cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.22359943
title: Supplementary Material for: Non-pharmacological Interventions to Improve Physical Function in Patients with End-stage Renal Disease: A Network Meta-analysis

description: Introduction: Chronic kidney disease is estimated to become the fifth leading cause of death globally by 2040. Due to the high incidence of fatigue in patients with end-stage renal disease without reliable pharmacological treatments, more and more studies on non-pharmacological interventions to improve physical function appear, which might be the best approach, unknown. This study aims to compare and rank the efficacy of all known non-pharmacological interventions on improving physical function from multiple outcomes for adults with end-stage renal disease. Methods: This systematic review and network meta-analysis included searches of PubMed, Embase, CINAHL, and Cochrane Library from inception to September 1, 2022, for randomized controlled trials of non-pharmacological interventions to improve physical function in adults with end-stage renal disease. Literature screening, data extraction, and quality appraisal were performed systematically by two independent reviewers. The frequentist random-effect network meta-analysis was adopted to pool the evidence from five outcomes, namely 6-minute walk test, handgrip strength, knee extension strength, physical component summary, and mental component summary, respectively. Results: A total of 1921 citations were identified by this search, of which 44 eligible trials enrolled 2250 participants, and 16 interventions were identified. All subsequent figures refer to comparisons with usual care. For increasing walking distance, the combined resistance and aerobic exercise with virtual reality or music were the most effective interventions, with a mean difference plus 95% confidence interval of 90.69 (8.92 to 172.46) and 92.59 (23.13 to 162.06), respectively. Resistance exercise with blood flow restriction (8.13, 0.09 to 16.17) was the best treatment to improve handgrip strength. Combined resistance and aerobic exercise (11.93, 3.63 to 20.29) and whole-body vibration (6.46, 1.71 to 11.20) were associated with improving knee extension strength. For life quality, all treatment effects did not show statistically significant differences. Conclusions: It was found via network meta-analysis that combined resistance and aerobic exercise is the most effective intervention. Besides, if virtual reality or music is added to the training, there will be better results. Resistance exercise with blood flow restriction and whole-body vibration might be good alternative treatments for improving muscle strength. None of the interventions improved quality of life, suggesting a need for alternative interventions in this regard. The results of this study contribute evidence-based data to decision-making.
DOI: 10.6084/m9.figshare.23259710
title: Supplementary Material for: Long-Term Outcomes of Endoscopic Submucosal Dissection for Early Remnant Gastric Cancer: A Retrospective Multicenter Study

description: <b><i>Introduction:</i></b> Favorable long-term outcomes of endoscopic submucosal dissection (ESD) for early remnant gastric cancer (ERGC) have been reported in single-center studies from advanced institutions. However, no studies have examined the long-term outcomes using a multicenter database. This study aimed to investigate the long-term outcomes of the aforementioned approach using a large multicenter database. <b><i>Methods:</i></b> This retrospective multicenter cohort study included 242 cases with 256 lesions that underwent ESD for ERGC between April 2009 and March 2019 across 12 centers. We investigated the long-term outcomes of these patients with the Kaplan-Meier method, and the relationship between curability, additional treatment, or hospital category, and the survival time was evaluated using the log-rank test. <b><i>Results:</i></b> During the median follow-up period of 48.4 months, the 5-year overall survival rate was 81.3%, and the 5-year gastric cancer-specific survival rate was 98.1%. The survival time of patients of endoscopic curability (eCura) C-2 without additional surgery was significantly shorter than the corresponding of patients of eCura A/B/C-1 and eCura C-2 with additional surgery. There was no significant difference in either overall survival or gastric cancer-specific survival rate between the high-volume and non-high-volume hospitals. <b><i>Conclusion:</i></b> The gastric cancer-specific survival of ESD for ERGC using a multicenter database was favorable. ESD for ERGC is widely applicable regardless of the hospital case volume. Management in accordance with the latest guidelines will lead to long-term survival.
DOI: 10.6084/m9.figshare.23522115
title: Supplementary Material for: Association between Serum C-Reactive Protein Concentrations and Risk of Cancer-Related Mortality in Patients Undergoing Hemodialysis: 10-Year Outcomes of the Q-Cohort Study

