cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.10806046
title: Topological Data Analysis of Monopoles in U(1) Lattice Gauge Theory — Data Release

description: This release contains data used to prepare the publication X. Crean, J. Giansiracusa and B. Lucini, Topological Data Analysis of Monopoles in U(1) Lattice Gauge Theory (2024). There exists an accompanying software release that explains in detail how to extract and use the compressed data files on a Linux distribution (or compatible environment).
description: XC was supported by the Additional Funding Programme for Mathematical Sciences, delivered by EPSRC (EP/V521917/1) and the Heilbronn Institute for Mathematical Research. JG was supported by EPSRC grant EP/R018472/1 through the Oxford-Liverpool-Durham Centre for Topological Data Analysis. The work of BL was partly supported by the EPSRC ExCALIBUR ExaTEPP project EP/X017168/1 and by the STFC Consolidated Grants No. ST/T000813/1 and ST/X000648/1. Numerical simulations have been performed on the Swansea SUNBIRD cluster, part of the Supercomputing Wales project. Supercomputing Wales is part funded by the European Regional Development Fund (ERDF) via Welsh Government.
DOI: 10.5281/zenodo.4290767
title: PsPM-VIS: SCR, ECG, respiration and eyetracker measurements in a delay fear conditioning task with visual CS and electrical US

description: This dataset consists of a three-block experiment conducted with 29 healthy unmedicated participants (17 females and 12 males aged 25.3 +/- 3.7). The experiment contains a classical (Pavlovian) discriminant delay fear conditioning test. CSs are 2 full-screen fractals of approximate brightness, contrast, and spatial frequency. US is a train of electric square pulses delivered with a constant current stimulator on participants' dominant forearm through a pin-cathod/ring-anode configuration. SOA between the CS and US is 3.5 s. The first 2 blocks are fear acquisition, with 15 CS+US+, 15 CS+US-, and 30 CS- in each block, and the last block is an extinction phase with 20 CS- and 20 CS+ trials without US delivery. The order of trials in each block was randomized. No fixation cross was presented during CS. ITI is randomly determined on each trial to be an integer between 7 - 11 s. During ITI, a black fixation cross was presented in the center of a grey background (RGB 0.7, 0.7, 0.7). The blocks were recorded on the same day with a self-paced break. For all three blocks this dataset contains skin conductance responses (SCR), electrocardyogram (ECG), respiration, pupil size (PSR), and gaze coordinates measurements.
description: This work was supported by: - the University of Zurich's Clinical Research Priority Program for the CRPP Synapse and Trauma - the European Research Council Consolidator Grant 816564 "ActionContraThreat" -the Wellcome Centre for Human Neuroimaging, funded by strategic grant from the Wellcome Trust 205103/Z/16/Z
DOI: 10.5281/zenodo.6793367
title: The AUTOTYP database

description: AUTOTYP is a large-scale research program with goals in both quantitative and qualitative typology. This release contains the full raw data from the AUTOTYP databases along with metadata, aggregated datasets and aggregation scripts. Please cite as: Bickel, Balthasar, Nichols, Johanna, Zakharko, Taras, Witzlack-Makarevich, Alena, Hildebrandt, Kristine, Rießler, Michael, Bierkandt, Lennart, Zúñiga, Fernando & Lowe, John B. 2022. The AUTOTYP database (v1.1). https://doi.org/10.5281/zenodo.6793367 <strong>Release 1.1.0 summary</strong> The main changes in this release are: A new CLDF export, kindly contributed by Robert Forkel Revamp of the verb synthesis datasets which has been renamed to<br> <code>MaximallyInflectedVerbSynthesis</code> (see below) Enhancements to <code>GrammaticalRelations</code> Important: this release introduces breaking changes to the Morphology module. Important changes are listed below. Refer to the changelog for a more detailed list. <strong>CLDF export</strong> A CLDF export of AUTOTYP database was one of the most requested features since the new release.<br> We are very thankful to Robert Forkel for writing the code that generates a CLDF dataset of<br> AUTOTYP data. Starting from AUTOTYP 1.1.0 there is a CLDF dataset in <code>data</code>. The accompanying<br> Python scripts used to generate this export can be found in the repository<br> autotyp/autotyp-cldf-scripts <strong>Revamp of verb synthesis datasets in the Morphology module</strong> We wanted to clarify that the verb synthesis dataset in the Morphology module describes<br> maximally inflected verb forms only rather than all attested verb forms. To make this more<br> obvious we have renamed the affected datasets to include the phrase <code>MaximallyInflected</code> as well as<br> updated the variable metadata to clarify this point. Thus: <code>VerbSynthesis</code> becomes <code>MaximallyInflectedVerbSynthesis</code> <code>VerbInflectionAndAgreementCountsByPosition</code> becomes <code>MaximallyInflectedVerbInflectionAndAgreementCountsByPosition</code> <code>VerbAgreementAggregatedByMarkerPosition</code> becomes <code>MaximallyInflectedVerbAgreementAggregatedByMarkerPosition</code> <code>VerbInflectionCategoriesAggregatedByMarkerPosition</code> becomes <code>MaximallyInflectedVerbInflectionCategoriesAggregatedByMarkerPosition</code> etc. This is a breaking change. <strong>Enhancements to <code>GrammaticalRelations</code></strong> Multiple new variables that describe properties of grammatical relations have been added to<br> <code>GrammaticalRelations</code> dataset. Please refer to the list of changes below.
DOI: 10.5517/ccdc.csd.cc2cxvms
title: CCDC 2202476: Experimental Crystal Structure Determination

