cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.17632/89vv35pmhr
title: BIMBAMBUM: A potential flow solver for single cavitation bubble dynamics

description: In the absence of analytical solutions for the dynamics of non-spherical cavitation bubbles, we have implemented a numerical simulation solver based on the boundary integral method (BIM) that models the behavior of a single bubble near an interface between two fluids. The density ratio between the two media can be adjusted to represent different types of boundaries, such as a rigid boundary or a free surface. The solver allows not only the computation of the dynamics of the bubble and the fluid-fluid interface, but also, in a secondary processing phase, the computation of the surrounding flow field quantities. We present here the detailed implementation of this solver and validate its capabilities using theoretical solutions, experimental observations, and results from other simulation softwares. This solver is called BIMBAMBUM which stands for Boundary Integral Method for Bubble Analysis and Modeling in Bounded and Unbounded Media.
DOI: 10.17632/977x99yvc4
title: NAA Hematite data (Missouri and Illinois)

description: Neutron Activation Data for archaeological and geological hematites in central and western Missouri, as well as minimal samples from Illinois.  The data was produced at the Archaeometry Laboratory of the University of Missouri Research Reactor. Raw source samples were collected and analyzed originally by Rachel Popelka-Filcoff.  Later, source samples were reanalyzed and compared to archaeological hematites by Daniel Pierce and Rachel Popelka-Filcoff.  To use this data, one must perform Fe corrections to account for the great influence that Iron plays upon the overall compositional makeup of each sample.
DOI: 10.17632/xsw84zcy7k
title: Exploratory and neophilic behaviour of Podarcis siculus and Podarcis melisellensis

description: The Italian (Podarcis siculus) and Dalmatian (Podarcis melisellensis) wall lizards, which coexist in the Eastern-Adriatic, have similar ecological traits, although P. siculus has invasive potential and is often larger. To understand the mechanisms of coexistence, we measured exploratory behavior, activity levels, neophilia, neophobia, and repeatability in individuals of both sexes and both species that were taken from three sympatric wild populations (N=240).
DOI: 10.6084/m9.figshare.12629051.v5
title: AMBER Atlas of Instream Barriers in Europe

description: A geo-referenced database of 629,955 unique artificial instream barriers in 36 European countries produced by the AMBER Project (Adaptive Management of Barriers in European Rivers) funded under European Union’s Horizon 2020 Research and Innovation program, grant agreement No 689682<br>Data for Figure 1 and Table 1. Unique records of artificial instream barriers in Europe (from the AMBER BarrierAtlas)<br>Data for Figure 2, Extended Data Figure 4 and Extended Data Figure 5: Observed barrier densities, ground-truthed barrier densities, and modelled barrier densities for aggregated ECRINS sub-basins, including model inputs and residuals.<br>Data for Figure 3: Extent of barrier under-reporting.<br>Data for Extended Data Table 1 and Extended Data Figure 3. Results of river walkover surveys used to ground-truth barrier records<br>Extended Data Table 2. Comparisons of barrier densities (barriers per kilometre) in Europe and elsewhere using a common river network (HydroSHEDS)<br>Extended Data Table 3. Incidence of barrier duplicates and duplicate exclusion criteria.<br>Extended Data Figure 2: height of artificial barriers &gt; 0.1 m found in European rivers<br>GIS data for Extended Data Figure 3: location of test reaches used to ground truth the AMBER Barrier Atlas during walkover surveys.<br>Extended Data Figure 4f: Mean Decrease Impurity (MDI) of barrier density model parameters<br>Barrier Database sources for Table 1. <br>Published in Nature: https://doi.org/10.1038/s41586-020-3005-2<br>See also https://amber.international/
DOI: 10.6084/m9.figshare.28830971.v1
title: Supplementary Genomic Data: Antimicrobial Resistance and Virulence Profiles of <i>Vibrio alginolyticus</i> Isolated from Marine Water of Saint Martin Island, Bangladesh