description: <b><i>Introduction:</i></b> Cancer constitutes a major source of morbidity and mortality among people undergoing hemodialysis (HD). A systemic inflammatory response is associated with the incidence and prognosis of cancer in the general population. However, the effect of systemic inflammation on cancer-related mortality in patients undergoing HD remains unclear. <b><i>Methods:</i></b> We analyzed 3,139 patients registered in the Q-Cohort Study, which is a multicenter, observational cohort study of patients on hemodialysis in Japan. The primary outcome was cancer-related mortality during a 10-year follow-up. The covariate of interest was serum C-reactive protein (CRP) concentrations at baseline. The patients were divided into tertiles based on their serum CRP concentrations at baseline (tertile [T] 1: ≤0.07; T2: 0.08–0.24; and T3: ≥0.25). The association between serum CRP concentrations and cancer-related mortality was calculated using the Cox proportional hazards model and the Fine-Gray subdistribution hazards model with non-cancer-related death as a competing risk. <b><i>Results:</i></b> During the 10-year follow-up, 216 patients died of cancer. In the multivariable analysis, the risk of cancer-related mortality in the highest tertile (T3) of serum CRP concentrations was significantly higher than that in the lowest tertile (T1) (multivariable-adjusted hazard ratio [95% confidence interval]: 1.68 [1.15–2.44]). This association remained consistent in the competing risk model, in which the subdistribution hazard ratio was 1.47 and the 95% confidence interval was 1.00–2.14 for T3 compared with T1. <b><i>Conclusion:</i></b> Higher serum CRP concentrations are associated with an increased risk of cancer-related mortality in patients undergoing maintenance HD.
DOI: 10.6084/m9.figshare.23899944.v1
title: Main characteristics and data outcome of the included studies.xlsx

description: Main characteristics and data outcome of the included studies.
DOI: 10.5281/zenodo.8145489
title: Dataset for the Figure 2 in manuscript "Numerical study of coupled water and vapour flow, heat transfer, and solute transport in variably-saturated deformable soil during freeze-thaw cycles"

description: This dataset includes the gathered experimental measurements of a freezing test by Wu (2017) for the model's verification shown in Figure 2 of the manuscript entitled 'Numerical study of coupled water and vapour flow, heat transfer, and solute transport in variably-saturated deformable soil during freeze-thaw cycles'' by Huang, X., and Rudolph, D.L.
DOI: 10.6073/pasta/a3d1dd8467448064c258103d7ed18714
title: SMP01 Spatial variation of soil microbial processes under Cornus drummondii shrubs of varying size at Konza Prairie, 2017

description: Soil was collected from multiple locations under individual Cornus drummondii shrub islands of varying size to measure within-shrub heterogeneity in soil microbial processes. Soil chemistry (Total C, Total N, extractable inorganic N, extractable P, and organic matter cotent), microbial biomass C and N, and potential extracellular enzymatic activity of β-glucosidase, phosphatase, NAG-ase, and LAP-ase were measured. Potential carbon mineralization and the isotopic composition of respired soil carbon was measured over a 77-day laboratory incubation.
DOI: 10.6084/m9.figshare.21388404
title: Supplementary Material for: Prevalence of erosive tooth wear and associated dietary factors among a group of Finnish adolescents

