cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.19947881
title: Supplementary Material for: Absent Bodies: Psychotherapeutic Challenges during COVID-19

description: <b><i>Introduction:</i></b> The paper’s main aim is to analyze the theme of psychotherapy which, during the months of lockdown, has undergone a considerable transformation as it moved, in many cases, to the virtual modality. The scarce literature on this subject is divided between those who maintain that the screen establishes a relational distance between the patient and the therapist (disengagement theory) and those who instead consider it an element that stimulates and facilitates communication (stimulation theory). <b><i>Method:</i></b> Utilizing a qualitative and phenomenological interview, which allowed me to collect the testimonies of therapists and patients, I will try to understand if and how the fundamental components of psychotherapy and clinical encounter have changed. <b><i>Results:</i></b> I will describe how the lack of bodily resonance affects psychotherapy and emphasize the centrality of often-underestimated elements such as the atmosphere and setting. <b><i>Conclusion:</i></b> I will finally argue that what is missing is indeed an embodied trust which, in my view, is necessary for a successful therapeutic relationship.
DOI: 10.6084/m9.figshare.21524628
title: Supplementary Material for: Nature and Trends in Personal Payments Made to the Respiratory Physicians by Pharmaceutical Companies in Japan between 2016 and 2019

description: <b><i>Background:</i></b> Financial relationships between healthcare professionals and pharmaceutical companies have historically caused conflicts of interest and unduly influenced patient care. However, little was known about such relationship and its effect in clinical practice among specialists in respiratory medicine. <b><i>Methods:</i></b> Based on the retrospective analysis of payment data made available by all 92 pharmaceutical companies in Japan, this study evaluated the magnitude and trend of financial relationships between all board-certified Japanese respiratory specialists and pharmaceutical companies between 2016 and 2019. Magnitude and prevalence of payments for specialists were analyzed descriptively. The payment trends were assessed using the generalized estimating equations for the payment per specialist and the number of specialists with payments. <b><i>Results:</i></b> Among all 7,114 respiratory specialists certified as of August 2021, 4,413 (62.0%) received a total of USD 53,547,391 and 74,195 counts from 72 (78.3%) pharmaceutical companies between 2016 and 2019. The median (interquartile range) 4-year combined payment values per specialist were USD 2,210 (USD 715–8,178). At maximum, one specialist received USD 495,332 personal payments over the 4 years. Both payments per specialist and number of specialists with payments significantly increased during the 4-year period, with 7.8% (95% CI: 5.5–9.8; <i>p</i> &lt; 0.001) in payments and 1.5% (95% CI: 0.61–2.4; <i>p</i> = 0.001) in number of specialists with payments, respectively. <b><i>Conclusion:</i></b> The majority of respiratory specialists had increasingly received more personal payments from pharmaceutical companies for the reimbursement of lecturing, consulting, and writing between 2016 and 2019. These increasing financial relationships with pharmaceutical companies might cause conflicts of interest among respiratory physicians.
DOI: 10.15121/1578287
title: Utah FORGE: Phase 2C Topical Report

description: This is the topical report that wraps up the work and results achieved during Utah FORGE Phase 2C. The zip file includes several folders containing (1) an overview; (2) the results; (3) the lessons learned; and (4) the conclusions. It also contains a folder containing appendices including (1) the updated permitting inventory; (2) the updated site characterization data inventory; (3) the updated conceptual geological model; and (4) the stakeholders engagement and outreach status.
DOI: 10.5281/zenodo.6975558
title: Replication package for "An Exploratory Study on the Predominant Programming Paradigms in Python Code"

description: This dataset includes scripts and data files used to generate all analysis and results from the paper. A README.md file is included for details on using the scripts - though all of the data the scripts generate should already be cached and none of the scripts actually need run. It also includes a spreadsheet containing the human judgements from Table 4 of the paper. Always current source for the scripts is available on GitHub: https://github.com/psybers/python-paradigms
DOI: 10.25452/figshare.plus.21280752
title: High depth genome wide chromatin contact matrix