description: This dataset includes the outputs from ResFinder, CARD (Comprehensive Antibiotic Resistance Database), and VFDB (Virulence Factor Database) analyses of <i>Vibrio alginolyticus</i> strain NGCXV-111A, isolated from marine water of Saint Martin Island, Bangladesh. The strain was subjected to whole-genome sequencing followed by annotation and resistome/virulome analysis. These supplementary files support the findings reported in the manuscript titled:<br>"Genome Report of <i>Vibrio alginolyticus</i> from Marine Water of Saint Martin Island, Bangladesh."
DOI: 10.17632/7ncw242ymh
title: pyerrors: A python framework for error analysis of Monte Carlo data

description: We present the pyerrors python package for statistical error analysis of Monte Carlo data. Linear error propagation using automatic differentiation in an object oriented framework is combined with the Γ-method for a reliable estimation of autocorrelation times. Data from different sources can easily be combined, keeping the information on the origin of error components intact throughout the analysis. pyerrors can be smoothly integrated into the existing scientific python ecosystem which allows for efficient and compact analyses.
DOI: 10.6084/m9.figshare.7672139.v1
title: Additional file 9 of Understanding the evolutionary trend of intrinsically structural disorders in cancer relevant proteins as probed by Shannon entropy scoring and structure network analysis

description: Shannon entropy score of proteins under RNA-binding protein 38 protein family responsible for lymphoma. (XLSX 11 kb)
DOI: 10.4121/14510817.v3
title: STORM climate change tropical cyclone wind speed return periods

description: Datasets containing tropical cyclone maximum wind speed (in m/s) return periods, generated using the STORM climate change datasets (see <sub>https://figshare.com/s/397aff8631a7da2843fc</sub>) Return periods were empirically calculated using Weibull's plotting formula. The STORM_FIXED_RETURN_PERIOD datasets contain maximum wind speeds for a fixed set of return periods at 10 km resolution in every basin and for every climate model used here (see below). The STORM_FIXED_WIND_SPEED dataset contains return periods for a fixed set of maximum wind speeds at 10 km resolution in every ocean basin. The STORM_CITIES dataset contains return periods at fixed wind speeds and wind speeds at fixed return periods (on two seperate sheets), occurring within 100 km from a selection of 18 coastal cities. The STORM_ISLANDS contains return periods at fixed wind speeds and wind speeds at fixed return periods (on two seperate sheets), occurring within 100 km from the capital city of an island. We included the Small Island Developing States and a set of other islands. <br> UPDATE 13/05/2022 & 30/05/2022: The data directory now also contains .tif files for the fixed wind speeds and fixed return period maps. These .tif files can be used in GIS applications in case the netcdf-files cannot be loaded in. A special thanks to Bastian Manz for writing the code to create the tif files!
DOI: 10.6084/m9.figshare.106399.v11
title: Altmetric Fieldwork: 30 Humanities Articles with the Highest Altmetric Scores (as of 9 January 2013; 13:30 GMT)

description: The data shared here was obtained with the Altmetric Explorer and was used as the basis of a blog post by Ernesto Priego at the Altmetric blog.
The complete dataset is based on an Altmetric Explorer Report updated on Wednesday 9 January 2013, including papers with the keyword "humanities" in the title which were mentioned any time on social media at least once.
All article and metrics information included in this dataset was obtained using the Altmetric Explorer and was correct at the time of collecting the data. Social media moves quickly and live Altmetric article details may differ to the ones included in this file.
DOI: 10.6084/m9.figshare.24597111.v1
title: SBM-VIS dataset

description: The zip file only contains the SBM-VIS dataset. SBM-VIS means Social Black Mice-Video Instance Segmentation, which is arranged according to the format of the video instance segmentation task.
DOI: 10.6084/m9.figshare.26792728.v1
title: Competency based curriculum in Bangladesh

description: This study investigates teachers' perceptions and adaptations to implementing the Competency-Based Curriculum (CBC) within Bangladesh's secondary education context. It follows a qualitative approach to get in-depth perceptions. The research comprised comprehensive interviews with 32 teachers from government and non-government secondary schools across eight divisions in Bangladesh. A purposive sampling technique was employed to select teachers from varied socioeconomic and geographical backgrounds, ensuring a diverse participant cohort. The data were subjected to thematic analysis, identifying six principal themes: perceptions of the CBC, perspectives on curriculum assessment, teachers' adaptation to the curriculum, views on curriculum implementation, preparedness for the curriculum, and associated challenges. The results indicate that, although teachers express optimism regarding the CBC's capacity to enhance student engagement and practical skills, substantial apprehensions exist concerning the readiness of the education system, training system, teacher preparedness, and the assessment process. The study underscores the need for comprehensive support, targeted training, and improved infrastructure to facilitate effective CBC implementation and its successful integration into the Bangladeshi education system.
DOI: 10.6084/m9.figshare.27756309.v1
title: GlobeDoc Platform Deposits.pdf