description: Related Article: William N. G. Moore, Victor W. Day, and James D. Blakemore|2022|CSD Communication|||
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.57892/100-70
title: SowOrientation: An Image Dataset for the Automated detection of Sow Body Parts and Newborn Piglets

description: If you use this dataset, please reference: Wutke, M., Lensches, C., Hartmann, U. and Traulsen, I., 2024. Towards automatic farrowing monitoring - a Noisy Student approach for improving detection performance of newborn piglets, PLOS ONE, 10.1371/journal.pone.0310818
DOI: 10.5967/dzg5-0q88
title: Dataset of Ethics-Focused Design Methods
DOI: 10.6084/m9.figshare.25398226
title: Supplementary Material for: The intake of cruciferous vegetables and the risk of ovarian cancer: a systematic review and dose-response meta-analysis

description: Introduction: The link between cruciferous vegetables (CVs) and ovarian cancer (OC) is still uncertain. This meta-analysis intended to investigate the association between CVs consumption and the risk of OC, as well as to conduct a dose-response analysis to determine the degree of correlation between them. Methods: We systematically searched PubMed, Web of Science, Embase, and Cochrane Library databases between database creation and October 2023. The present meta-analysis has been duly registered and assigned the registration number CRD42023470299. This study followed the PRISMA guidelines. The statistical analysis was performed using Stata 14.0 software. Results: There were a total of 7 cohort studies and 7 case-control studies with 7,269 cases and 742,952 subjects. The combined relative risk (RR) of the highest intake of CVs was 0.90 (95% confidence intervals [CIs]: 0.84-0.96; I2=54.7%; P=0.007) compared to the lowest intake of CVs. The odds ratio (OR) was 0.97 (95% CIs: 0.86–1.08; P=0.192) for case–control studies, and the RR was 0.79 (95% CIs: 0.67–0.91; P=0.167) for cohort studies. The intake of CVs and the risk of OC were linearly correlated. Adding 15 grams of CVs to the diet each day decreased the likelihood of developing OC by almost 4% (RR=0.963, 95% CIs: 0.905-1.025; P=0.235). Conclusions: Consumption of CVs may be linked to a lower risk of OC.
DOI: 10.6084/m9.figshare.26076514
title: Genome assembly and annotation of the American sweetgum (Liquidambar styraciflua)

description: Lst.genome.fasta: genome assembly file of Liquidambar styracifluaLst.gene.gff: genome structure annotation file of Liquidambar styracifluaLst.cds.fasta: coding sequence file of Liquidambar styracifluaLst.pep.fasta: protein sequence file of Liquidambar styraciflua
DOI: 10.6084/m9.figshare.26402599
title: Supplementary Material for: Endobronchial Closure for Peripheral Pulmonary Air Leakage