description: These high-depth meta-Hi-C chromatin contact matrices are surprisingly powerful in capturing long-range functional relationships of chromatin interactions, which are now able to predict coexpression, eQTLs, and cross-species relationships. For building the meta-Hi-C matrix, we uniformly processed 3619, 6732, and 487 Hi-C runs for Human, Mouse, and Fly respectively. The runs were obtained after querying Sequence Read Archive with field limitations of given species and Hi-C as experiment strategy. A genome-wide chromatin contact matrix was created for each run after mapping the reads to the same reference genome for each species. Reads were aligned to the hg38, mm10, and dm6 genomes in Human, Mouse and Fly respectively. All chromatin contact matrices for a species were aggregated to create the meta-Hi-C matrix. The genome-wide Hi-C matrices were divided into cis (intrachromsomal) and trans (interchromosomal). In cis, each chromosome is stored in a seperate matrix. In trans, the matrix is genome-wide but with no cis contacts (cis contacts are always 0 in this case). Here the cis contact matrices are available at 10KB and 1KB resolution for all three species. The trans contact matrices are available at 10KB resolution for all three species and additionally at 1KB resolution for Fly. The matrices are stored as *.h5 in HiCMatrix format (https://github.com/deeptools/HiCMatrix). HiCExplorer (https://hicexplorer.readthedocs.io/en/latest/) can be used to process these files or to convert them to other formats if desired. Meta-Hi-C matrices at several other resolutions are available for download via online tool at https://gillisweb.cshl.edu/HiC/ or direct download at https://labshare.cshl.edu/shares/gillislab/resource/HiC/
DOI: 10.4225/25/562ec3dde26c6
title: XYZ marine bathymetric grids of survey GA-2476 WA Margins onboard the RV Sonne

description: The WA Margins Reconnaissance survey, GA-2476 was acquired during October 2008 to January 2009 onboard the RV Sonne as part of the Energy Security Program. Almost 230,000 km� of multibeam bathymetry was acquired over the duration of the survey including all transits. Seafloor features revealed by the backscatter and swath bathymetry have shown that geomorphology of the study areas is diverse. The continental slope of the west Australian margin study areas is characterised by large areas with numerous deeply incised canyons and areas with low-angle slumps and scarps mostly on the upper part of the slope. Other geomorphic features on the continental slope include short escarpments of local extent and small volcanic peaks over the Houtman Sub-basin part of the Perth margin. New bathymetry from the Cuvier Plateau has mapped large volcanic domes, some of them with terraces, ridges, a large previously unmapped valley and two large seamounts (newly named the Cuvier Seamount and the Wallaby seamount). The dataset contains eight XYZ grids of 100m resolution; colour tiff images shaded with sun azimuth 45 degrees and a geotiff of the entire survey with a depth legend to go with the images.
DOI: 10.15131/shef.data.13194845.v1
title: PRIEST study anonymised dataset

description: The PRIEST study used patient data from the early phases of the COVID-19 pandemic. The PRIEST study provided descriptive statistics of UK patients with suspected COVID-19 in an emergency department cohort, analysis of existing triage tools, and derivation and validation of a COVID-19 specific tool for adults with suspected COVID-19. <br>For more details please go to the study website:<br>https://www.sheffield.ac.uk/scharr/research/centres/cure/priest<br>Files contained in PRIEST study data repository <br>Main files include:<br>PRIEST.csv dataset contains 22445 observations and 119 variables. Data include initial presentation and follow-up, one row per participant.PRIEST_variables.csv contains variable names, values and brief description.<br><br>Additional files include:<br>Follow-up v4.0 PDF - Blank 30-day follow-up data collection toolPandemic Respiratory Infection Form v7 PDF - Blank baseline data collection toolPRIEST protocol v11.0_17Aug20 PDF - Study protocolPRIEST_SAP_v1.0_19jun20 PDF - Statistical analysis plan<br>The PRIEST data sharing plan follows a controlled access model as described in Good Practice Principles for Sharing Individual Participant Data from Publicly Funded Clinical Trials. Data sharing requests should be emailed to priest-study@sheffield.ac.uk. Data sharing requests will be considered carefully as to whether it is necessary to fulfil the purpose of the data sharing request. For approval of a data sharing request an approved ethical review and study protocol must be provided. <br> The PRIEST study was approved by NRES Committee North West - Haydock. REC reference: 12/NW/0303 <br>
DOI: 10.5281/zenodo.6652892
title: SIAC validation data

description: This is the SIAC validation over AERONET and RadCalNet sites for S2 and L8. It contains the product IDs for both S2 and L8, the ground estimations of atmospheric parameters and surface reflectance from AERONET and RadCalNet individually.
DOI: 10.6084/m9.figshare.20193032
title: Supplementary Material for: A Propensity Score Matching Study on the Effect of OnabotulinumtoxinA Alone versus Short-Term Psychodynamic Psychotherapy Plus Drug-of-Choice as Preventive Therapy in Chronic Migraine: Effects and Predictive Factors