description: The aim of this study was to investigate the prevalence and severity of erosive tooth wear (ETW) among Finnish adolescents and to evaluate how frequency as well as amount of the use of erosive products are associated with ETW. The study population consisted of 328 voluntary, &gt;15-year-old secondary school students (males 49.1%, females 50.9%) in three municipalities in Finland. Clinical examination to measure erosive tooth wear (BEWE index) was carried out by trained and calibrated dentists. Piloted questionnaires included questions on consumption of drinks, fruits and berries, as well as tooth brushing frequency. Means and medians of frequencies and amounts of consumed erosive products were calculated and associations with ETW severity were analysed by logistic regression models. One third (36.9%) of the participants were in need of at least preventive measures for ETW (BEWE sum score ≥ 3), but severe ETW (BEWE sum score &gt; 9) was rare (2.1%). Boys had severe ETW significantly more frequently than girls (p &lt; 0.001). Habitual consumption of erosive drinks was common especially among boys compared to girls (p = 0.001). ETW was significantly associated with the amount of consumed erosive drinks, fruits or berries. The prevalence of ETW among adolescences in Finland seems to be at the same level as in other Nordic and European countries. Consumption of erosive products is common and thus, the risk for tooth erosion is high, especially in boys. In addition to erosive drinks, also berries and fruits are associated with ETW and should be included in individual dietary counselling when early signs of ETW are clinically detected.
DOI: 10.6084/m9.figshare.21981386
title: Supplementary Material for: Serum Human epididymis protein 4 as a prognostic predictor of new onset heart failure among women after acute coronary syndrome: a single-center retrospective study

description: Introduction: Little is known about the prognostic factors among women with acute coronary syndrome (ACS), partly due to the small number of women included in heart failure (HF) clinical trials. Human epididymis protein 4 (HE4) has been proven to be a new biomarker for acute and chronic HF over the years. We hypothesize that HE4 could be a promising predictor. Methods: This retrospective study analyzed data from Zhejiang Provincial People’s Hospital. This study included 302 female patients with ACS between January 1, 2021, and December 1, 2021. The primary outcome was new-onset HF after ACS during the 12-month follow-up period. We used a logistic regression model to evaluate the association between serum HE4 levels and the incidence of HF. Serum HE4 levels were measured at baseline (within 24 hours after admission). Results: Of the 302 female patients, 70 (23.2 %) developed new-onset HF within 12 months. Serum HE4 levels in patients with adverse events were significantly higher than those in patients without events (8.9 (7.3-11.5) pmol/dL vs. 5.9 (5.0-6.8) pmol/dL, P &lt; 0.001). The levels of HE4, troponin I peak, left ventricular ejection fraction (LVEF), and estimated glomerular filtration rate (eGFR) were validated as independent predictors, with HE4 being the best laboratory predictor (area under the curve, 0.863; 95 % confidence interval, 0.817-0.909). Serum HE4 concentrations of &gt; 6.93 pmol/dL distinguished patients at risk of HF with 82.9 % sensitivity and 78.0 % specificity (maximum Youden index J, 0.609). Moreover, HE4 levels were associated with an increased risk of HF. Discussion/Conclusion: We found a strong relationship between HE4 and the occurrence of HF after ACS among women, which might help identify patients at high risk of HF for whom close or intense management should be mandatory.
DOI: 10.6084/m9.figshare.22227106
title: Supplementary Material for: A Systematic Review of Food Protein-Induced Enterocolitis Syndrome

description: Food protein-induced enterocolitis syndrome (FPIES) is a non-IgE-mediated gastrointestinal food-induced hypersensitivity disorder that occurs mostly in infants. Long considered a rare disease, a recent increase in physician awareness and publication of diagnosis of guidelines has resulted in an increase in recognized FPIES cases. We aimed to conduct a systematic review of FPIES studies in the past 10 years. A search was conducted on PubMed and Embase in March 2022. Our systematic review focused on 2 domains: (1) the most reported FPIES food triggers; and (2) the resolution rate and median age at resolution of patients with FPIES. We found that cow’s milk was the most reported trigger globally. Patterns of the most common triggers varied by country, with fish being one of the most common triggers in the Mediterranean region. We also found that the rate and median age of resolution varied by trigger. Patients with FPIES to cow’s milk acquired tolerance at a younger age (most by age 3 years), while fish-FPIES was more persistent (mean resolution by age 37 months–7 years). Overall, many studies found a resolution rate of 60% for any food.
DOI: 10.6084/m9.figshare.22586761
title: Supplementary Material for: Growth hormone dose modulation and final height in short children born small for gestational age: French real-life data