description: Introduction: A minimally invasive alternative to surgery for treating pneumothorax has been developed, aiming to reduce risks while maintaining efficacy. This study conducted basic experiments using Ex vivo and in vivo pig lung employing a super-thin catheter for treatment. This new device injects fibrin glue directly into the responsible lesion to close the air leak, which has two features; thin design and double-lumen.
Methods: The experimental setup involved utilizing trachea and both lung specimens from pigs under positive pressure ventilation. To simulate pneumothorax, artificial fistulas were created on the lung surfaces. The super-thin catheter, guided through a bronchoscope near the fistula, was used to embolize the peripheral bronchus by injecting a fibrin preparation. Then, an air leak test was conducted afterward to assess the efficacy of the treatment. Additionally, a similar pneumothorax model was induced in alive pig under general anesthesia to evaluate its curability.
Results: In the extracted pig lungs, embolization was performed in 21 cases, resulting in the cessation of air leaks in 19 cases, corresponding to a 90.5% cure rate. Notably, no major adverse events occurred with the treatment devices. Similarly, in living pigs, pneumothorax was successfully treated, with no recurrence observed up to the seventh postoperative day.
Conclusion: The novel treatment device utilizing a super-thin catheter offers a minimally invasive and highly curative option for pneumothorax. These promising results suggest the potential for further development and human clinical trials, which could revolutionize the treatment of pneumothorax, reducing risks and improving outcomes.
DOI: 10.6084/m9.figshare.26868883
title: Supplementary Material for: Exploring Diagnostic and Therapeutic Odyssey in Pulmonary Arterial Hypertension: Insights from In-Depth Semi-Structured Interviews

description: Introduction
Establishing a diagnosis is paramount in medical practice as it shapes patients' experiences and guides treatment. Patients grappling with rare diseases face a triple challenge: prolonged diagnostic journeys, limited responses to existing therapies, and the absence of effective monitoring tools. Genetic diagnosis often provides crucial diagnostic and prognostic information, opening up possibilities for genotype-targeted treatments and facilitating counselling and relative testing. The NIHR BioResource - Rare Diseases (NBR) Study and the Cohort study in idiopathic and hereditary pulmonary arterial hypertension (PAH Cohort study) aimed to enhance diagnosis and treatment for PAH, successfully identifying the genetic cause in 25% of idiopathic cases. However, the diagnostic and therapeutic odyssey in patients with PAH remains largely unexplored.
Methods
Stakeholders from the NBR and PAH Cohort studies were recruited using purposive sampling. In-depth interviews and focus groups were recorded, transcribed, anonymised, and analysed thematically using MAXQDA software.
Results
The study involved 53 interviews and focus groups with 63 participants, revealing key themes across five stages of the diagnostic odyssey: initial health concerns and interactions with GPs, experiences of misdiagnosis, relief upon receiving the correct diagnosis, and mixed emotions regarding genetic results and the challenges of living with the disease. Following the diagnosis, participants embarked on a therapeutic journey, facing various challenges, including the disease's impact on professional and social lives, the learning curve associated with understanding the disease, shifts in communication dynamics with healthcare providers, therapeutic hurdles, and insurance-related issues. Building on these insights, we identified areas of unmet needs, such as improved collaboration with primary care providers and local hospitals, the provision of psychological support and counselling, and the necessity for ongoing patient education in the ever-evolving realms of research and therapy.
Conclusions
The study highlights the significant challenges encountered throughout the diagnostic and therapeutic journey in PAH. To enhance patient outcomes, it is crucial to raise awareness of the disease, establish clear diagnostic pathways, and seamlessly integrate genetic diagnostics into clinical practice. Streamlining the diagnostic process can be achieved by utilising existing clinical infrastructure to support research and fostering better communication within the NHS. Moreover, there is an urgent need for more effective therapies alongside less burdensome drug delivery methods.
DOI: 10.6084/m9.figshare.26885662
title: Supplementary Material for: Ultra-processed foods consumption is positively associated with the clinical activity of inflammatory bowel diseases - a cross sectional single center study