description: <b><i>Objective:</i></b> The objective of this study was to test the superiority of multidisciplinary approach, that is, Short-Term Psychodynamic Psychotherapy (STPP) plus drug of choice, versus monotherapy, that is, OnabotulinumtoxinA (OnaBoNT-A). <b><i>Method:</i></b> We consecutively recorded data from chronic migraine (CM) patients, with or without medication overuse headache (MOH), who underwent STPP or OnaBoNT-A, with a 3-month follow-up schedule. Headache days and analgesics intake were monitored as primary outcome measures. Propensity score matching (PSM) was used to eliminate discrepancies between groups. Discriminant function analysis (DFA) was used to pinpoint predictive factors associated with the clinical response. <b><i>Results:</i></b> 96 patients with CM (64% with MOH) were treated with STPP and 54 (59% with MOH) with OnaBoNT-A. At baseline, OnaBoNT-A patients had more failed preventive therapies, more years of illness and chronicity, and were older; STPP patients were more depressed and had a higher HIT-6. Both STPP and OnaBoNT-A patients showed a significant reduction of headache days (STPP: −14 vs. OnaBoNT-A:−14.3) and analgesics intake (STPP: −12,3 vs. OnaBoNT-A −13.5 pills/month), respectively. MOH diminished more in STPP, adherence was higher in OnaBoNT-A. Results were confirmed after PSM balancing of the groups for those variables that resulted as different (but age). <b><i>Conclusion:</i></b> OnaBoNT-A monotherapy produced similar results to psychotherapy plus medication, after correcting for baseline differences.
DOI: 10.6084/m9.figshare.21524631
title: Supplementary Material for: Comparison of Lung, Lobe, and Airway Volumes between Supine and Upright Computed Tomography and Their Correlation with Pulmonary Function Test in Patients with Chronic Obstructive Pulmonary Disease

description: <b><i>Background:</i></b> Correlations between upright CT and pulmonary function test (PFT) measurements, and differences in lung/lobe/airway volumes between supine and standing positions in patients with chronic obstructive pulmonary disease (COPD) remain unknown. <b><i>Objectives:</i></b> The study aimed to evaluate correlations between lung/airway volumes on both supine and upright CT and PFT measurements in patients with COPD, and compare CT-based inspiratory/expiratory lung/lobe/airway volumes between the two positions. <b><i>Methods:</i></b> Forty-eight patients with COPD underwent both conventional supine and upright CT in a randomized order during inspiration and expiration breath-holds, and PFTs within 2 h. We measured the lung/lobe/airway volumes on both CT. <b><i>Results:</i></b> The correlation coefficients between total lung volumes on inspiratory CT in supine/standing position and PFT total lung capacity and vital capacity were 0.887/0.920 and 0.711/0.781, respectively; between total lung volumes on expiratory CT in supine/standing position and PFT functional residual capacity and residual volume, 0.676/0.744 and 0.713/0.739, respectively; and between airway volume on inspiratory CT in supine/standing position and PFT forced expiratory volume in 1 s, 0.471/0.524, respectively. Inspiratory/expiratory bilateral upper and right lower lobe, bilateral lung, and airway volumes were significantly higher in the standing than supine position (3.6–21.2% increases, all <i>p</i> &lt; 0.05); however, inspiratory/expiratory right middle lobe volumes were significantly lower in the standing position (4.6%/15.9% decreases, respectively, both <i>p</i> &lt; 0.001). <b><i>Conclusions:</i></b> Upright CT-based volumes were more correlated with PFT measurements than supine CT-based volumes in patients with COPD. Unlike other lobes and airway, inspiratory/expiratory right middle lobe volumes were significantly lower in the standing than supine position.
DOI: 10.17036/researchdata.aston.ac.uk.00000587
title: E-, S-, C- and L-band coherent transmission with multistage discrete Raman amplifier
DOI: 10.5255/ukda-sn-6653-3
title: Life Opportunities Survey: Waves 1-2, 2009-2012
DOI: 10.5281/zenodo.3560620
title: Characterisation data of Nd- and Ce-doped uranium dioxide microspheres prepared via internal gelation

