cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.5549573
title: A complete view of the atmospheric hydrologic cycle

description: fig01.zip: Inside this zip there are 4 files which were used to make Figure 1. The 3 csv files are used to plot the trajectory pathways from their starting positions to the ending locations. The variable 'ntopo' in the single netcdf file represents the ocean basin and global landmass mask. fig02_03_04.zip: In this zip there are 192 netcdf files and were used to produce Figure 2, 3 and 4. Each file is for a month and consists of evaporation, precipitation, meridional and zonal overturning stream function within and between the three major ocean basins and the global landmass. Here atl = Atlantic Ocean, pac=Pacific Ocean,ind = Indian Ocean, and lnd = global landmass. fig05.zip: In this zip there are also 192 netcdf files that were used to produce Figure 5. fig06.zip: Consists of 16 nectdf files that represent average residence time (days) of the atmospheric waters travelling from the surface evaporative regions to the precipitation areas. This residence time was calculated from the points where net evaporation exceeds a monthly mean value of 0.2 mm/day. table1.zip: This zip file was used to calculate the atmospheric freshwater transport within and between the ocean basins and land.
DOI: 10.5285/f173b9c1-bb50-0b75-e053-6c86abc02a4a
title: Estimates of turbulent kinetic energy dissipation rate in the western tropical Atlantic, northeast of Barbados (January and February 2020) calculated from Seaglider temperature microstructure observations using Batchelor spectrum and Thorpe scale methods (R/V Meteor cruise M161).

description: Turbulent kinetic energy dissipation rate (epsilon) as calculated from microstructure temperature observations collected by a FP07 fast thermistor mounted on a Seaglider (SG620). Epsilon has been calculated using two methods: the Batchelor spectrum method (epsilon_mu) and the Thorpe scale method (epsilon_T). SG620 was deployed between January and February 2020 from the RV Meteor (cruise M161) in the western tropical Atlantic, northeast of Barbados, as part of the EUREC4A air-sea observational campaign. SG620 occupied a bowtie pattern 10 km across centred at 14º 10'N 57º 20'W. Standard hydrographic observations collected by SG620 during this deployment are available under DOI doi:10.5285/c596cdd7-c709-461a-e053-6c86abc0c127.
DOI: 10.6084/m9.figshare.21602364
title: Supplementary Material for: Clinical Effectiveness of Calcium Oxalate Stone Treatments

description: Introduction: Lowering kidney stone risk and urine calcium oxalate supersaturation is a primary clinical focus for kidney stone prevention and can be achieved with multiple strategies. Common strategies include advice to increase fluid intake, restrict dietary sodium, or prescribing a thiazide-type diuretic. We investigated how physicians make these decisions in real-world practice and evaluate their efficacy based on 24-hour urine collections. Methods: We reviewed medical charts for 203 kidney stone formers with idiopathic calcium stones from University of Chicago Kidney Stone Clinic between 2005-2020. Patients had three 24-hour urines before an initial pre-treatment clinic visit and one follow up 24-hour urine. We analyzed changes in urine composition based on treatment advice using t-tests and ANOVA. Results: Patients who received advice to increase fluid intake had lower urine volume at baseline (1.5 vs. 2.5 L/day, p&lt;0.001) and larger increase in urine volume at follow up (0.6 vs. 0.1 L/day, p&lt;0.001) compared to those who did not receive the advice. Patients who were advised to restrict dietary sodium had a higher urine sodium at baseline (208 vs. 139 mEq/day, p&lt;0.001), a larger reduction in urine sodium (-28 vs 13 mEq/day, p=0.002) and larger reduction in urine calcium (-74 vs -28 mg/day, p=0.005) compared with those not advised to restrict dietary sodium. Patients started on a thiazide had a higher baseline urine calcium (281 vs 213 mg/day) and larger reduction in urine calcium (-83 vs -9 mg/day, p&lt;0.001) compared with patients not started on a thiazide. In combination, thiazide prescriptions with dietary sodium restriction reduced urine calcium by 99 mg/day and reduced calcium oxalate supersaturation from 8.0 to 5.5 and calcium phosphate supersaturation from 1.4 to 1.0. Discussion/Conclusion: Providers use 24-hour urine data to guide treatment strategy decisions. These strategies achieved the intended effects on urine composition and lowered kidney stone risk.
DOI: 10.6084/m9.figshare.21947252
title: Supplementary Material for: Anastomotic Leakages after Surgery for Gastroesophageal Cancer: A Systematic Review and Meta-Analysis on Endoscopic versus Surgical Management

