Randomized Controlled Trial

description: Introduction: People with dementia often experience behavioral and psychological symptoms of dementia (BPSD), which are a major cause of caregiver burden and institutionalization. Therefore, we conducted a double-blind, parallel-group randomized controlled trial (RCT) to examine the efficacy of blue-enriched light therapy for BPSD in institutionalized older adults with dementia. Methods: Participants were enrolled and randomly allocated into blue-enriched light therapy (N = 30) or the conventional light group (N = 30) for 60 minutes in 10 weeks with five sessions per week. The primary outcome was sleep quality measured by actigraphy and Pittsburgh Sleep Quality Index (PSQI). The secondary outcome was overall BPSD severity (Cohen-Mansfield Agitation Inventory (CMAI) and Neuropsychiatric Inventory (NPI-NH). The outcome indicators were assessed at baseline, mid-test, immediate posttest, 1-month, 3-month, and 6-month follow-up. The effects of the blue-enriched light therapy were examined by the generalized estimating equations (GEE) model. Results: Blue-enriched light therapy revealed significant differences in the objective sleep parameters (sleep efficiency: β = 5.81, Waldχ2 = 32.60, CI: 3.82; 7.80; sleep latency: β = -19.82, Waldχ2 = 38.38, CI:-26.09; -13.55), subjective sleep quality (PSQI: β = -2.07, Waldχ2 = 45.94, CI: -2.66; -1.47), and overall BPSD severity (CMAI: β = -0.90, Waldχ2 = 14.38, CI: -1.37; -0.44 ) (NPI-NH: β = -1.67, Waldχ2 = 30.61, CI: -2.26; -1.08) compared to conventional phototherapy immediate posttest, 1-month, 3-month, and 6-month follow-up. Furthermore, the effects for sleep efficiency and sleep latency lasted for up to six months. In the subscale analysis, the differences of the behavioral symptoms changed significantly between the groups in physical/non-aggressive (CI: -1.01; -0.26) and verbal/non-aggressive (CI: -0.97; -0.29). Conclusions: Blue-enriched light therapy is a feasible low-cost intervention that could be integrated as a comprehensive therapy program for BPSD among older adults with dementia.
DOI: 10.15468/dl.5czf2p
title: Occurrence Download

description: A dataset containing 911 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Observation, Human Observation, Machine Observation, Living Specimen)"
 ]
 }
 },
 "TaxonKey is Acentria ephemerella (Denis & Schiffermüller, 1775)"
 ]
}

 The dataset includes 911 records from 41 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0009447-250426092105405/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.6084/m9.figshare.26159680.v1
title: Supplementary Material for: Lack of nuclear localization of the Creb3l1 transcription factor causes defects in caudal fin bifurcation in zebrafish Danio rerio

description: The formation of normal bone and bone healing require the cAMP-responsive element binding protein 3-like-1 (Creb3l1) transmembrane transcription factor, as deletion of the murine CREB3L1 results in osteopenic animals with limited capacity to repair bone after fracture. Creb3l1 undergoes regulated intra-membrane proteolysis (RIP) to release the N-terminal transcription activating (TA) fragment that enters the nucleus and regulates the expression of target genes. To expand our understanding of Creb3l1 role in skeletal development and skeletal patterning, we aimed to generate animals expressing only the TA fragment of Creb3l1 lacking the transmembrane domain and thereby not regulated through RIP. However, the CRISPR/Cas9-mediated genome editing in zebrafish D. rerio caused a frame-shift mutation that added 56 random amino acids at the C-terminus of the TA fragment (TA+), making it unable to enter the nucleus. Thus, TA+ doesn’t regulate transcription, and the creb3l1TA+/TA+ fish animals are creb3l1 transcriptional nulls. We document that the creb3l1TA+/TA+ fish exhibit defects in the patterning of caudal fin lepidotrichia, with significantly distalized points of proximal bifurcation and decreased secondary bifurcations. Moreover, using the caudal fin amputation model, we show that creb3l1TA+/TA+ fish have decreased capacity for regeneration, and that their regenerates replicate the distalization and bifurcation defects observed in intact fins of creb3l1TA+/TA+ animals. These defects correlate with altered expression of the shha and ptch2 components of the Sonic Hedgehog signaling pathway in creb3l1TA+/TA+ regenerates. Together, our results uncover a previously unknown intersection between Creb3l1 and the Sonic Hedgehog pathway, and document a novel role of Creb3l1 in tissue patterning.
DOI: 10.6084/m9.figshare.13522748.v1
title: Gene expression data