description: The preparation of Nd- and Ce-doped UO<sub>2</sub> microspheres was studied, applying the sol-gel method via internal gelation (IG). Un-doped, and <em>Ln</em>-doped ammonium diuranate (ADU) gels with <em>Ln</em> molar metal fractions up to 30 mol% and an increment of 5 mol% were prepared (<em>Ln</em> = Nd, Ce). The dried gels were characterised using optical microscopy (OM) and X-ray powder diffraction (XRD), additionally thermogravimetric differential scanning calorimetry (TG-DSC) measurements were carried out on un-doped microspheres and particles containing 10 mol% dopant. The ADU matrix of the dried particles is converted during a thermal treatment via U<sub>3</sub>O<sub>8</sub> into a UO<sub>2</sub> matrix, which was carried out by a calcination in air (900 °C, 1 h) and a sintering in a mixture of Ar:H<sub>2</sub> and Ar:O<sub>2</sub>, corresponding to an oxygen potential of about −420 kJ mol<sup>−1</sup> , at 1600 °C for 10 h. Calcined intermediates of the un-doped particle batch, and particles each doped with 10 mol% Nd and Ce, were analysed by XRD. Sintered products of all compositions were also characterised by XRD, and additionally via scanning electron microscopy (SEM). The micropraphs, XRD patterns, TG-DSC results and all data associated with the particle fabrication and characterisation, are part of this dataset.
description: Financial support for this research was provided by the European Commission (project: GENIORS - GEN IV Integrated Oxide fuels Recycling Strategies (755171)) and the Belgian FPS Economy (project: ASOF - Advanced Separation for Optimal management of spent Fuel).
DOI: 10.5281/zenodo.5014076
title: Flaky Test Dataset to Accompany "FlakeFlagger: Predicting Flakiness Without Rerunning Tests"

description: When developers make changes to their code, they typically run regression tests to detect if their recent changes (re)introduce any bugs. However, many tests are flaky, and their outcomes can change non-deterministically, failing without apparent cause. Flaky tests are a significant nuisance in the development process, since they make it more difficult for developers to trust the outcome of their tests. The traditional approach to identify flaky tests is to rerun them multiple times: if a test is observed both passing and failing on the same code, it is definitely flaky. We conducted a very large empirical study looking for flaky tests by rerunning the test suites of 24 projects 10,000 times each, and found that even with this many reruns, some flaky tests were still not detected. We propose FlakeFlagger, a novel approach that collects a set of features describing the behavior of each test, and then predicts tests that are likely to be flaky based on similar behavioral features. We found that FlakeFlagger correctly labeled at least as many tests as flaky as a state-of-the-art flaky test classifier, but that FlakeFlagger reported far fewer false positives (an increase in precision from just 11% to 60%). This lower false positive rate translates directly to saved time for researchers and developers who use the classification result to guide more expensive flaky test detection processes. By investigating the information gain of each feature, we conclude that test execution time, overall test coverage, coverage of recently changed lines and usage of third party libraries are effective predictors of test flakiness. We did not find any keywords or tokens in the source code of tests that were effective in predicting test flakiness, and did not find the presence of test smells to be effective in predicting test flakiness. This archive contains the dataset that we collected of flaky tests, along with the features that we collected from each test. Contents:<br> Project_Info.csv: List of projects and their revisions studied<br> build-logs-&lt;project-slug&gt;.tgz: An archive of all of the maven build logs from each of the 10,000 runs of that project's test suite. <br> failing-test-reports-&lt;project-slug&gt;.tgz An archive of all of the surefire XML reports for each failing test of each build of each project.<br> test_results.csv: Summary of the number of passing and failing runs for each test in each project. <br> "Run ID" is a key into the &lt;project-slug&gt;.tgz archive also in this artifact, which refers to the run that we observed the test fail on.<br> test_features.csv: Summary of the features that each test had, as per our feature detectors described in the paper<br> flakeflagger-code.zip: All scripts used to generate and process these results. These scripts are also located at https://github.com/AlshammariA/FlakeFlagger
description: This updated revision contains a corrected test_features.csv that contains exactly the set of tests used in our evaluation.
DOI: 10.6084/m9.figshare.7441301.v2
title: Landsat-8, Sentinel-3 OLCI IWV subset of Kullu valley for the autumn 2017 and winter 2018 season.

