cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.13395470.v6
title: An estimate of the deepest branches of the tree of life from ancient vertically-evolving genes

description: This is the data supplement for the manuscript "An estimate of the deepest branches of the tree of life from ancient vertically-evolving genes"<br><br>Authors: Edmund R. R. Moody1, Tara A. Mahendrarajah2, Nina Dombrowski2, James W. Clark1, Celine Petitjean1, Pierre Offre2, Gergely J. Szöllősi3,4,5, Anja Spang2,6*, Tom A. Williams1*<br>1. School of Biological Sciences, University of Bristol, Bristol BS8 1TH, UK.2. NIOZ, Royal Netherlands Institute for Sea Research, Department of Marine Microbiology and Biogeochemistry; AB Den Burg, The Netherlands3. Dept. of Biological Physics, Eötvös Loránd University, 1117 Budapest, Hungary 4. MTA-ELTE “Lendület” Evolutionary Genomics Research Group, 1117 Budapest, Hungary; 5. Institute of Evolution, Centre for Ecological Research, 1121 Budapest, Hungary6. Department of Cell- and Molecular Biology, Science for Life Laboratory, Uppsala University, SE-75123, Uppsala, Sweden<br>*Co-corresponding authors: tom.a.williams@bristol.ac.uk, anja.spang@nioz.nl<br>This data supplement contains sequence alignments, trees, and python scripts used for analysis as well as tables of results.
DOI: 10.6084/m9.figshare.25311145.v1
title: Supplementary Material for: The relationship between neurobiological function and inflammation in depressed children and adolescents: A scoping review

description: Introduction: Neurobiological dysfunction is associated with depression in children and adolescents. While research in adult depression suggests that inflammation may underlie the association between depression and brain alterations, it is unclear if altered levels of inflammatory markers provoke neurobiological dysfunction in early onset depression. The aim of this scoping review was to provide an overview of existing literature investigating the potential interaction between neurobiological function and inflammation in depressed children and adolescents.
Methods: Systematic searches were conducted in six databases. Primary research studies that included measures of both neurobiological functioning and inflammation among children (≤18 years) with a diagnosis of depression were included.
Results: Four studies (240 participants; mean age 16.0 ± 0.6 years, 62% female) meeting inclusion criteria were identified. Studies primarily examined inflammatory markers interleukin 6, tumour necrosis factor alpha, C-reactive protein, and interleukin 1 beta. Exploratory whole brain imaging and analysis as well as region of interest approaches focused on the anterior cingulate cortex, basal ganglia, and white matter tracts were conducted. Most studies found correlations between neurobiological function and inflammatory markers; however, depressive symptoms were not observed to moderate these effects.
Conclusions: A small number of highly heterogeneous studies indicate that depression may not modulate the association between altered inflammation and neurobiological dysfunction in children and adolescents. Replication in larger samples using consistent methodological approaches (focus on specific inflammatory markers, examine certain brain areas) is needed to advance the knowledge of potential neuro-immune interactions early in the course of depression.
DOI: 10.6084/m9.figshare.25556997.v1
title: The relationship between sleep quality, stress and academic performance among Jordanian medical students: A cross sectional dataset

description: This dataset was collected from medical students in Jordan to evaluate the prevalence of stress and sleep quality. The K10 stress scale and PSQI score, along with demographic information, were utilized for the assessment.
DOI: 10.6084/m9.figshare.27619221.v6
title: Global_phytopathogenic_bacteria

description: This study investigates the biogeography and diversity of global phytopathogenic bacteria in global soils
DOI: 10.17632/8fztxggjnc
title: Breast Mammography Image Dataset with Masses

description: The mammography dataset includes both benign and malignant tumors. In order to create the pictures for this dataset, 106 masses from the INbreast dataset, 53 masses from the MIAS dataset, and 2188 masses from the DDSM dataset were initially extracted. Then, we preprocess our photos using contrast-limited adaptive histogram equalization and data augmentation. Inbreast dataset has 7632 photos, MIAS dataset has 3816 images, and DDSM dataset includes 13128 images after data augmentation. Additionally, we combine DDSM, MIAS, and INbreast. The size of each image was changed to 227*227 pixels.
DOI: 10.17632/cvnryx5b4z
title: Supplementary Material Aljammal Predictors of Initial Response of Thyroid Nodules Treated With RFA, a Multi-Endocrinology Centers Experience From the United States

