cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.10648268
title: Dataset related to the article "Progression of non-obstructive coronary plaque: a practical CCTA-based risk score from the PARADIGM registry"

description: This record contains raw data related to the article “Progression of non-obstructive coronary plaque: a practical CCTA-based risk score from the PARADIGM registry” 

Objectives No clear recommendations are endorsed by the different scientific societies on the clinical use of repeat coronary computed tomography angiography (CCTA) in patients with non-obstructive coronary artery disease (CAD). This study aimed to develop and validate a practical CCTA risk score to predict medium-term disease progression in patients at a lowto- intermediate probability of CAD. Methods Patients were part of the Progression of AtheRosclerotic PlAque Determined by Computed Tomographic Angiography Imaging (PARADIGM) registry. Specifically, 370 (derivation cohort) and 219 (validation cohort) patients with two repeat, clinically indicated CCTA scans, non-obstructive CAD, and absence of high-risk plaque (≥ 2 high-risk features) at baseline CCTA were included. Disease progression was defined as the new occurrence of ≥ 50% stenosis and/or high-risk plaque at follow-up CCTA. Results In the derivation cohort, 104 (28%) patients experienced disease progression. The median time interval between the two CCTAs was 3.3 years (2.7–4.8). Odds ratios for disease progression derived from multivariable logistic regression were as follows: 4.59 (95% confidence interval: 1.69–12.48) for the number of plaques with spotty calcification, 3.73 (1.46–9.52) for the number of plaques with low attenuation component, 2.71 (1.62–4.50) for 25–49% stenosis severity, 1.47 (1.17–1.84) for the number of bifurcation plaques, and 1.21 (1.02–1.42) for the time between the two CCTAs. The C-statistics of the model were 0.732 (0.676–0.788) and 0.668 (0.583–0.752) in the derivation and validation cohorts, respectively. Conclusions The new CCTA-based risk score is a simple and practical tool that can predict mid-term CAD progression in patients with known non-obstructive CAD. Clinical relevance statement The clinical implementation of this new CCTA-based risk score can help promote the management of patients with non-obstructive coronary disease in terms of timing of imaging follow-up and therapeutic strategies.
DOI: 10.6084/m9.figshare.20652136
title: Additional file 3 of Exploring Lead loci shared between schizophrenia and Cardiometabolic traits

description: Additional file 3. Additional datasets.
DOI: 10.5281/zenodo.10648225
title: Dataset related to the article "Quantification of extracellular volume with cardiac computed tomography in patients with dilated cardiomyopathy"

description: This record contains raw data related to the article “Quantification of extracellular volume with cardiac computed tomography in patients with dilated cardiomyopathy”

Background: Cardiac computed tomography (CCT) was recently validated to measure extracellular volume (ECV) in the setting of cardiac amyloidosis, showing good agreement with cardiovascular magnetic resonance (CMR). However, no evidence is available with a whole-heart single source, single energy CT scanner in the clinical context of newly diagnosed left ventricular dysfunction. Therefore, the aim of this study was to test the diagnostic accuracy of ECVCCT in patients with a recent diagnosis of dilated cardiomyopathy, having ECVCMR as the reference technique. Methods: 39 consecutive patients with newly diagnosed dilated cardiomyopathy (LVEF <50%) scheduled for clinically indicated CMR were prospectively enrolled. Myocardial segment evaluability assessment with each technique, agreement between ECVCMR and ECVCCT, regression analysis, Bland-Altman analysis and interclass correlation coefficient (ICC) were performed. Results: Mean age of enrolled patients was 62  11 years, and mean LVEF at CMR was 35.4  10.7%. Overall radiation exposure for ECV estimation was 2.1  1.1 mSv. Out of 624 myocardial segments available for analysis, 624 (100%) segments were assessable by CCT while 608 (97.4%) were evaluable at CMR. ECVCCT demonstrated slightly lower values compared to ECVCMR (all segments, 31.8  6.5% vs 33.9  8.0%, p < 0.001). At regression analysis, strong correlations were described (all segments, r ¼ 0.819, 95% CI: 0.791 to 0.844). On Bland-Altman analysis, bias between ECVCMR and ECVCCT for global analysis was 2.1 (95% CI: 6.8 to 11.1). ICC analysis showed both high intra-observer and inter-observer agreement for ECVCCT calculation (0.986, 95%CI: 0.983 to 0.988 and 0.966, 95%CI: 0.960 to 0.971, respectively). Conclusions: ECV estimation with a whole-heart single source, single energy CT scanner is feasible and accurate. Integration of ECV measurement in a comprehensive CCT evaluation of patients with newly diagnosed dilated cardiomyopathy can be performed with a small increase in overall radiation exposure.
DOI: 10.5281/zenodo.10648226
title: Dataset related to the article "Quantification of extracellular volume with cardiac computed tomography in patients with dilated cardiomyopathy"

description: This record contains raw data related to the article “Quantification of extracellular volume with cardiac computed tomography in patients with dilated cardiomyopathy”