description: The MATLAB data file contains the subsets of Landsat-8 and Sentinel-3 OLCI IWV products. The Landsat-8 multispectral subset is FLAASH corrected reflectance. This data corresponds to the geographical location of Kullu valley in the state of Himachal Pradesh in India for the autumn 2017 and winter 2018 season.
DOI: 10.5066/p9368xhu
title: Digital Elevation Model of Glen Canyon Prior to the Flooding of Lake Powell from Historic Topographic Surveys, Utah and Arizona

description: Development of a high-resolution digital elevation model (DEM) of the pre-Glen Canyon Dam topography in Glen Canyon National Recreation Area, Utah and Arizona was initiated to assist the U.S. Geological Survey (USGS) in its Lake Powell coring program in the fall of 2018 (https://www.usgs.gov/centers/ut-water/science/lake-powell-coring). Topographic surveys of Glen Canyon were commissioned by the Bureau of Reclamation during the planning stages for Lake Powell as part of the Colorado River Storage Project (S. 500, 1956). The Colorado River arm was surveyed by Alster and Associates, Inc. in 1958 and 1959 at a contour interval of 10-feet from the river surface at the future dam site through where the 3,750-foot contour crosses the channel (above Hite, UT). The San Juan River arm was surveyed by Fairchild Aerial Surveys, Inc. in 1947 at a contour interval of 20-feet from the confluence between the San Juan and Colorado Rivers through where the 4,100-foot contour crosses the channel (east of Mexican Hat, UT), though this DEM only includes topography up to 3,800 feet. Digitization of these contour maps into vector data was finalized in 2019 by the USGS Utah Water Science Center. The National Park Service, Glen Canyon National Recreation Area and the Bureau of Reclamation, and Glen Canyon Environmental Studies contributed in the digitization (c. 1999). The hydrologically corrected, 2-meter DEM was developed with the Topo to Raster tool in ArcMap (v. 10.6.1). These data are provided as-is and may be subject to revisions without warrant or consent.
DOI: 10.17188/1207597
title: Materials Data on TiO2 by Materials Project

description: TiO2 is beta Vanadium nitride-like structured and crystallizes in the tetragonal I4_1/amd space group. The structure is three-dimensional. Ti4+ is bonded to six equivalent O2- atoms to form a mixture of distorted edge and corner-sharing TiO6 octahedra. The corner-sharing octahedral tilt angles are 25°. There is four shorter (1.95 Å) and two longer (2.01 Å) Ti–O bond length. O2- is bonded in a distorted T-shaped geometry to three equivalent Ti4+ atoms.
DOI: 10.5281/zenodo.14627
title: Powertac 2014-04 Qualifying 131-140

description: Log and boot files of games 131 - 140
DOI: 10.5281/zenodo.3525166
title: Improving Neutral Density Predictions Using Exospheric Temperatures Calculated on a Geodesic, Polyhedral Grid

description: These files provide supplemental data, additional graphs of neutral density predictions, and basic program code and required files, to accompany the paper "Improving Neutral Density Predictions Using Exospheric Temperatures Calculated on a Geodesic, Polyhedral Grid,” published in the journal <em>Space Weather, </em>doi:10.1029/2019SW002355. For more information, refer to the READ_ME.pdf documentation and the journal paper.
DOI: 10.5281/zenodo.5561990
title: Intelligence Task Ontology and Knowledge Graph (ITO)

description: The Intelligence Task Ontology and Knowledge Graph (ITO) provides a comprehensive, curated model of artificial intelligence tasks, benchmarks and benchmark results, including the biomedical domain.
DOI: 10.5281/zenodo.7048525
title: Generating Realistic Vulnerabilities via Neural Code Editing: An Empirical Study

description: Using a commonly used synthetic dataset and one real-world dataset, we investigate the potential and gaps of three state-of-the-art neural code editors (Graph2Edit, Hoppity, SequenceR) for DL-based realistic vulnerability data generation, and two state-of-the-art vulnerability detectors (Devign, ReVeal) to evaluate the effectiveness of the generated realistic vulnerability data. Once the users have Docker installed download the Docker image "neural_editors_vulgen_docker.tar.xz". Then, check the README.md for detailed steps of reproducing the experiments. Besides, we also provide the simple package of the artifact "neural_editors_vulgen.zip". The raw data of our experiments is also provided in this simple package. However, using it to reproduce the experiments requires the users to set up the enviroments and dependencies for all the five tools, which is not recommanded.
DOI: 10.6084/m9.figshare.21507798.v3
title: Supplemental data for article: Ammonium adduct chemical ionization to investigate anthropogenic oxygenated gas-phase organic compounds in urban air

description: This file contains ambient timeseries of calibration and uncalibrated ions measured using ammonium adduct chemical ionization in wintertime New York City, and the corresponding wind data.