description: Gene expression data
DOI: 10.6084/m9.figshare.27928911.v1
title: Supplementary Material for: A Tale of two Treatments: A randomized controlled trial of mindfulness or cognitive-behaviour therapy delivered online for people with rheumatoid arthritis

description: Introduction: This study aims to determine the relative efficacy of mindfulness-based stress reduction (MBSR) or cognitive-behaviour therapy (CBT) in comparison to a wait-list control (WLC) for people with rheumatoid arthritis (RA). Participants completed assessments before and after treatment and at 6-month follow-up. 
Methods: Two-hundred and sixty-nine participants with RA were recruited and randomized in a 2:2:1 ratio to MBSR: CBT: WLC. Participants completed a semi-structured clinical interview for depression and were stratified for history of recurrent depression. We measured the primary outcome of pain interference, and pain severity, depression, anxiety, functional ability, and fear of progression. We predicted that MBSR and CBT would result in improvements compared to WLC . We also predicted that those with a history of recurrent depression would benefit more from MBSR than CBT for depression. 
Results: MBSR and CBT were equally efficacious in reducing pain interference compared to WLC. Similar results were found for depression. MBSR demonstrated superior outcomes to CBT for fear of progression at post-treatment and functional ability at 6-month follow-up. CBT only was better than WLC for pain severity at 6-month follow-up. Depressive status did not moderate the efficacy of treatment. 
Conclusions: MBSR and CBT resulted in statistically and clinically significant changes in pain interference compared to WLC. MBSR was more efficacious than CBT for functional ability and fear of progression, while CBT showed superiority for pain severity. The effect sizes were comparable to those achieved with face-to-face interventions, confirming both online treatments are effective for people with RA.
DOI: 10.6084/m9.figshare.3564936.v1
title: Appendix E. An ANOVA table for the final percentage germination of each species in the seasonal timing experiment, giving ANOVA probability values.

description: An ANOVA table for the final percentage germination of each species in the seasonal timing experiment, giving ANOVA probability values.
DOI: 10.6084/m9.figshare.27242277.v1
title: Sequence alignment of Endogonales SSU rDNA, including sequences of known species and representative OTU sequences

description: Sequence alignment of Endogonales partial SSU rDNA was performed using MAFFT. This alignment was used for Maximum Likelihood analysis by Kusakabe et al. (2025).
DOI: 10.6084/m9.figshare.24174576.v1
title: Supplementary Material for: Selected β-glucans act as immune-training agents by improving anti-mycobacterial activity in human macrophages - a pilot study.

description: Epigenetic reprogramming of innate immune cells by β-glucan in a process called trained immunity, leads to an enhanced host response to a secondary infection. β-glucans are structural components of plants, algae, fungi and bacteria and thus recognized as non-self by human macrophages. We selected the β-glucans curdlan from Alcaligenes faecalis, WGP dispersible from Saccharomyces cerevisiae, and β-glucan-rich culture supernatant of Alternaria and investigated whether they could produce trained immunity effects leading to an increased control of virulent Mycobacterium tuberculosis. We observed a significant M. tuberculosis growth-reduction in macrophages trained with curdlan and Alternaria, which also correlated with increased IL-6 and IL-1β release. WGP dispersible-trained macrophages were stratified into ‘non responders’ and ‘responders’, according to their ability to control M. tuberculosis, with ‘responders’ producing higher IL-6 levels. The addition of neutrophils to infected macrophage cultures further enhanced macrophage control of virulent M. tuberculosis, but not in a stimuli-dependent manner. Pathway enrichment analysis of DNA methylome data also highlighted hypomethylation of genes in pathways associated with signaling and cellular reorganization and motility, and ‘responders’ to WGP-training were enriched in the interferon-gamma signaling pathway. This study adds evidence that certain β-glucans show promise as immune training agents.
DOI: 10.6084/m9.figshare.8091383.v1
title: JournalsConferences.csv