description: <b><i>Introduction:</i></b> With the increase of esophageal and gastric cancer, surgery will be more often performed. Anastomotic leakage (AL) is one of the most feared postoperative complications of gastroesophageal surgery. It can be managed by conservative, endoscopic (such as endoscopic vacuum therapy and stenting), or surgical methods, but optimal treatment remains controversial. The aim of our meta-analysis was to compare (a) endoscopic and surgical interventions and (b) different endoscopic treatments for AL following gastroesophageal cancer surgery. <b><i>Methods:</i></b> Systematic review and meta-analysis, with search in three online databases for studies evaluating surgical and endoscopic treatments for AL following gastroesophageal cancer surgery. <b><i>Results:</i></b> A total of 32 studies comprising 1,080 patients were included. Compared with surgical intervention, endoscopic treatment presented similar clinical success, hospital length of stay, and intensive care unit length of stay, but lower in-hospital mortality (6.4% [95% CI: 3.8–9.6%] vs. 35.8% [95% CI: 23.9–48.5%]. Endoscopic vacuum therapy was associated with a lower rate of complications (OR 0.348 [95% CI: 0.127–0.954]), shorter ICU length of stay (mean difference −14.77 days [95% CI: −26.57 to −2.98]), and time until AL resolution (17.6 days [95% CI: 14.1–21.2] vs. 39.4 days [95% CI: 27.0–51.8]) when compared with stenting, but there were no significant differences in terms of clinical success, mortality, reinterventions, or hospital length of stay. <b><i>Conclusions:</i></b> Endoscopic treatment, in particular endoscopic vacuum therapy, seems safer and more effective when compared with surgery. However, more robust comparative studies are needed, especially for clarifying which is the best treatment in specific situations (according to patient and leak characteristics).
DOI: 10.6084/m9.figshare.21947921
title: Supplementary Material for: Efficacy of Small versus Large-Bore Chest Drain in Pleural Infection: A Systematic Review and Meta-Analysis

description: <b><i>Background:</i></b> Pleural infection represents a significant clinical challenge worldwide. Although prompt drainage of pleural fluid is thought to play a key role in pleural infection management, the optimal size of intrapleural catheter has yet to be defined. <b><i>Objectives:</i></b> The aim of this systematic review and meta-analysis was to summarize data on efficacy and complications of small-bore drain (SBD), defined as ≤14F, in comparison to large-bore drain (LBD) in patients with pleural infection. <b><i>Method:</i></b> We searched MEDLINE and Embase for all studies reporting outcomes of interest published up to October 2021. Two authors reviewed selected full text to identify studies according to predefined eligibility criteria. Summary estimates were derived using the random-effects model. <b><i>Results:</i></b> Twelve original studies were included for qualitative analysis and 7 of these for quantitative analysis. The surgical referral rate of SBD and LBD were, respectively, 0.16 (95% confidence interval [CI], 0.12–0.21) and 0.20 (95% CI, 0.10–0.32), the pooled mortality were 0.12 (95% CI, 0.05–0.21) and 0.20 (95% CI, 0.10–0.32), and the length of hospital stay was 24 days in both groups. Data on complications suggest similar proportions of tube dislodgement. Intensity of pain was evaluated in one study only, reporting higher scores for LBD. <b><i>Conclusions:</i></b> This systematic review and meta-analysis provide the first synthesis of data on performance of SBD and LBD in management of pleural infection, and, overall, clinical outcomes and complications did not substantially differ, although the limited number of studies and the absence of dedicated randomized trials does limit the reliability of results.
DOI: 10.6084/m9.figshare.21947981
title: Supplementary Material for: Patterns of Interstitial Lung Disease and Prognosis in Antineutrophil Cytoplasmic Antibody-Associated Vasculitis