Background: Cardiac computed tomography (CCT) was recently validated to measure extracellular volume (ECV) in the setting of cardiac amyloidosis, showing good agreement with cardiovascular magnetic resonance (CMR). However, no evidence is available with a whole-heart single source, single energy CT scanner in the clinical context of newly diagnosed left ventricular dysfunction. Therefore, the aim of this study was to test the diagnostic accuracy of ECVCCT in patients with a recent diagnosis of dilated cardiomyopathy, having ECVCMR as the reference technique. Methods: 39 consecutive patients with newly diagnosed dilated cardiomyopathy (LVEF <50%) scheduled for clinically indicated CMR were prospectively enrolled. Myocardial segment evaluability assessment with each technique, agreement between ECVCMR and ECVCCT, regression analysis, Bland-Altman analysis and interclass correlation coefficient (ICC) were performed. Results: Mean age of enrolled patients was 62  11 years, and mean LVEF at CMR was 35.4  10.7%. Overall radiation exposure for ECV estimation was 2.1  1.1 mSv. Out of 624 myocardial segments available for analysis, 624 (100%) segments were assessable by CCT while 608 (97.4%) were evaluable at CMR. ECVCCT demonstrated slightly lower values compared to ECVCMR (all segments, 31.8  6.5% vs 33.9  8.0%, p < 0.001). At regression analysis, strong correlations were described (all segments, r ¼ 0.819, 95% CI: 0.791 to 0.844). On Bland-Altman analysis, bias between ECVCMR and ECVCCT for global analysis was 2.1 (95% CI: 6.8 to 11.1). ICC analysis showed both high intra-observer and inter-observer agreement for ECVCCT calculation (0.986, 95%CI: 0.983 to 0.988 and 0.966, 95%CI: 0.960 to 0.971, respectively). Conclusions: ECV estimation with a whole-heart single source, single energy CT scanner is feasible and accurate. Integration of ECV measurement in a comprehensive CCT evaluation of patients with newly diagnosed dilated cardiomyopathy can be performed with a small increase in overall radiation exposure.
DOI: 10.6084/m9.figshare.19603456.v1
title: Additional file 4 of Factors associated with fetal karyotype in spontaneous abortion: a case-case study

description: Additional file 4: Supplemental Table 2. Details of structural and complicated abnormalities detected in miscarriages.
DOI: 10.6084/m9.figshare.12788856
title: Additional file 1 of Massive migration promotes the early spread of COVID-19 in China: a study based on a scale-free network

description: Additional file 1. Migration data between Jan, 10 and Jan, 24.
DOI: 10.6084/m9.figshare.12788856.v1
title: Additional file 1 of Massive migration promotes the early spread of COVID-19 in China: a study based on a scale-free network

description: Additional file 1. Migration data between Jan, 10 and Jan, 24.
DOI: 10.6084/m9.figshare.20652263.v1
title: Additional file 5 of The Janus-faced role of TRPM2-S in retroperitoneal liposarcoma via increasing ROS levels

description: Additional file 4. The differential genes between the radiotherapy remission group and non-remission group inTCGA-SARC.
DOI: 10.6084/m9.figshare.20652263
title: Additional file 5 of The Janus-faced role of TRPM2-S in retroperitoneal liposarcoma via increasing ROS levels

description: Additional file 4. The differential genes between the radiotherapy remission group and non-remission group inTCGA-SARC.
DOI: 10.6084/m9.figshare.7547672.v1
title: MOESM9 of Comprehensive evaluation of fuel properties and complex regulation of intracellular transporters for high oil production in developing seeds of Prunus sibirica for woody biodiesel

description: Additional file 9: Table S8. Genes annotated for enzymes of Calvin cycle in developing P. sibirica seeds.
DOI: 10.6084/m9.figshare.24975670
title: A Framework for Leveraging Machine Learning Tools to Estimate Personalized Survival Curves