description: Supplementary Material Aljammal Predictors of Initial Response of TN Treated with RFA
DOI: 10.6084/m9.figshare.25541524.v1
title: DECriS Project Intellectual Output 2: Qualitative Research Instruments

description: This research forms part of the Erasmus+ project Digital Education for Crisis Situations: Times when there is no alternative (DECriS). The project is focused on innovative digital practices implemented in Higher Education Institutions (HEI) in the field of Library and Information Science (LIS), their relationship to Digital Education (DE) in general, and the adoption of Open Education Resources (OER) in any learning situation, but especially in crisis situations such as the COVID-19 pandemic. The present document belongs to the Project’s Intellectual Output 2: “Digital Education appraisal and quality perception by students, teachers and trainers at the partner HEI during the COVID-19 crisis”. The aim of this output is to gain insights into the students’ and teachers’ attitudes towards DE and educational resources, in general, and towards canonical OER, in particular, mainly during the COVID-19 crisis and in contrast with their pre-pandemic experiences. A total of 39 interviews with teachers and 10 focus groups with students were conducted in the LIS centres of the five institutions that are project partners. For each partner, a report is presented with the results of the analysis of the teachers’ and students’ transcripts separately, structured in seven blocks: Context, attitudes and expectations; Adaptations; Problems; Advantages; Lessons learned; Good Practices; and Improvements.
DOI: 10.6084/m9.figshare.26076417.v1
title: HiGTS_2002s2

description: HiGTS is a high temporal resolution global gridded dataset of human thermal stress metrics. Derived using climate variables from ERA5-Land and ERA5, the HiGTS consists of hourly gridded maps of Universal Thermal Climate Index (UTCI), Universal Thermal Stress (UTS), and daily Thermal Stress Duration (TSD) at 0.1° × 0.1° spatial resolution over the global land surface from January 1, 2000 to December 31, 2023.HiGTS_2002s2 contains the data from April 1, 2002 to June 30, 2002.
DOI: 10.6084/m9.figshare.5971387.v2
title: Practical challenges for researchers in data sharing - Springer Nature survey data (anonymised)

description: Survey data underlying Springer Nature whitepaper 'Practical challenges for researchers in data sharing'. <br><br>Data were collected between April and May in 2017 by contacting registrants to nature.com, biomedcentral.com and springer.com.<br><br>The dataset is made up of 7,719 respondents from 126 different countries.<br><br>Related infographic: https://doi.org/10.6084/m9.figshare.5996786
DOI: 10.17632/j3zm2xv53y
title: Dataset for the Simulated Biomass Pyrolysis in Rotary Kilns with varying Particle Residence Time Distributions

description: The data presented here are results of numerical simulation of the biomass pyrolysis in rotary kilns under numerous operating conditions and levels of axial dispersion of biomass particles. The varied operating conditions are the kiln diameter, the ratio of particle to kiln diameter, the ratio of kiln length to kiln diameter, the kiln's inclination angle, the Froude number, the rotational Reynolds number, and the Pèclet number. Data of 13851 single case simulations are provided in this dataset. This includes the mean particle residence time, gas, bed and kiln wall temperatures, solid and gaseous species mass flows, heat fluxes, and the solid bed height over the kiln length.

Related research article:
Mario Pichler, Bahram Haddadi, Christian Jordan, Hamidreza Norouzi, Michael Harasek, Influence of particle residence time distribution on the biomass pyrolysis in a rotary kiln, Journal of Analytical and Applied Pyrolysis 2021, 158, 105171, DOI: https://doi.org/10.1016/j.jaap.2021.105171

Code:
Available on GITHUB, DOI: 10.5281/zenodo.5638120
DOI: 10.6084/m9.figshare.21971933.v1
title: Diabetes Mellitus and quality of life: lower socio-economic status patients in Indian tertiary healthcare – a cross sectional study

description: The proforma contains the baseline details used in this study. The questionnaire used in this study is MDQoL-17 questionnaire. It is available in English and Kannada.
DOI: 10.6084/m9.figshare.22672582.v1
title: Supplementary Material for: The efficacy and safety of air tamponade in the repair of rhegmatogenous retinal detachment: a systematic review and meta-analysis.