description: <b><i>Background:</i></b> Interstitial lung disease (ILD) is a common pulmonary manifestation of antineutrophil cytoplasmic antibody-associated vasculitis (AAV). <b><i>Objectives:</i></b> We aimed to clarify the clinical predictors of mortality in a cohort of patients with AAV-related ILD (AAV-ILD). <b><i>Method:</i></b> We retrospectively identified AAV-ILD patients seen at Peking University First Hospital from January 2010 to June 2020 and manually screened for study inclusion. Baseline computed tomography (CT) images were further classified as nonspecific interstitial pneumonia (NSIP), usual interstitial pneumonia (UIP), organizing pneumonia (OP), and unclassified ILD. Disease characteristics and other pulmonary findings including pulmonary function test and bronchoalveolar lavage (BAL) were also evaluated. Multivariable Cox regression analysis was performed to identify clinical predictors of mortality. <b><i>Results:</i></b> The cohort included 204 patients with AAV-ILD, 152 had UIP on CT (AAV-UIP), 39 had NSIP on CT (AAV-NSIP), 3 had OP, and 10 had unclassified ILD. Microscopic polyangiitis was more prevalent in patients with UIP, while granulomatosis with polyangiitis was more common in the NSIP and OP groups, and eosinophilic granulomatosis with polyangiitis was more frequent in patients with unclassified ILD. ILD diagnosis before AAV was more common in patients with either UIP or NSIP patterns. During the median follow-up of 40 months, 44 (21.6%) patients died. One- and 5-year overall survival rates were 88.2% (95% CI, 83.7–92.7%) and 81.0% (95% CI, 74.9–87.1%) for the entire cohort. Patients with UIP patterns had the worst prognosis, while those with NSIP patterns had the best long-term outcome. Specifically, patients with UIP patterns had an approximately 5-fold risk of death compared to those with NSIP. After controlling for potential confounding factors, we observed that each 10% increase in the BAL fluid neutrophil percentage was associated with nearly a 20% increased risk of death (HR 1.195, 95% CI 1.018–1.404). <b><i>Conclusions:</i></b> Clinical characteristics and survival differ between subgroups defined by CT patterns. BAL fluid neutrophilia is an independent predictor of mortality among AAV-ILD patients, and therefore, the clinical utility of BAL at the time of AAV diagnosis should be considered.
DOI: 10.1285/i20356609v10i2p613
title: Neither Completely Political nor Completely Unpolitical. The Third Way of Deliberative Arenas

description: Sometimes governments choose to include ordinary people at some stage of the policy making process by setting up temporary and structured arenas where participants are put in a posi-tion whereby they can deliberate on public issues and make decisions or propose suggestions. Do such deliberative arenas depoliticize democracy, as a vast amount of literature suggests? This article is aimed at challenging this point of view, by giving a close look at two cases of democratic experi-mentation. An analysis of what actually happens in those venues shows that such arenas appear to display, at the same time, both unpolitical and political features. On one hand, they are non-majoritarian bodies, just like other depoliticized venues, but on the other, they deal with conflicts and discuss goals, and thus perform typical political activities. It is possible to say that they are nei-ther completely political nor completely unpolitical. They instead have a hybrid nature that can coun-teract the continuous fluctuations between (hyper)politicization and (hyper)depoliticization that are so typical of our times. This implies a revision of the standard theory of politicization/depoliticization that does not consider the possibility of gray areas. Overcoming the rigid opposition between the two terms of the dichotomy can lead to the discovery of some interesting possibilities that often tend to be overlooked.
DOI: 10.5281/zenodo.5879098
title: Qur'anic Recitation Styles and Reciters Dataset

description: A novel annotated dataset for Qur’anic recitation style classification and individual reciter classification.
DOI: 10.5281/zenodo.7395830
title: Idealized simulations of marine ice sheet instability

description: Ensemble of idealized simulations of the unstable retreat of an outlet glacier with the Parallel Ice Sheet Model (PISM). Varied parameters are the width, length and depth of the glacier, the softness of the ice and the basal friction.
DOI: 10.5517/ccdc.csd.cc21mqr5
title: CCDC 1895797: Experimental Crystal Structure Determination

description: Related Article: Jia-Qi Wang,  Zong-Jie Guan,  Wen-Di Liu,  Yang Yang,  and Quan-Ming Wang|2019|J.Am.Chem.Soc.|141|2384|doi:10.1021/jacs.8b11096
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: 10.5517/ccdc.csd.cc2417v9
title: CCDC 1967410: Experimental Crystal Structure Determination

description: Related Article: Hui Shen, Elli Selenius, Pengpeng Ruan, Xihua Li, Peng Yuan, Omar Lopez-Estrada, Sami Malola, Shuichao Lin, Boon K. Teo, Hannu Häkkinen, Nanfeng Zheng|2020|Chem.-Eur.J.|26|8465|doi:10.1002/chem.202001753
DOI: 10.5517/ccdc.csd.cc244j3y
title: CCDC 1970549: Experimental Crystal Structure Determination