description: <b><i>GlobeDoc Platform Deposits</i></b><i> information </i><i>file in the repository</i>
DOI: 10.6084/m9.figshare.28156766.v2
title: Great Salt Lake MAGs

description: Great Salt Lake-derived (bacteria and archaea) metagenomic assembled genomes.
DOI: 10.6084/m9.figshare.5772576.v1
title: Cross laminated timber: technological, construction and dimensioning aspects

description: ABSTRACT Cross laminated timber panels (CLT) are formed by large-sized orthogonally arranged wood layers bonded with structural adhesive under high pressure. The cross-lamination system provides to the CLT to work as a rigid and self-supporting structural element. In addition, they are thermal and acoustic insulation and have a good resistance in fire situations. They are used as structural and closing elements in multi-floor constructions and this constructive system can be considered more sustainable, which generates less impact to the environment, compared to traditional Brazilian solutions. Wood is a renewable natural resource and when used in construction it plays an important role for the environment: storing CO2 and using low energy for its manufacture and application when compared to conventional materials used in construction such as steel, concrete and aluminum. In these structures design there is still no universally accepted analytic approach by CLT designers and manufacturers. In this work, the CLT panels used as floor or roof slabs subject to bending are dimensioned the most important methods used. The results were compared and it was concluded that the more accurate methods consider the rigidity and structural resistance of all layers. Greater precision in the designing of the CLT panels contributes to sustainable engineering as it optimizes the use of the material in the structure.
DOI: 10.17632/6p62jgsmnm
title: Dynamic tensile CFRP AP-PLY data

description: Dynamic tensile test data from experiments conducted on carbon fiber epoxy AP-PLY composites. A paper with a complete description of the data collection process is under review. This description will be updated with a link to the paper in due time.

RESEARCH AIMS
Quasi-isotropic [0, 45, 90, -45]4S and cross-ply [0, 90]12S laminates with conventional or AP-PLY configurations were tested to failure under dynamic tensile loading using a split-Hopkinson bar, to investigate the effect of the AP-PLY architecture on the in-plane mechanical properties of the laminates (specifically longitudinal modulus and strength).

TESTING PROCEDURE
Laminates were manufactured using SHD Composites VTC401 unidirectional prepregs (VTC401-UD300-T700-24K-36%RW-600P SHD1579-600P). Laminates were laid up by hand, and subsequently cured in a hot press at 110 degrees centigrade at a pressure of 4 bar. Dogbone shaped specimens were extracted using CNC milling. Four holes were drilled into the ends of each specimen to allow them to be clamped in the split-Hopkinson bar grips. Aluminium end tabs were adhered to the specimens using epoxy adhesives (Araldite 2021 and Permabond ET5428). Specimens dimensions are illustrated in the "specimen_dimensions.pdf" included with the data. 

Testing was conducted at the European Commission's Joint Research Center, specifically, the European Lab for Structural Analysis HopLab (https://joint-research-centre.ec.europa.eu/laboratories-and-facilities/european-laboratory-structural-assessment-large-hopkinson-bar-facility-elsa-hoplab_en). Specimens were loaded to failure at strain rates of ~30s-1 using an extremely large split Hopkinson bar. Strains were recorded using 2D digital image correlation, forces were obtained from transducers in the SHB.

DATA FORMAT
Data is provided in .csv format. "QI" is used to indicate a quasi-isotropic laminate with 0, 45, 90, and -45 degree fiber orientations. "XP" denotes cross-ply laminates containing only 0 and 90 degree plies. Filenames containing "_AP_PLY"  refer to specimens with an AP-PLY quasi-woven internal architecture. Filenames containing "_BASE"  refer to baseline, non AP-PLY specimens.