description: Introduction Growth hormone (GH) therapy improves height outcomes in short children born small for gestational age (SGA); however, real-world data on long-term GH exposure are few. Methods We report results from an observational study (NCT01578135) including children born SGA, treated with GH at 126 sites in France and followed-up for &gt;5 years until achieving final adult height (FAH) or until study termination. Primary endpoints were the proportion of patients with normal (&gt;−2) height standard deviation score (SDS) at last visit and with normal FAH SDS. Post hoc analyses were performed by multivariate logistic regression analysis with stepwise elimination to identify factors associated with GH dose modulation and normal height SDS achievement. Results Of 1408 registered patients, a representative sample (n = 291) was selected for long-term follow-up. At last visit, 193/291 (66.3%) children achieved normal height SDS and 72/291 (24.7%) reached FAH. FAH SDS was &gt;–2 for chronological age in 48 (66.7%) children and &gt;–2 for adult age in 40 (55.6%) children. In the post hoc analyses, height SDS at last visit was a significant determinant of whether GH dose had been modulated. Factors significantly associated with reaching normal height SDS were baseline height SDS (taller, better), age at treatment start (younger, better), treatment duration excluding discontinuation periods (longer, better) and absence of a chronic disease. Most (70%) adverse events were non-serious, with 39% considered possibly/probably related to GH treatment. Conclusions GH therapy was fairly effective in most short children born SGA. No new safety concerns were identified.
DOI: 10.6084/m9.figshare.23531574
title: Supplementary Material for: The ERBB2 Exonic Variant Pro1170Ala Modulates Mitogen-Activated Protein Kinase Signaling Cascades and Associates with Allergic Asthma

description: <b><i>Introduction:</i></b> Previous studies have indicated the <i>ERBB2</i> genetic variants in the 17q12 locus might be associated with asthma; however, the functional effects of these variants on asthma risk remain inconclusive. This study aimed to characterize the functional roles of asthma-associated <i>ERBB2</i> single nucleotide polymorphisms (SNPs) in asthma pathogenesis by performing genetic association and functional analysis studies. <b><i>Methods:</i></b> This study belongs to a part of an ongoing Singapore/Malaysia cross-sectional genetics and epidemiological study (SMCSGES). Genotype-phenotype associations were assessed by performing a genotyping assay on <i>n</i> = 4,348 ethnic Chinese individuals from the SMCSGES cohort. The phosphorylation levels of receptors and signaling proteins in the MAPK signaling cascades, including ErbB2, EGFR, and ERK1/2, were compared across the genotypes of asthma-associated SNPs through in vitro and ex vivo approaches. <b><i>Results:</i></b> The <i>ERBB2</i> tag-SNP rs1058808 was significantly associated with allergic asthma, with the allele “G” identified as protective against the disease (adjusted logistic <i>p</i> = 6.56 × 10<sup>−9</sup>, OR = 0.625, 95% CI: 0.544–0.718). The allele “G” of rs1058808 resulted in a Pro1170Ala mutation that results in lower phosphorylation levels of ErbB2 in HaCat cells (<i>p</i> &lt; 0.001), whereas the overall <i>ERBB2</i> mRNA expression and the phosphorylation levels of EGFR remained unaffected. In the SMCSGES cohort, individuals carrying the genotype “GG” of rs1058808 had lower phosphorylated ERK1/2 proteins in the MAPK signaling cascade. A lower phosphorylation level of ERK1/2 was also associated with reduced asthma risk. <b><i>Conclusions:</i></b> The present findings highlighted the involvement of a functional exonic variant of <i>ERBB2</i> in asthma development via modulating the MAPK signaling cascade.
DOI: 10.6084/m9.figshare.23634825
title: Supplementary Material for: A Case of Autism Spectrum Disorder with Perforated Keratomalacia due to Vitamin A Deficiency