description: Background: Rhegmatogenous retinal detachment (RRD) repair by pars plana vitrectomy (PPV) combined air tamponade has many advantages compared with PPV combined gas tamponade. However, there are controversial outcomes in RRD cases involving the lower quadrants. Objective: This study aimed to evaluate the efficacy and safety of PPV combined air tamponade in patients with RRD compared with PPV combined gas tamponade and whether it could be a safe alternative to PPV combined gas tamponade. Methods: The PubMed, Embase, and Cochrane Library databases published until September 2022 were comprehensively searched for studies that compared PPV combined with air tamponade and gas tamponade in patients with RRD. The rate of primary treatment success, best-corrected visual acuity (BCVA), and postoperative complications were extracted from the final eligible studies. The mean difference (MD) and risk ratio (RR) were calculated for continuous and dichotomous variables, respectively, with 95% confidence intervals (CIs). Results: A total of 8 studies with 668 eyes in the air tamponade group and 944 in the gas tamponade group were included. There was no significant difference in the rate of primary treatment success between the air tamponade group and the gas tamponade group (RR = 1.00, P = 0.79). In addition, the subgroup analysis suggested that whether retinal breaks were located above or below, there was no significant difference in either rate of primary treatment success (RR = 0.99, P = 0.89; RR = 1.02, P = 0.45). There was no significant difference in mean BCVA 3 months after surgery (MD = -0.02, P = 0.50). For postoperative complications, mean postoperative IOP was lower in the air tamponade at one day (MD = -4.24, P &lt; 0.001), and there was no significant difference between the two groups at 7 days (MD = -0.45, P = 0.71), one month (MD = -0.69, P = 0.33), and 3 months (MD = 0.69, P = 0.35) after surgery. The rate of epiretinal membrane (ERM) development was lower in the air tamponade group (RR = 0.48, P = 0.04). Conclusions: For patients with uncomplicated RRD, PPV combined air tamponade is a feasible and safe alternative to PPV combined gas tamponade, regardless of the position of retinal breaks, with a similar primary treatment success rate, postoperative BCVA, and fewer postoperative complications.
DOI: 10.6084/m9.figshare.23497589.v1
title: iso- and OH-GDGTs data in 74 surface sediment from 65 West China lakes

description: iso- and OH-GDGTs data in 74 surface sediment from 65 West China lakes.
DOI: 10.6084/m9.figshare.24603291.v1
title: scRNA-seq dataset

description: We collected whole lung tissues from mice at the age of 2 to 3 months for ScRNA-seq analysis. Equal number of single cells isolated from male and female WT (BioLegend, Cat#155831 or #155833) or CKO (BioLegend, Cat#155835 or#155837) or TKO (WT (BioLegend, Cat#155831 or #155833) mice was stained with Cell Hashing antibodies respectively, and loaded on 10X Genomics Chromium Single Cell Controller to generate barcoded single cells for construction of single cell cDNA libraries. ScRNA-seq was performed on a Hiseq 4000 with pair-end 150bp.
DOI: 10.6084/m9.figshare.5368546.v1
title: Supplementary Material for: Association between Testosterone and Mortality Risk among U.S. Males Receiving Dialysis