description: Related Article: Adam R Johnson|2020|CSD Communication|||
DOI: 10.5517/ccdc.csd.cc25y27g
title: CCDC 2023935: Experimental Crystal Structure Determination

description: Related Article: Kohei Susukida, Leonardo I. Lugo-Fuentes, Shozo Matsumae, Kazuki Nakanishi, Masaaki Nakamoto, Yohsuke Yamamoto, Rong Shang, Joaquín Barroso-Flores, J. Oscar C. Jimenez-Halla|2020|Organometallics|39|4372|doi:10.1021/acs.organomet.0c00557
DOI: 10.5517/ccr22hc
title: CCDC 687192: Experimental Crystal Structure Determination

description: Related Article: V.V.Avdeeva, E.A.Malinina, O.N.Belousova, L.V.Goeva, I.N.Polyakova, N.T.Kuznetsov|2011|Zh.Neorg.Khim.|56|564|
description: Related Article: E.A.Malinina, V.V.Drozdova, A.Yu.Bykov, O.N.Belousova, I.N.Polyakova, K.Yu.Zhizhin, N.T.Kuznetsov|2007|Dokl.Akad.Nauk SSSR|414|484|
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: 10.6084/m9.figshare.16499508.v1
title: Supplementary file_Paddy field in the Vietnamese Mekong Delta 2021

description: Raw data present the variability of nutrients in the surface water, subsurface water (30-45 cm) and soil under conventional rice cultivation in the Vietnamese Mekong Dela. Data were collected during the wet season 2018 (Summer-Autumn) and the dry season 2019 (Winter-Spring).
DOI: 10.6084/m9.figshare.21435600
title: Supplementary Material for: Association between Extracranial Carotid Artery Plaque and Cognitive Dysfunction: A Systematic Review and Meta-Analysis

description: <b><i>Background:</i></b> Extracranial carotid atherosclerosis has been variably associated with dementia. Prior studies have focused on the association of carotid intima media thickness or carotid stenosis; however, there is evidence that carotid plaque may contribute to dementia, perhaps via microembolic phenomena. <b><i>Objectives:</i></b> We sought to evaluate the role of carotid plaque in contributing to cognitive impairment by performing a systematic review and meta-analysis to summarize the association between extracranial carotid plaque and cognitive dysfunction and dementia. <b><i>Methods:</i></b> We performed a comprehensive literature search evaluating the association of extracranial carotid plaque with cognition. We included studies measuring carotid plaque on ultrasound, computed tomography, or MR and also evaluated cognition through neuropsychological testing. Meta-analyses with assessment of study heterogeneity and publication bias were performed. Results were presented in a forest plot and summarized using a random-effects model. <b><i>Results:</i></b> After screening 1,674 studies, we included 40 for systematic review and 16 and 7 studies for two meta-analyses with a total of 19,029 and 27,325 patients, respectively. We found a positive relationship between the presence of extracranial carotid plaque and cognitive dysfunction with a pooled random-effects odds ratio (OR) of 1.83 (95% CI, 1.50, 2.24) and a pooled random-effects hazard ratio (HR) of 1.47 (95% CI, 1.15, 1.89), respectively. A sensitivity analysis of only longitudinal studies found a persistent positive association. Measures of heterogeneity showed moderate heterogeneity in each meta-analysis, respectively (I-squared statistic = 57% and 70%). <b><i>Conclusion:</i></b> The presence of extracranial carotid plaque is significantly associated with cognitive dysfunction and dementia in both cross-sectional and longitudinal analyses. After further confirmation, our results support carotid plaque being a potentially modifiable risk factor in the development of dementia.
DOI: 10.6084/m9.figshare.21511440
title: Supplementary Material for: Trends of urolithiasis in China: a national study based on hospitalized patients from 2013 to 2018