description: Introduction: Western diet pattern and its food components have been suggested to impact inflammatory bowel diseases (IBD) clinical course. However, the importance of food processing level is uncertain. We aimed to evaluate whether the intake of foods with varying processing levels is associated with disease activity in IBD patients. 
Methods: This cross-sectional study was performed at a tertiary center between August 2019 to June 2022. Consecutive adult IBD patients were recruited. Clinical disease activity was defined using HBI (Crohn's disease) and SCCAI (ulcerative colitis). Dietary intake was assessed using a food frequency questionnaire (FFQ) and a dedicated validated processed food questionnaire (PFQ) that categorizes dietary intake into three groups of processed food levels: unprocessed/minimally processed, processed, and ultra-processed. Adjusted odds ratios for active disease were determined using a multivariable logistic regression. 
Results: A total of 242 IBD patients (62.8% Crohn’s disease patients) were enrolled, of whom 73.1% were in clinical remission. A higher (upper tertile vs. lowest tertile) unprocessed/minimally processed foods consumption was negatively associated with active disease (OR=0.38, 95%CI 0.14-0.99), while high consumption of ultra-processed foods (UPFs) was positively associated with clinically active disease (OR=3.82, 95%CI 1.49-9.8). Consumption of UPF groups, almost invariably, were positively associated with clinically active disease, while consumption of the ultra-processed meats group, had the strongest association (OR=4.45, 95%CI 2.07-9.79). 
Conclusion: Higher consumption of UPFs is positively associated with clinically active IBD, while higher consumption of unprocessed/minimally processed foods may be protective. Prospective studies are needed to confirm these associations.
DOI: 10.6084/m9.figshare.26892367
title: Supplementary Material for: Initial Experience of Long-Term Prophylaxis with Lanadelumab for Hereditary Angioedema in China: A Clinical Observation Study on Six Patients

description: Introduction: Hereditary angioedema (HAE) is a rare genetic disorder caused by deficiency or dysfunction of C1-esterase inhibitor that is characterized by recurrent episodes of bradykinin-mediated edema. Lanadelumab has been the only available first-line therapy for long-term prophylaxis (LTP) of HAE in China since its approval in 2020. The present study aimed to investigate the clinical efficacy and safety of lanadelumab for LTP in Chinese patients. 
Methods: A retrospective clinical data were collected for the six patients and used to examine the frequency of attack symptoms, disease-related loss of work days, and quality of life before and after LTP with lanadelumab. Health-related quality of life was assessed using the Dermatology Life Quality Index (DLQI) and the Angioedema Quality of Life Questionnaire (AE-QoL). 
Results: Lanadelumab led to reductions of 97.8% and 98.5% in the attack rate and treated attack rate, respectively. All patients exhibited significant improvements in AE-QoL and DLQI scores (100% reduction rates) during the early treatment period (4 weeks and 2 weeks, respectively) and in missed work days/year (98.9% reduction rate). The efficacy of lanadelumab remained stable during COVID-19 vaccination and infection. No serious/severe treatment-emergent adverse events occurred during lanadelumab treatment. 
Conclusion: This study is the first report that demonstrates the clinical efficacy of lanadelumab and safety of LTP in HAE patients from Chinese mainland. A reasonable dosage plan can ensure a quick and long lasting protective role of lanadelumab against HAE attacks, during COVID-19 pandemic period.
DOI: 10.6084/m9.figshare.27143373
title: Supplementary Material for: Variability in Body Mass Index During 2018-2021 for People with Type 1 Diabetes: Real world data from USA, Germany and Australasia.