Column headings are: index (-), Time (s), Strain (-), Stress (MPa)
DOI: 10.17632/g42gt8925t
title: Data for: A Multi-Criteria Decision Support Tool for Biorefinery Siting: Using Economic, Environmental, and Social metrics for a Refined Siting Analysis

description: This spreadsheet provides the individual datasets used to develop the economic, environmental, and social siting criteria used in the MCDA decision support tool. In some cases, only the output of models used to develop the datasets is provided. Tab 1 provides sample output from the Total Transportation Cost Model to show how the individual biomass source points are routed to a given pulp mill, and the transportation and environmental costs are used to develop the feedstock, environmental, and # of jobs created siting criteria.
DOI: 10.6084/m9.figshare.13077479.v2
title: burnout_final_open.dta

description: We conducted a multicentre study from June to August 2019. Pediatric trainees from all (15) pediatric training institutions in Indonesia. The pediatric specialist training institutions have the same curricullum, which is developed by the Indonesian Child Health College. Nevertheless, there is a space for each institution to modify the curriculum based on the local condition and available resources. A final national exam is conducted four times in a year, organized by the national College as one of the strategies to ensure standardized curricula among institutions. All pediatric trainees who were registered as an active trainee during the study period, were invited to involve in this survey. The data was collected online and self administered by the trainees with guaranteed confidentiality of identity. Implied informed consent was obtained from participants by completing the online questionnaire. A General Oldenburg Burnout Inventory (OLBI) questionnaire, which was translated into Indonesian language by forward-backward translation by certified translator, was used to assess burnout. Demographic data (such as age, gender, marital status), the year of training and the training stages (junior, intermediate and senior) were also collected along with the OLBI questionnaire. Incomplete questionnaires were excluded from the analysis. The OLBI questionnaire comprises 16 questions (8 positive and 8 negative statements, 8 questions measuring exhaustion and another 8 questions measuring disengagement). Items for exhaustion were numbers 2(R), 4(R), 5, 8(R), 10, 12(R), 14, 16. Items for disengagement were 1, 3(R), 6(R), 7, 9(R), 11(R), 13, 15. (R) means reversed item for positive statements. The questionnaire uses a 4-point Likert scale (1 strongly agree, 2 agree, 3 disagree, 4 strongly disagree for positive statements; and 1 strongly disagree, 2 disagree, 3 agree, 4 strongly agree for negative statements)(Demerouti & Bakker, 2008). The interpretation of the result of the survey followed the standard interpretation of OLBI, which devided into two domains, exhaustion and disengagement. The mean score for exhaustion and disengagement (2.58 and 2.50, respectively) were used to define standard deviation. The degree of exhaustion and disengagement were classified using SD score as vigor/dedicated (&lt;=0 SD); mild (&gt;0 - +1 SD); moderate (&gt;+1 - +2 SD); and severe (&gt;+2 SD). The study obtained ethics approval from the Health Research Ethics Committee of the Dr. Moewardi General Hospital Faculty of Medicine Universitas Sebelas Maret, Indonesia (Number 909c/VII/HREC/2019).
DOI: 10.6084/m9.figshare.20191676.v2
title: Survey Sheet

description: Online collected data
DOI: 10.6084/m9.figshare.22340905.v1
title: Supplementary Material for: Case Report Successful preoperative QUAD SHOT for bulky parotid carcinoma: Potential preopetative ultra-hypofractionated radiotherapy for conversion surgery

description: QUAD SHOT is an ultra-hypofractionated radiotherapy (RT) technique that prescribes 14.0–14.8 Gy over 2 days. Although this technique has already gained some status as an effective palliative treatment for inoperable head and neck cancer (HNC), its application in other situations has not been given much consideration. Herein, we report a case of a 62-year-old woman who received preoperative QUAD SHOT therapy for poorly differentiated parotid carcinoma. In this case, after two courses of QUAD SHOT plus a standard chemotherapy regimen with pembrolizumab, the patient’s inoperable bulky tumor shrank dramatically and became operable. Best of all, while adequate therapeutic effects were achieved, the patient’s time commitment and physical exertion were limited. RT during this period consisted of only eight fractions over four days. According to previous reports, the response rate for QUAD SHOT is sufficiently high, and the rate of serious adverse events is quite low. This case asks the question of whether the indications for QUAD SHOT irradiation can be expanded as one of the preoperative interventions undertaken by HNC surgeons to achieve conversion surgery.
DOI: 10.6084/m9.figshare.24681066.v2
title: Long-term effects of widespread pharmaceutical pollution on trade-offs between behavioural, life-history, and reproductive traits in fish

