cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.15468/dl.vyr76w
title: Occurrence Download

description: A dataset containing 732777 species occurrences available in GBIF matching the query:
{
 "and" : [
 "OccurrenceStatus is Present",
 "TaxonKey is one of (Alisma gramineum Lej., Aira praecox L., Agrostis vinealis Schreb., Agrostis schleicheri Jord. & Verl., Agrostis rupestris All., Agrostis curtisii Kerguélen, Agrostis canina L., Agrostis alpina Scop., Agrostis agrostiflora Janch. & H.Neumayer, Agrimonia procera Wallr., Agrimonia eupatoria L., Acinos alpinus (L.) Moench, Achillea tomentosa L.)"
 ]
}

 The dataset includes 732777 records from 1737 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0059649-220831081235567/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.6084/m9.figshare.7547615.v1
title: MOESM10 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 10: Table S9. The information of all primers used in this study for qRT-PCR and RT-PCR analysis.
DOI: 10.6084/m9.figshare.7547627
title: MOESM1 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 1: Table S1. Annotation information of unigenes for P. sibirica by BLAST searches against public databases. They mainly involved in carbon allocation and energy provision (glycolysis, TCA cycle, ATP synthesis, OPPP and FA Î˛-oxidation), the transports of metabolite (sucrose, precursor, adenine nucleotide, FA, acyl-CoA and lipid) for FA synthesis, TAG assembly and oil mobilization as well as enzymes involved in FA synthesis and TAG assembly during seed development.
DOI: 10.6084/m9.figshare.7547627.v1
title: MOESM1 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 1: Table S1. Annotation information of unigenes for P. sibirica by BLAST searches against public databases. They mainly involved in carbon allocation and energy provision (glycolysis, TCA cycle, ATP synthesis, OPPP and FA Î˛-oxidation), the transports of metabolite (sucrose, precursor, adenine nucleotide, FA, acyl-CoA and lipid) for FA synthesis, TAG assembly and oil mobilization as well as enzymes involved in FA synthesis and TAG assembly during seed development.
DOI: 10.6084/m9.figshare.7547636.v1
title: MOESM2 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 2: Table S2. Genes annotated for plastidial transporters and OPPP in developing P. sibirica seeds. Plastidial transporters involved specifically in carbon allocation into glycolysis and OPPP, and the transport of adenine nucleotide and Pi. Also, some genes were annotated for enzymes of OPPP in both plastid and cytosol.
DOI: 10.6084/m9.figshare.7547648
title: MOESM4 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 4: Table S4. Genes annotated for metabolite transporters of tonoplast in developing P. sibirica seeds. They mainly involved in the transports of sugar, malate and sugar alcohol.
DOI: 10.6084/m9.figshare.7547642.v1
title: MOESM3 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 3: Table S3. Genes annotated for mitochondrial metabolite transporters in developing P. sibirica seeds. They mainly involved in ATP synthesis, TCA cycle and oil mobilization.
DOI: 10.6084/m9.figshare.9119225.v1
title: Additional file 4 of A clinical survey of mosaic single nucleotide variants in disease-causing genes detected by exome sequencing

description: The list of HPO terms of 80 proband phenotypes. (XLSX 16 kb)
DOI: 10.6084/m9.figshare.7547651
title: MOESM5 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 5: Table S5. Genes annotated for transporters of ER membrane in developing P. sibirica seeds. They included ATP transporter (ER-ANT1) and nucleotide sugar transporter (AtUTr1).
DOI: 10.6084/m9.figshare.7547657
title: MOESM6 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 6: Table S6. Genes annotated for other transport proteins for FA/lipid transport in developing P. sibirica seeds. They mainly included ATP-binding cassette (ABC) proteins, acyl-CoA-binding proteins (ACBPs), lipid transfer proteins (LTPs) and trigalactosyldiacylglycerol 1 (TGD1) protein.
DOI: 10.6084/m9.figshare.4928834
title: Statistical Inference for a Relative Risk Measure