description: The conditional survival function of a time-to-event outcome subject to censoring and truncation is a common target of estimation in survival analysis. This parameter may be of scientific interest and also often appears as a nuisance in nonparametric and semiparametric problems. In addition to classical parametric and semiparametric methods (e.g., based on the Cox proportional hazards model), flexible machine learning approaches have been developed to estimate the conditional survival function. However, many of these methods are either implicitly or explicitly targeted toward risk stratification rather than overall survival function estimation. Others apply only to discrete-time settings or require inverse probability of censoring weights, which can be as difficult to estimate as the outcome survival function itself. Here, we employ a decomposition of the conditional survival function in terms of observable regression models in which censoring and truncation play no role. This allows application of an array of flexible regression and classification methods rather than only approaches that explicitly handle the complexities inherent to survival data. We outline estimation procedures based on this decomposition, empirically assess their performance, and demonstrate their use on data from an HIV vaccine trial. Supplementary materials for this article are available online.
DOI: 10.6084/m9.figshare.24975670.v2
title: A Framework for Leveraging Machine Learning Tools to Estimate Personalized Survival Curves

description: The conditional survival function of a time-to-event outcome subject to censoring and truncation is a common target of estimation in survival analysis. This parameter may be of scientific interest and also often appears as a nuisance in nonparametric and semiparametric problems. In addition to classical parametric and semiparametric methods (e.g., based on the Cox proportional hazards model), flexible machine learning approaches have been developed to estimate the conditional survival function. However, many of these methods are either implicitly or explicitly targeted toward risk stratification rather than overall survival function estimation. Others apply only to discrete-time settings or require inverse probability of censoring weights, which can be as difficult to estimate as the outcome survival function itself. Here, we employ a decomposition of the conditional survival function in terms of observable regression models in which censoring and truncation play no role. This allows application of an array of flexible regression and classification methods rather than only approaches that explicitly handle the complexities inherent to survival data. We outline estimation procedures based on this decomposition, empirically assess their performance, and demonstrate their use on data from an HIV vaccine trial. Supplementary materials for this article are available online.
DOI: 10.5281/zenodo.10648195
title: Amphibian colour and camouflage data
DOI: 10.5281/zenodo.10648196
title: Amphibian colour and camouflage data
DOI: 10.6084/m9.figshare.12263759
title: Additional file 4 of The effect of antibiotics on the gut microbiome: a metagenomics analysis of microbial shift and gut antibiotic resistance in antibiotic treated mice

description: Additional file 4: Supplementary Table 4. Ampicillin species relative abundance.
DOI: 10.21954/ou.rd.13317485
title: Building trust in digital policing: A scoping review of community policing apps (final apps and scores)

description: Apps (either hosted by police or by third parties focused on policing or community concerns) that were perceived to have two-way communication, and were found on the UK version of Google Play between 1st and 4th July 2019. <br>Measures and scores for the subset of apps in the final sample.
DOI: 10.21954/ou.rd.13317485.v1
title: Building trust in digital policing: A scoping review of community policing apps (final apps and scores)

description: Apps (either hosted by police or by third parties focused on policing or community concerns) that were perceived to have two-way communication, and were found on the UK version of Google Play between 1st and 4th July 2019. <br>Measures and scores for the subset of apps in the final sample.
DOI: 10.5281/zenodo.10647774
title: telamonia database

description: A database of Cortinarius subgenus telamonia species spore length and width minimum and maximum measurents as well as their associated plants and countries.
DOI: 10.5281/zenodo.10647775
title: telamonia database

description: A database of Cortinarius subgenus telamonia species spore length and width minimum and maximum measurents as well as their associated plants and countries.
DOI: 10.6084/m9.figshare.24247099
title: Supplemental Tables and Figure accompanying manuscript titled "Increasing maternal glucose concentrations is insufficient to restore placental glucose transfer in chorionic somatomammotropin RNA interference pregnancies."

description: Supplemental figures accompanying manuscript titled "Increasing maternal glucose concentrations is insufficient to restore placental glucose transfer in chorionic somatomammotropin RNA interference pregnancies."
DOI: 10.6084/m9.figshare.24247099.v2
title: Supplemental Tables and Figure accompanying manuscript titled "Increasing maternal glucose concentrations is insufficient to restore placental glucose transfer in chorionic somatomammotropin RNA interference pregnancies."

description: Supplemental figures accompanying manuscript titled "Increasing maternal glucose concentrations is insufficient to restore placental glucose transfer in chorionic somatomammotropin RNA interference pregnancies."
DOI: 10.6084/m9.figshare.24247099.v1
title: Supplemental Tables accompanying manuscript titled "Increasing maternal glucose concentrations is insufficient to restore placental glucose transfer in chorionic somatomammotropin RNA interference pregnancies."