description: In our rapidly changing world, understanding how species respond to shifting conditions is of paramount importance. Pharmaceutical pollutants—ubiquitous in aquatic ecosystems globally—are a major ecological concern. Yet their impacts on animal behaviour, life history, and reproductive investment remain poorly understood, especially in the context of intraspecific variation in ecologically important traits that facilitate species’ adaptive capacities. We test whether a widespread pharmaceutical pollutant, fluoxetine (Prozac), disrupts the trade-off between individual-level (co)variation in behavioural, life history, and reproductive traits of wildlife. To do so, we exposed the progeny of wild-caught guppies (<i>Poecilia reticulata</i>) to environmentally realistic levels of fluoxetine for five years, across multiple generations. We used 12 independent laboratory populations and repeatedly quantified activity and risk-taking behaviour of male guppies, capturing both mean behaviours and variation within and among individuals across exposure treatments. We also measured key life-history traits (body condition, colouration, and gonopodium size) and assessed post-copulatory sperm traits (sperm vitality, number, and velocity) that are known to be under strong sexual selection in polyandrous species. Intraspecific (co)variation of these traits was analysed using a comprehensive, multivariate statistical approach. At the population level, fluoxetine had a dose-specific (mean) effect on the life history and sperm traits of guppies: pollutant exposure improved male body condition and increased gonopodium size, but reduced sperm velocity. At the individual level, fluoxetine reduced the behavioural plasticity of guppies by eroding their within-individual variation in both activity and risk-taking behaviour. Fluoxetine also altered among-individual correlations between pace-of-life syndrome traits: it triggered the emergence of correlations between behavioural and life-history traits (e.g., activity and body condition) and between life-history and sperm traits (e.g., gonopodium size and sperm vitality), but collapsed other among-individual correlations (e.g.,  activity and gonopodium size). Our results reveal that chronic exposure to global pollutants can affect phenotypic traits at both population and individual levels, and even alter individual-level correlations among such traits in a dose-specific manner. Our work highlights the need to integrate individual-level analyses and test behaviour in association with life-history and reproductive traits to fully understand how animals adjust to human-induced environmental change.
DOI: 10.6084/m9.figshare.27058822.v1
title: Manganese geochemical cycling driven by fluctuating redox chemocline in the Ediacaran ocean

description: The oceanic redox configuration was stratified and oscillational in continental marginal slope during the deposition of Ediacaran Doushantuo FormationThe paleoclimate variations influenced basin hydrochemistry and organism activity to trigger the fluctuations of redox chemoclineThe fluctuations of the redox chemocline in slope regulated the unique Mn cycling and mineralization in the late Ediacaran ocean
DOI: 10.17632/fsn6dkcvrv
title: Atom-centered machine-learning force field package

description: In recent years, machine learning algorithms have been widely used for constructing force fields with an accuracy of ab initio methods and the efficiency of classical force fields. Here, we developed a python-based atom-centered machine-learning force field (PyAMFF) package to provide a simple and efficient platform for fitting and using machine learning force fields by implementing an atom-centered neural-network algorithm with Behler-Parrinello symmetry functions as structural fingerprints. The following three features are included in PyAMFF: (1) integrated Fortran modules for fast fingerprint calculations and Python modules for user-friendly integration through scripts and facile extension of future algorithms; (2) a pure Fortran backend to interface with the software, including the long-timescale dynamic simulation package EON, enabling both molecular dynamic simulations and adaptive kinetic Monte Carlo simulations with machine-learning force fields; and (3) integration with the Atomic Simulation Environment package for active learning and ML-based algorithm development. Here, we demonstrate an efficient parallelization of PyAMFF in terms of CPU and memory usage and show that the Fortran-based PyAMFF calculator exhibits a linear scaling relationship with the number of symmetry functions and the system size.