description: <strong><em>Background:</em></strong> Among the general population, low circulating testosterone levels are associated with higher risk of cardiovascular disease and death. While testosterone deficiency is common in dialysis patients, studies of testosterone and mortality in this population are ambiguous and overlapping. We hypothesized that lower testosterone levels are associated with higher mortality in male dialysis patients. <b><i>Methods:</i></b> We examined a nationally representative cohort of male dialysis patients from a large US dialysis organization who underwent one or more total testosterone measurements from 1/2007 to 12/2011. The association between total testosterone categorized as quartiles and all-cause mortality was studied using Cox models adjusted for expanded case-mix and laboratory covariates. We also examined total testosterone as a continuous predictor of all-cause mortality using restricted cubic splines. <b><i>Results:</i></b> Among 624 male dialysis patients, 51% of patients demonstrated testosterone deficiency (total testosterone &lt;300 ng/dL); median (IQR) total testosterone levels were 297 (190-424) ng/mL. In expanded case-mix + laboratory adjusted Cox analyses, we observed a graded association between lower testosterone levels and higher mortality risk (ref: quartile 3): adjusted hazard ratios (95% CI) 2.32 (1.33-4.06), 1.80 (0.99-3.28), and 0.68 (0.32-1.42) for Quartiles 1, 2, and 4, respectively. In adjusted spline analyses, the lower testosterone-higher mortality risk association declined with higher testosterone levels until the value reached a threshold of 400 ng/dL above which risk plateaued. <b><i>Conclusion:</i></b> Lower testosterone levels were independently associated with higher mortality risk in male dialysis patients. Further studies are needed to determine underlying mechanisms, and whether testosterone replacement ameliorates death risk in this population.
DOI: 10.6084/m9.figshare.7304189.v1
title: Data for manuscript "Evaluating the Replicability of the Uncanny Valley Effect"

description: Data from six experiments, reported in the manuscript "Evaluating the Replicability of the Uncanny Valley Effect"<b></b>
DOI: 10.6084/m9.figshare.28730456.v1
title: Data from: Variation in successional niche turnover of multiple taxa in a recovering tropical rainforest

description: This project contains data on species abundance across different plots in a chronosequence of the Chocó rainforest in northwest Ecuador. It includes information from eighteen ecological communities: soil bacteria (at 10 cm and 50 cm depths), seedlings, trees, litter arthropods, ants, termites, saproxylic beetles, dung beetles, litter frogs, ground seed dispersers (mammals and birds), ground mammals, frugivorous birds, non-frugivorous birds (all recorded birds except frugivores), moths, bees, nocturnal insects, and bats.Additionally, the dataset includes results on species' successional niches derived from a null model approach and the code use for the estimations. The project provides code for species richness and abundance within successional niches for the eighteen communities together, along with detailed information on the plots. Finally, we offer comparative data for birds and mammals, alongside information from literature.Data consists of the columns Plot_ID: the unique plot number of the Reassembly Project. Species: name of the species. Group corresponding to the ecological community referenced in the main text. Abundance: number of individuals observed. Total Abundance = relative abundance, T_abundance: total number of individuals observed in all plots. Author: the person who collected the data. Sampling year: year data was collected. Gradient: rank of the successional age. Regeneration year: when the plot was abandoned. Treatment: successional stage.For the Reassembly all_community_10000 and literature_estimation files columns are explained in METADATA_Null_model and Habitat it makes reference to the growth rate in the case of tree and habitat according to literature for birds and mammals.
DOI: 10.17632/c53rh2h435
title: Exploratory study of mental health among gamers

description: Gaming has increasingly become a part of life in Africa. Currently, no data on gaming disorders or their association with mental disorders exist for African countries. This exploratory study investigates (1) the prevalence of insomnia, excessive daytime sleepiness, anxiety and depression among African gamers based in Gabon and Tunisia and (2) the association between these conditions and gamer types (i.e., non-problematic, engaged, problematic and addicted). The questionnaire could only be completed once by participants with the same email address, and duplicates and incomplete forms were discarded. Responses were collected in multiple sites based in nine African countries between November 2015 and June 2017 (Rwanda, Gabon, Cameroon, Nigeria, Morocco, Tunisia, Senegal, Ivory Coast and South Africa). Because of local restrictions related to the expiration of some ethical certificates, this dataset currently provides aggregate data from Gabon and Tunisia. Data contained aggregate information describing epidemiology of self-reported measures of insomnia (with the Insomnia Severity Index), excessive daytime sleepiness (with Epworth Sleepiness Scale), anxiety (with Hospital Anxiety and Depression Scale-A), depression (Hospital and Anxiety Depression Scale-D) and gaming disorder (with game addiction scale short form) between gamers in Tunisia and Gabon. The participants who formed this convenience sample were contacted by email. The online questionnaire included a consent form on the second page, following a description of the study in French and English. Consent was required to participate in this project. The average time to answer all questions was 20 minutes. Data available are as follow: mean hours of gaming per week, period from when the participant considered him or herself a gamer, type of device used for gaming purposes, age, sex, and category of gamers. The present research is a pilot investigation which documents sleep disorders, anxiety and depression among an African sample with a focus on gamers. It should be replicated with the general population with a longitudinal cohort study to understand the global picture of gaming disorder. Similarly, more attention should be brought to the sleep health of African populations. More research on gaming addiction needs to be performed in low- and middle-income countries where little is known about internet gaming disorder.
DOI: 10.17632/cm27w42ff3
title: Supplementary Appendix - Pharmacokinetics and Safety of Apremilast in Pediatric Patients With Moderate to Severe Plaque Psoriasis: Results From a Phase 2 Open-Label Study
DOI: 10.17632/hdyxb6hrg7
title: Data for: An Automated Machine-Learning-Assisted Stochastic-Fuzzy Multi-Criteria Decision Making Tool: Addressing Record-to-Record Variability in Seismic Design