description: Introduction To explore the chronological trends in clinical features and utilization of healthcare resources for hospitalized patients with urolithiasis in China. Methods Patients with urolithiasis were extracted from the Hospital Quality Monitoring System, a national database of hospitalized patients in China, based on International Classification of Diseases, Tenth Revision, codes. Variables including demographic characteristics, comorbidities, treatment modalities for urolithiasis, length of hospital stay, and expenditures were collected and analyzed. Results Among 79.8 million hospitalized patients, 3.5 million were diagnosed with urolithiasis with an increasing trend (from 3.0% in 2013 to 4.0% in 2018). Most of these patients had upper urinary tract calculi (76.6% in 2013 and 81.7% in 2018). Middle-aged patients (46–65 years) constituted the largest proportion with a stable trend (from 46.9% in 2013 to 48.8% in 2018), while the proportion of older patients (&gt;65 years) showed an increasing trend (from 23.7% in 2013 to 27.4% in 2018). The percentages of gout/hyperuricemia, hypertension, diabetes, and cardiovascular disease among the hospitalized patients with urolithiasis increased steadily, with the sharpest increases in patients from rural areas. Overall, 656,952 patients (18.9%) received surgical interventions for urolithiasis. The proportions of ureteroscopy and extracorporeal shockwave lithotripsy increased steadily during the 6-year study period, with simultaneous decreases in open surgery and percutaneous nephrolithotomy. The median length of hospital stay decreased from 10 days to 8 days. The cost for urolithiasis intervention accounted for 2.0% of the total hospitalization fee in 2013, and increased to 2.7% in 2018. Conclusions The analysis showed an increasing trend in the percentage of hospitalized patients with urolithiasis, accompanied by an increased percentage of the total hospitalization fee for urolithiasis intervention during the 6-year study period. Based on the increasing trends in the proportion of older patients (&gt;65 years) and percentages of metabolic comorbidities among patients with urolithiasis, an increased burden of urolithiasis on the healthcare system in China is anticipated.
DOI: 10.6084/m9.figshare.21687503
title: Supplementary Material for: Factors Affecting the Decision to Initiate Dialysis: A National Survey of United States Nephrologists

description: Introduction The percentage of patients initiating dialysis at an estimated glomerular filtration rate (eGFR) ≤9 mL/min/1.73 m2 decreased between 2000 and 2018 in the United States. Clinical practice guidelines recommend basing the decision to initiate dialysis primarily on uremic signs and symptoms, rather than on a particular level of kidney function. However, what signs and symptoms currently practicing nephrologists consider “uremic”, how they weigh eGFR and other factors in the decision to initiate dialysis have not been reported. Methods The study was an online survey of 255 United States nephrologists, conducted between August and October 2021. Results Nearly half of respondents (49.8%) had an absolute lower eGFR (8.4 (95% CI: 7.6, 9.2) mL/min/1.73 m2) at which they would initiate dialysis in an asymptomatic patient. The top 5 symptoms that would trigger a recommendation to initiate dialysis were loss of appetite/nausea/vomiting (17%), low eGFR (10%), shortness of breath (10%), declining physical ability/function (9%), and generalized weakness (9%). Poor nutritional status and physical function decline were considered very important in the decision to initiate dialysis by 64% and 55% of respondents, respectively. Nephrologists surveyed significantly shortened the time to dialysis initiation in response to declining physical function in an otherwise asymptomatic (hypothetical) patient. Conclusions Nearly half of nephrologists sometimes based their decision to initiate dialysis on eGFR alone. The eGFR threshold at which they did so was lower than has been examined in randomized controlled trials of dialysis initiation. Initiatives designed to safely delay dialysis through aggressive medical management could focus on modifiable factors that are the most important drivers of the decision to initiate dialysis.
DOI: 10.25982/130581.14/1897514
title: KBase Narrative - O'Toole et al Citricoccus MRA Genome Announcement Analysis Narrative

description: Members of the genus Citricoccus are recognized as salt tolerant soil microoorganisms. Here we report the metagenome assembled genome of a novel Citricoccus species recoverd from untilled, surface agricultural soils in Western Colorado.
DOI: 10.5281/zenodo.6497437
title: Reflectometry curves (XRR and NR) and corresponding fits for machine learning

description: This is a compiled dataset of raw X-ray reflectivity (XRR, reflectometry) measurements together with corresponding fit parameters, intentionally published to use as training or test data for machine learning models. (The authors aim to include NR data in further versions of this dataset and plan to include other substrates and materials for XRR. Contributions welcome!) <br> <strong>An interactive documentation can be found in <em>"README.html"</em> or at https://schreiber-lab.github.io/reflectometry-dataset.</strong> Data structure All data is provided in an hdf5 file, following NeXus convention with respect to the provided metadata in the hdf5 attributes. Some datesets have been measured in-situ and therefore there are stacks of curves that correspond to the different layer thicknesses of the same material on top of SiOx. The measured data is provided under experimental and the corresponding fit parameters under fit. Additional information is collected in metadata. Where to find the dataset and how to contribute Have a look at github and zenodo. In case you wish to contribute further curves to this dataset or have ideas how to improve the dataset or where else to deposit it, please contact the authors at softmatter AT ifap.uni-tuebingen.de.