description: Supplemental figures accompanying manuscript titled "Increasing maternal glucose concentrations is insufficient to restore placental glucose transfer in chorionic somatomammotropin RNA interference pregnancies."
DOI: 10.6084/m9.figshare.24246709
title: Raw data accompanying manuscript titled "Increasing maternal glucose concentrations is insufficient to restore placental glucose transfer in chorionic somatomammotropin RNA interference pregnancies."

description: Complete physiological data (blood gas, blood flows, nutrient values, uptake rates, hormones) associated with the manuscript titled "Increasing maternal glucose concentrations is insufficient to restore placental glucose transfer in chorionic somatomammotropin RNA interference pregnancies."
DOI: 10.6084/m9.figshare.24246709.v1
title: Raw data accompanying manuscript titled "Increasing maternal glucose concentrations is insufficient to restore placental glucose transfer in chorionic somatomammotropin RNA interference pregnancies."

description: Complete physiological data (blood gas, blood flows, nutrient values, uptake rates, hormones) associated with the manuscript titled "Increasing maternal glucose concentrations is insufficient to restore placental glucose transfer in chorionic somatomammotropin RNA interference pregnancies."
DOI: 10.6084/m9.figshare.19606765
title: Additional file 1 of Development of a career questionnaire for medical undergraduates using Mokken scale analysis

description: Additional file 1: Supplementary Table 1. Preliminary questionnaire (English language version). This is the questionnaire sent to 246 students after the pilot survey, including an explanation section and items.
DOI: 10.6084/m9.figshare.20652137.v1
title: Additional file 1 of A non-randomized concurrent controlled trial of myofunctional treatment in the mixed dentition children with functional mouth breathing assessed by cephalometric radiographs and study models

description: Additional file 1: Supplementary Table 1. Age distribution data in MB-M,MB-N and NB groups. Supplementary Table 2. Sex distribution data in MB-M,MB-N and NB groups. Supplementary Table 3. ANB(°) data in MB-M,MB-N and NB groups for T1 and T2. Supplementary Table 4. SNA(°) data in MB-M,MB-N and NB groups for T1 and T2. Supplementary Table 5. SNB(°) data in MB-M,MB-N and NB groups for T1 and T2. Supplementary Table 6. SN-GoGn (°) data in MB-M,MB-N and NB groups for T1 and T2. Supplementary Table 7. FH-MP (°) data in MB-M,MB-N and NB groups for T1 and T2. Supplementary Table 8. S-Go /N-Me data in MB-M,MB-N and NB groups for T1 and T2. Supplementary Table 9. ANS-Me/N-Me data in MB-M,MB-N and NB groups for T1 and T2. Supplementary Table 10. U1-NA (°)data in MB-M,MB-N and NB groups for T1 and T2. Supplementary Table 11. U1-NA (mm) data in MB-M,MB-N and NB groups for T1 and T2. Supplementary Table 12. L1-NB (°)data in MB-M,MB-N and NB groups for T1 and T2. Supplementary Table 13. L1-NB (mm) data in MB-M,MB-N and NB groups for T1 and T2. Supplementary Table 14. Corpus length (mm) data in MB-M,MB-N and NB groups for T1 and T2. Supplementary Table 15. N-Me (mm) data in MB-M,MB-N and NB groups for T1 and T2. Supplementary Table 16. S-Go (mm) data in MB-M,MB-N and NB groups for T1 and T2. Supplementary Table 17. ANS-Me (mm) data in MB-M,MB-N and NB groups for T1 and T2. Supplementary Table 18. Co-Go (mm) data in MB-M,MB-N and NB groups for T1 and T2. Supplementary Table 19. Ramus height (mm) data in MB-M,MB-N and NB groups for T1 and T2. Supplementary Table 20. Overjet (mm) data in MB-M,MB-N and NB groups for T1 and T2. Supplementary Table 21. Overbite (mm) data in MB-M,MB-N and NB groups for T1 and T2. Supplementary Table 22. C-C (mm) data in MB-M,MB-N and NB groups for T1 and T2. Supplementary Table 23. C′- C′(mm) data in MB-M,MB-N and NB groups for T1 and T2. Supplementary Table 24. M-M (mm) data in MB-M,MB-N and NB groups for T1 and T2. Supplementary Table 25. M’- M’(mm) data in MB-M,MB-N and NB groups for T1 and T2.
DOI: 10.6084/m9.figshare.14363463.v2
title: ATG14 and RB1CC1 play essential roles in maintaining muscle homeostasis