description: The multi-criteria decision making (MCDM) dataset is presented for robust-to-uncertainty seismic dam design. It is associated with the “Appendix D Earthquake Engineering MCDM Dataset: Robust-to-Uncertainty Seismic Design” of a paper published in the Applied Soft Computing journal titled “An Automated Machine-Learning-Assisted Stochastic-Fuzzy Multi-Criteria Decision Making Tool: Addressing Record-to-Record Variability in Seismic Design”. Here, the results of the AutoML-assisted net outranking flow predictions (Φnet) for the design of experiments (DoEs) of [2000, 1000], considering all 20 alternatives and 18 ML techniques during intelligent dam design, are accessible.

As can be seen in the “Earthquake-Engineering-MCDM-dataset” Excel file, there are three spreadsheets: (i) Fuzzy Numbers; (ii) DoE=1000; and (iii) DoE=2000. In the “Fuzzy Numbers” spreadsheet, columns A and B denote alternative descriptions, and columns C to DB represent triangular trapezoidal fuzzy numbers (TFNs) for the calculated criteria. TFNs for the structural performance, design safety, and construction cost criteria are shown in columns C-AX, AY-CT, and CU-CX, respectively. For example, columns C-F represent TFNs for the first criterion (C1), G-J for the second one (C2), and CU-CX for the last criterion (C25).

The first 125 columns in the “DoE=1000” spreadsheet, columns A-DU, represent input parameters for the developed MCDM tool, while the last 20 columns, DV to EO, refer to the outputs. In detail, the first, second, third, fourth, and fifth groups of 25 columns are the generated criteria weights, preference functions, and preference thresholds (p, q, and s), respectively. The 20 alternatives, indicated by Φnet as our desired outputs, are shown in columns DV-EO. A similar description can be repeated for the “DoE=2000” spreadsheet, in which the input-output number of rows increased from 1000 to 2000, respectively, in this scenario.

Regarding the AutoML-aided predictions, the calculated error metrics are introduced in the “ML-Metrics-DoE1000.xlsx” and “ML-Metrics-DoE2000.xlsx” Excel files for DoEs of [1000, 2000], respectively. Each of these files includes 21 spreadsheets, in which the first 20 ones report the AutoML step performance metrics for each alternative, while the last one summarizes all the results. In the first 20 spreadsheets, columns A and B denote ML algorithms, whereas columns C-I stand for the calculated MAE, MSE, RMSE, R2, RMSLE, MAPE, and training time (TT), respectively. In the summary spreadsheet, column A represents to the alternative number, while columns B-H refer to the associated performance metrics for the best-tuned ML algorithms.
DOI: 10.17632/pv95z6cfgw
title: Differential energy loss probability for 1000 eV electrons in N2 gas.

description: Differential Cross section for 1000 eV electrons in N2 gas determined in the paper: "Method to correct ambient pressure XPS for the distortion caused by the gas" by SvenTougaard and Mark Greiner published in Applied Surface Science 2020: https://doi.org/10.1016/j.apsusc.2020.147243 Data structure: Energy loss T (eV), IMFP*K(T) (eV^-1) (where IMFP is the inelastic mean free path)