description: Introduction:
The COVID-19 pandemic necessitated worldwide lockdowns in 2020 and 2021, with restrictions on physical activity and changes in eating habits. 
Aims: 
To investigate temporal trends in Body Mass Index (BMI) and BMI Standard Deviation Score (SDS) inSDS) in three international T1D registries between 2018-2021.
Methods:
Data were extracted from DPV (Germany/Austria/Luxembourg/Switzerland), T1D Exchange Quality Improvement Collaborative (T1DX-QI, US), and Australasian Diabetes Data Network (ADDN, Australia/New Zealand). The period affected by the COVID-19 pandemic was defined as March to December 2020 and March to December 2021 and compared with the respective 9-month periods in 2018 and 2019. Estimated mean BMI (adults ≥ 19 years) and WHO BMI SDS (children and adolescents 54 to &lt; 19 years) were calculated, adjusted for sex, age, HbA1c and diabetes duration. Adjusted mean proportions overweight /obese (BMI ≥ 25 in adults or BMI SDS &gt; 1.282 in children and adolescents 54 to &lt; 19 years) and obese (BMI ≥30kg/m2 or BMI SDS &gt; 2 in children and adolescents 5 to &lt;19 years) were also calculated, adjusted for sex, age, HbA1ce group and diabetes duration. 
Results: 
Study population: ADDN (n=14,624, medianan age 15.720.4 years, 510.6% male); DPV (n=62,732, 16.123.1 years, 53.3% male); T1DX-QI (n=229428,970, 17.121.3 years, 52.1% male). 
In the DPV registry, BMI SDS in children and adolescents and BMI in adults, as well as the mean proportions overweight/obese in children and adolescents increased consistently between 2018 to 2021 (p&lt;0.001). In ADDN and T1DX-QI, variable changes in BMI and BMI-SDS were seen in adults and young people, as well as in mean proportion overweight. Close to 50% of people in all registries were either overweight or obese. Proportions overweight remained relatively stable across the 4 years. The proportion obese increased in children 5-&lt;10 years. 
Conclusions:
A slight increase in BMI and BMI SDS, in DPV observed before the pandemic continued during the pandemic years. Results were more variable in the other registries without a clear pattern although Tthe proportion of overweight and obesity was overall high. Healthy weight remains a priority for people with type 1 diabetes.
DOI: 10.6084/m9.figshare.27143499
title: Supplementary Material for: Spotlighting turnover costs for pediatric ocular oncology exams under anesthesia

description: Introduction: While pediatric intraocular malignancies are rare, management requires frequent examinations under anesthesia (EUAs) which are financial costly. The purpose of the study was to measure operating room (OR) turnover costs and to estimate potential cost savings of reducing turnover time.

Methods: Turnover time data for EUAs with a single ocular oncology provider at the University of Michigan were analyzed from 2021-2023. Direct cost of OR turnover was set at $25.73 per minute, and turnover time after business hours utilized a cost multiplier for overtime costs. A sensitivity analysis for turnover reduction savings was based on reducing turnover times to a goal turnover time. Primary outcomes were total and average turnover time and costs for pediatric ocular oncology EUAs. Secondary outcomes included the potential cost savings associated with reduced turnover time goals.

Results: 158 EUAs with valid turnover times were included. Total turnover time and costs were 5034 minutes and $134,104. Average (standard deviation) turnover time and costs were 31.9 minutes (19.0) and $848.76 ($487.48). A majority of cases (65%) had turnover time less than 30 minutes, though a minority (23%) had a turnover time less than 20 minutes. By reducing maximum turnover time to 20 minutes, a total of $52,057 could be saved across these cases, or $329 per case.

Conclusions: Turnover time accounts for a notable proportion of OR costs, particularly for shorter cases. The average pediatric ocular oncology case had nearly $850 of turnover costs, much of which may be avoidable. Actions aimed at reducing turnover time are likely to have high return on investments if they are successful.
DOI: 10.6084/m9.figshare.27144966
title: Supplementary Material for: Periodic paralysis – A case series with a literature review

description: Introduction:
Periodic paralysis is a condition that causes recurrent episodes of flaccid paralysis, and it can be primary or secondary. Hypokalemic periodic paralysis is the most common type of primary periodic paralysis, and it is inherited through autosomal dominant gene transmission. Males are affected three times more often than females, and the paralysis attacks usually occur at night after a period of vigorous exercise. It is crucial to exclude other diagnostic entities based on the nature of presentation, physical examination, and paraclinical studies. Thyrotoxic periodic paralysis is more prevalent in Asian or Hispanic males with thyrotoxicosis, where up to 10% of thyrotoxic patients may experience periodic paralysis.
Case presentations:
Here we present 6 cases of patients who came to our care with varying degrees of muscle weakness, each showing interesting and diverse laboratory results.
Conclusion:
In patient assessment, it's crucial to consider social and family history. Even without this information, awareness of potential diagnoses is vital. The cause should be carefully considered for possible simple treatments. Failing to recognize and address this condition promptly could lead to severe outcomes. Timely identification and intervention are essential for effective disease management and patient welfare.