description: Defects in macroautophagy/autophagy are implicated in the pathogenesis of neuromuscular and heart diseases. To precisely define the roles of autophagy-related genes in skeletal and cardiac muscles, we generated muscle-specific <i>rb1cc1-</i> and <i>atg14-</i>conditional knockout (cKO) mice by using <i>Ckm/Ckmm2-Cre</i> and compared their phenotypes to those of <i>ulk1 ulk2</i>-conditional double-knockout (cDKO) mice. <i>atg14</i>-cKO mice developed hypertrophic cardiomyopathy, which was associated with abnormal accumulation of autophagic cargoes in the heart and early mortality. Skeletal muscles of both <i>atg14</i>-cKO and <i>rb1cc1</i>-cKO mice showed features of autophagic vacuolar myopathy with ubiquitin<sup>+</sup> SQSTM1<sup>+</sup> deposits, but only those of <i>rb1cc1</i>-cKO mice showed TARDBP/TDP-43<sup>+</sup> pathology and other features of the inclusion body myopathy–like disease we previously described in <i>ulk1 ulk2</i>-cDKO mice. Herein, we highlight tissue-specific differences between skeletal and cardiac muscles in their reliance on core autophagy proteins and unique roles for ULK1-ULK2 and RB1CC1 among these proteins in the development of TARDBP<sup>+</sup> pathology. <b>ABBREVIATIONS</b>:AVM: autophagic vacuolar myopathy; cDKO: conditional double knockout; cKO: conditional knockout; H&E: hematoxylin and eosin; IBM: inclusion body myopathy; mtDNA: mitochondrial DNA; PFA: paraformaldehyde; RNP: ribonucleoprotein; TBST: Tris-buffered saline with 0.2% Triton X-100
DOI: 10.6084/m9.figshare.7547717
title: MOESM2 of Effects of amino acids on the lignocellulose degradation by Aspergillus fumigatus Z5: insights into performance, transcriptional, and proteomic profiles

description: Additional file 2: Dataset S1. Identification of the secretomics from A. fumigatus Z5 in different treatments.
DOI: 10.6084/m9.figshare.20652130.v1
title: Additional file 1 of Exploring Lead loci shared between schizophrenia and Cardiometabolic traits

description: Additional file 1. Supplementary Tables.
DOI: 10.6084/m9.figshare.20652136.v1
title: Additional file 3 of Exploring Lead loci shared between schizophrenia and Cardiometabolic traits

description: Additional file 3. Additional datasets.
DOI: 10.6084/m9.figshare.14363466.v2
title: 4DNvestigator: time series genomic data analysis toolbox

description: Data on genome organization and output over time, or the 4D Nucleome (4DN), require synthesis for meaningful interpretation. Development of tools for the efficient integration of these data is needed, especially for the time dimension. We present the ‘4DNvestigator’, a user-friendly network-based toolbox for the analysis of time series genome-wide genome structure (Hi-C) and gene expression (RNA-seq) data. Additionally, we provide methods to quantify network entropy, tensor entropy, and statistically significant changes in time series Hi-C data at different genomic scales.
DOI: 10.6084/m9.figshare.7547726
title: MOESM4 of Effects of amino acids on the lignocellulose degradation by Aspergillus fumigatus Z5: insights into performance, transcriptional, and proteomic profiles

description: Additional file 4: Dataset S3. Quantification of the total proteome from A. fumigatus Z5 in different treatments.
DOI: 10.6084/m9.figshare.7547729
title: MOESM5 of Effects of amino acids on the lignocellulose degradation by Aspergillus fumigatus Z5: insights into performance, transcriptional, and proteomic profiles

description: Additional file 5: Dataset S4. Proteins of different families associated with cellulose degradation identified both in the proteome and transcriptome.
DOI: 10.6084/m9.figshare.20131037
title: Additional file 5 of Construction and validation of molecular subtypes of coronary artery disease based on ferroptosis-related genes

description: Additional file 5: Table S2. Differentially expressed ferroptosis-related genes between in two different subtypes of CAD based on "limma" R package
DOI: 10.6084/m9.figshare.20131046
title: Additional file 8 of Construction and validation of molecular subtypes of coronary artery disease based on ferroptosis-related genes

description: Additional file 8: Table S5. Statistical analysis of immune cell infiltration in different subgroups based on single-sample gene set enrichment analysis (ssGSEA).
DOI: 10.6084/m9.figshare.19606714
title: Additional file 1 of The correlation between lipoprotein(a) elevations and the risk of recurrent cardiovascular events in CAD patients with different LDL-C levels

description: Additional file 1. Univariate COX analysis results.
DOI: 10.6084/m9.figshare.19606714.v1
title: Additional file 1 of The correlation between lipoprotein(a) elevations and the risk of recurrent cardiovascular events in CAD patients with different LDL-C levels

description: Additional file 1. Univariate COX analysis results.