description: For monitoring systemic risk from regulators’ point of view, this article proposes a relative risk measure, which is sensitive to the market comovement. The asymptotic normality of a nonparametric estimator and its smoothed version is established when the observations are independent. To effectively construct an interval without complicated asymptotic variance estimation, a jackknife empirical likelihood inference procedure based on the smoothed nonparametric estimation is provided with a Wilks type of result in case of independent observations. When data follow from AR-GARCH models, the relative risk measure with respect to the errors becomes useful and so we propose a corresponding nonparametric estimator. A simulation study and real-life data analysis show that the proposed relative risk measure is useful in monitoring systemic risk.
DOI: 10.6084/m9.figshare.7547672
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.4928834.v1
title: Statistical Inference for a Relative Risk Measure

description: For monitoring systemic risk from regulators’ point of view, this article proposes a relative risk measure, which is sensitive to the market comovement. The asymptotic normality of a nonparametric estimator and its smoothed version is established when the observations are independent. To effectively construct an interval without complicated asymptotic variance estimation, a jackknife empirical likelihood inference procedure based on the smoothed nonparametric estimation is provided with a Wilks type of result in case of independent observations. When data follow from AR-GARCH models, the relative risk measure with respect to the errors becomes useful and so we propose a corresponding nonparametric estimator. A simulation study and real-life data analysis show that the proposed relative risk measure is useful in monitoring systemic risk.
DOI: 10.6084/m9.figshare.5974693
title: Asymmetry induces Q-band split in the electronic excitations of magnesium porphyrin

description: The electronic excitations of magnesium porphyrin (MgP), a molecular model for understanding the physics in light harvesting by biological systems, have been studied extensively. However, the theoretical underpinning of experimental measurements is still lacking, especially about the sub-bands in absorption spectrum. Here we propose that an asymmetry of MgP based on the uneven charge distribution of pyrrole rings and the linear structure of sp hybridised orbitals in Mg can largely influence the electronic excitations. Upon a very weak asymmetry of Mg-pyrrole bindings in MgP being introduced through the uneven distribution of charge, three different excitations are observed in the Q-band region of the experimental spectrum. Additionally, the predicted B-band excitations are highly correlated (10<sup>−2</sup> eV level) with experimental measurements. In contrast, without this asymmetry, there are only two degenerate excitations in the Q-band region, and low agreement (10<sup>−1</sup> eV level) of the B-band excitations with the experiment. The key physics of the unexpected and observable asymmetry in MgP is the ability of Mg to form sp hybridised orbitals on the third shell upon Mg binding to the nitrogen of pyrrole ring. Our findings provide new insight for high-energy efficiency of natural as well as artificial light-harvesting system for energy challenge.
DOI: 10.6084/m9.figshare.5974693.v1
title: Asymmetry induces Q-band split in the electronic excitations of magnesium porphyrin

description: The electronic excitations of magnesium porphyrin (MgP), a molecular model for understanding the physics in light harvesting by biological systems, have been studied extensively. However, the theoretical underpinning of experimental measurements is still lacking, especially about the sub-bands in absorption spectrum. Here we propose that an asymmetry of MgP based on the uneven charge distribution of pyrrole rings and the linear structure of sp hybridised orbitals in Mg can largely influence the electronic excitations. Upon a very weak asymmetry of Mg-pyrrole bindings in MgP being introduced through the uneven distribution of charge, three different excitations are observed in the Q-band region of the experimental spectrum. Additionally, the predicted B-band excitations are highly correlated (10<sup>−2</sup> eV level) with experimental measurements. In contrast, without this asymmetry, there are only two degenerate excitations in the Q-band region, and low agreement (10<sup>−1</sup> eV level) of the B-band excitations with the experiment. The key physics of the unexpected and observable asymmetry in MgP is the ability of Mg to form sp hybridised orbitals on the third shell upon Mg binding to the nitrogen of pyrrole ring. Our findings provide new insight for high-energy efficiency of natural as well as artificial light-harvesting system for energy challenge.
DOI: 10.6084/m9.figshare.9119249
title: Additional file 2 of Epigenetic alterations are associated with tumor mutation burden in non-small cell lung cancer