description: We report a case of a patient with autism spectrum disorder (ASD) and perforated keratomalacia secondary to vitamin A deficiency. A 6-year-old boy complained of difficulty in opening the eyelids. The ocular conjunctiva was hyperemic and keratinized with purulent ocular (eye) discharge. Both corneas showed epithelial defects with hypopyon. The serum vitamin A level was ≤5 IU/dL (normal 97–316), leading to a diagnosis of xerophthalmia and keratomalacia due to vitamin A deficiency. Intramuscular injection of vitamin A (50,000 IU/day), as well as oral administration of multivitamin (containing 2,500 IU of vitamin A) and zinc supplement at 50 mg/day, allowed him to open both eyes and show interest in tablet devices 14 days after the diagnosis. During the course of the treatment, corneal perforation was observed, but it was closed without contact lens wear or amniotic patch and managed with vitamin A replacement therapy and antimicrobial eye drops. The epithelium extended to the area of the right cornea that had been melted, and although scarring corneal opacity remained, there were no obvious signs of infection. Early diagnosis is difficult because children with ASD do not express complaints, and vitamin A deficiency should be considered in patients with a severely unbalanced diet and complaints of difficulty opening the eyelids.
DOI: 10.34740/kaggle/dsv/6824737
title: OnlineFree
DOI: 10.17632/g6vrw9jjn4.1
title: WGCNA supplement

description: Statistics accompanying WGCNA from mouse microarray expression of placental genes across gestational age timepoints (original dataset in Knox et al PMID 18340042).
DOI: 10.17632/tk2c9fn39b.2
title: Raw data for "Quantifying the Extent of Authigenic Carbonate Formation in Marine Sediments through a Correlation between Carbonate Precipitation Rate and Sulfate Flux"

description: Porewater Ca and Mg concentrations, calculated fluxes of Ca, Mg, SO42-, DIC, and authigenic carbonate precipitaion, as well as locations of the sampling sites.
DOI: 10.5281/zenodo.48266
title: Multi-Site Fat-Water Phantom Mri Data

description: <strong>Dataset description:</strong> Accompanying data for manuscript “Multi-Site,

Multi-Vendor Validation of the Accuracy and Reproducibility of

Proton-Density Fat-Fraction Quantification at 1.5T and 3T using a

Fat-Water Phantom”, submitted for publication in Magnetic Resonance in

Medicine in January 2016.

 

<strong>Details:</strong> The 'datasets' folder contains multiple MATLAB MAT-files

files with chemical shift-encoded (CSE) MRI data for validation of fat

quantification techniques in a fat-water phantom. Data was acquired at

six sites with different MRI vendors, two field strengths (1.5T and

3T) per site, and two protocols per field strength. The goal of these

techniques is to measure proton-density fat-fraction (PDFF) accurately

and reproducibly. Data from site 1 was acquired both at the beginning

(October 2014) and at the end (December 2015) of this study, in order

to evaluate the integrity of the phantom. 

 

Details on the vendors, platforms and protocols are described in the

file 'vendors_platforms_protocols.pdf' in this same folder.

 

The phantom consists of 11 vials with different fat concentrations

(PDFF = 0%, 2.6%, 5.3%, 7.9%, 10.5%, 15.7%, 20.9%, 31.2%, 20.9%,

31.2%, 41.3%, 51.4% and 100%, respectively). At each magnet, the vials

were arranged horizontally along the B0 field and scanned with axial

slices using a 3D multi-echo spoiled gradient echo pulse sequence.

 

Each of the MAT-files contains the acquired complex-valued images over

the three central slices within the phantom vials. The structure

'imDataAll' contains the acquired data, with the following fields:

'TE' (echo times), 'FieldStrength' (in Tesla), 'PrecessionIsClockwise'

(describing whether water has higher resonance frequency than fat

according to the reconstruction convention), 'echo_polarity' (relative

polarity of the acquired echoes, ie: monopolar vs bipolar readouts),

'images' (five-dimensional array containing the complex valued images,

coil-combined in datasets received with multiple channels, with

dimensions X x Y x Slices x Coils x Echoes).

 

Additionally, the MAT-files contain reconstruction results as

described in the manuscript, in the arrays 'fwmc_*' of size X x Y x

Slices. Note that the nomenclature 'fwmc' stands for 'Fat-Water

separated with Magnitude fitting (performed after complex fitting in

order to obtain full 0-100% range of PDFF while avoiding errors

related to phase shifts in the data), and a Common initial phase for

the water and fat signals. The specific arrays are 'fwmc_ff' (PDFF

map), 'fwmc_r2star' (R2*=1/T2* decay rate), 'fwmc_w' (water image),

'fwmc_f' (fat image).