description: This Database belongs to “A Database for Using Machine Learning and Data Mining Techniques for Coronary Artery Disease diagnosis” research paper. This database includes 15 tables. We chose to index papers related to CAD detection using machine learning and data mining approaches that are published between 1992 and 2018. These criteria result in 126 papers in which 490 authors contributed to these papers. These papers studied 68 different datasets with almost more than 360 distinct features collected in 18 countries from Asia, Europe, and America. In these papers, 140 different machine learning or data mining techniques were applied to diagnose CAD. To use csv file, open it in excel or import it in your database.
DOI: 10.17632/nw4xd5ymgd.1
title: Living foraminifera relative abundances and total organic carbon in Brazilian transitional waters

description: This database was built to assign benthic foraminiferal species to ecological groups of sensitivity to total organic carbon (see Bouchet et al 2025 in Journal of Micropaleontology). The overall aim of this paper is to provide foraminiferal ecologist with a ready-to-use database detailing foraminiferal species relative abundances and total organic content (%) in studies sampling site to be used for ecological, biogeographical and environmental monitoring purpose.
DOI: 10.6084/m9.figshare.21825042.v1
title: data.xlsx

description: The raw data of cytometry and RT-PCR
DOI: 10.6084/m9.figshare.22060778.v1
title: Appendix A. Maturity levels for each area of the Maturity Model

description: Appendix of the article Supply Chain Sustainability: A Model to Assess the <br> Maturity Level
DOI: 10.6084/m9.figshare.3830277.v1
title: Seasonal precipitation and Muslim populations on Borneo

description: This file contains spatial data on Borneo:A. Long-term monthly precipitation during the dry period (May to September) (in mm)B. Long-term monthly precipitation during the wet period (November to March) (in mm)C. The proportions of Muslim populations at regency/district level (%)
DOI: 10.6084/m9.figshare.21171562.v1
title: Fossil pollen of Parkia R.Br. (Fabaceae) pollen from the Miocene of western Amazonia

description: Table S1. Raw measurements and morphological traits of fossil Parkiidites (P. marileae Leite et al. 2021 and P. microreticulatus Guinet et Salard-Cheboldaeff 1975) and of extant species of Parkia. <br> Figure S1. Boxplots showing the main morphological characters from extant Parkia species, compared to the same characters from two fossils (Parkiidites marileae Leite et al. 2021; and Parkiidites microreticulatus Guinet et Salard-Cheboldaeff 1975). For detailed data see Table S1. <br> Figure S2. Species distribution modelling for extant species of Parkia assigned as nearest living relative (NLR) of Parkiidites marileae Leite et al. 2021. Color legend is probability of occurrence. Outline of the Amazon biome based on WWF Ecoregions (Olson et al. 2001). <br> Figure S3. Species distribution modelling for extant species of Parkia that do not belong to the NLR (nearest living relative) of Parkiidites marileae Leite et al. 2021. Color legend is probability of occurrence. Outline of the Amazon biome based on WWF Ecoregions (Olson et al. 2001). <br>
DOI: 10.6084/m9.figshare.19499147.v1
title: patches and local annotations, slide 001, zoom 248x248 um2

description: patches and local annotations: data for slide with ID of the last 3 characters of the file name: local annotations in csv format and a folder with patches at zoom level indicated at the 6th character of the file name