description: : Figure S1. Cell type composition by sample type. Figure S2. The comparation of DMPs in high TMB or low TMB based on lung cancer type LUAD or LUSC in our cohort. Figure S3. The comparation of DMPs in high TMB or low TMB in TCGA NSCLCs. Figure S4. The correlation of ASs with NOMs in TCGA database. Figure S5. 4 HOX family gene clusterâ s methylation status in our cohort. Figure S6. Heatmap plot of all the 437 genesâ methylation probes in TCGA database. Figure S7. Subgroup analysis of NOMs based on ethnicity (ASIAN, BLACK and WHITE) in TCGA database. Figure S8. The first 20 high frequency mutated genes of ASIAN, BLACK or WHITE population in TCGA database. (RAR 16686 kb)
DOI: 10.6084/m9.figshare.7547615
title: MOESM10 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 10: Table S9. The information of all primers used in this study for qRT-PCR and RT-PCR analysis.
DOI: 10.6084/m9.figshare.7547636
title: MOESM2 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 2: Table S2. Genes annotated for plastidial transporters and OPPP in developing P. sibirica seeds. Plastidial transporters involved specifically in carbon allocation into glycolysis and OPPP, and the transport of adenine nucleotide and Pi. Also, some genes were annotated for enzymes of OPPP in both plastid and cytosol.
DOI: 10.6084/m9.figshare.12788767
title: Additional file 3 of Composition and function of rhizosphere microbiome of Panax notoginseng with discrepant yields

description: Additional file 3. Pearson correlation analysis (P ≥ 0.05) among functional traits regarding P. notoginseng yields.
DOI: 10.6084/m9.figshare.7547717.v1
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.7547732.v1
title: MOESM6 of Effects of amino acids on the lignocellulose degradation by Aspergillus fumigatus Z5: insights into performance, transcriptional, and proteomic profiles

description: Additional file 6: Dataset S5. Protein and pathway data required for interactive mapping.
DOI: 10.5281/zenodo.10650635
title: Clutch size and fledging success of Pelecaniformes (Adam Guilfoyle 52095133)

description: A collection of mean clutch sizes and fledging success of various species of Pelecaniformes. Many species were lacking papers with the needed measurements. Includes the publishing dates, references to the original papers, the synonym and basionym names, and the order, family and genus of each species.
DOI: 10.5281/zenodo.10650636
title: Clutch size and fledging success of Pelecaniformes (Adam Guilfoyle 52095133)

description: A collection of mean clutch sizes and fledging success of various species of Pelecaniformes. Many species were lacking papers with the needed measurements. Includes the publishing dates, references to the original papers, the synonym and basionym names, and the order, family and genus of each species.
DOI: 10.6084/m9.figshare.9119351
title: Additional file 3: of Genome-wide analysis of the NF-Y gene family in peach (Prunus persica L.)

description: Arabidopsis protein sequence. (XLSX 11 kb)
DOI: 10.6084/m9.figshare.7547648.v1
title: MOESM4 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 4: Table S4. Genes annotated for metabolite transporters of tonoplast in developing P. sibirica seeds. They mainly involved in the transports of sugar, malate and sugar alcohol.
DOI: 10.6084/m9.figshare.10693562
title: Quality control and other metadata of Danish dataset.

description: Metadata and quality control information associated with the Danish Salmonella Typhimurium dataset collected to develop WGS-based source attribution methods.
DOI: 10.6084/m9.figshare.10693565.v1
title: Quality control and other metadata of French dataset.

description: Metadata and quality control information associated with the French Salmonella Typhimurium dataset collected to develop WGS-based source attribution methods.
DOI: 10.6084/m9.figshare.7547723
title: MOESM3 of Effects of amino acids on the lignocellulose degradation by Aspergillus fumigatus Z5: insights into performance, transcriptional, and proteomic profiles

description: Additional file 3: Dataset S2. Identification of the total proteome from A. fumigatus Z5 in different treatments.
DOI: 10.6084/m9.figshare.7547723.v1
title: MOESM3 of Effects of amino acids on the lignocellulose degradation by Aspergillus fumigatus Z5: insights into performance, transcriptional, and proteomic profiles

description: Additional file 3: Dataset S2. Identification of the total proteome from A. fumigatus Z5 in different treatments.
DOI: 10.6084/m9.figshare.7547738.v1
title: MOESM8 of Effects of amino acids on the lignocellulose degradation by Aspergillus fumigatus Z5: insights into performance, transcriptional, and proteomic profiles

description: Additional file 8: Dataset S7. KEGG and GO analysis results of the transcriptome of A. fumigatus Z5 in different treatments.
DOI: 10.6084/m9.figshare.25212347
title: Anonymised data for the Expecting Better Project

description: Data for Expecting Better Project - anonymised.
DOI: 10.6084/m9.figshare.25212347.v2
title: Anonymised data for the Expecting Better Project

description: Data for Expecting Better Project - anonymised.
DOI: 10.6084/m9.figshare.25212347.v1
title: Anonymised data for the Expecting Better Project

description: Data for Expecting Better Project - anonymised.
DOI: 10.6084/m9.figshare.7547654
title: Additional file 1: of Impact of early events and lifestyle on the gut microbiota and metabolic phenotypes in young school-age children

description: Table S1. Summary of phenotypic information of Dutch children at 6â 9â years of age. Table S2. Sequencing statistics for fecal samples of Dutch children. Table S3. Summary of phenotypic and sequencing information of Dutch adults. Table S4. List of genera that differ significantly in abundance between Dutch children and adults. Table S5. List of species that differ significantly in abundance between Dutch children and adults. Table S6. Dirichlet multinomial mixtures (DMM)-based enterotypes in Dutch children. Table S7. List of genera that differ significantly in abundance between enterotypes. Table S8. List of species that differ significantly in abundance between enterotypes. Table S9. Number of genes annotated at the genus level in enterotypes. Table S10. Differential enrichment of KEGG modules between enterotypes. Table S11. Differences in host phenotypic parameters between enterotypes. Table S12. Generalized linear analysis for the association between pre-school dietary factors and school-age blood metabolic parameters. Table S13. Taxa distributions of genes involved in butyrate and succinate production. Table S14. List of genes involved in butyrate, propionate and succinate production. (XLSX 241 kb)
DOI: 10.6084/m9.figshare.7547654.v1
title: Additional file 1: of Impact of early events and lifestyle on the gut microbiota and metabolic phenotypes in young school-age children

description: Table S1. Summary of phenotypic information of Dutch children at 6â 9â years of age. Table S2. Sequencing statistics for fecal samples of Dutch children. Table S3. Summary of phenotypic and sequencing information of Dutch adults. Table S4. List of genera that differ significantly in abundance between Dutch children and adults. Table S5. List of species that differ significantly in abundance between Dutch children and adults. Table S6. Dirichlet multinomial mixtures (DMM)-based enterotypes in Dutch children. Table S7. List of genera that differ significantly in abundance between enterotypes. Table S8. List of species that differ significantly in abundance between enterotypes. Table S9. Number of genes annotated at the genus level in enterotypes. Table S10. Differential enrichment of KEGG modules between enterotypes. Table S11. Differences in host phenotypic parameters between enterotypes. Table S12. Generalized linear analysis for the association between pre-school dietary factors and school-age blood metabolic parameters. Table S13. Taxa distributions of genes involved in butyrate and succinate production. Table S14. List of genes involved in butyrate, propionate and succinate production. (XLSX 241 kb)
DOI: 10.6084/m9.figshare.7547660
title: MOESM7 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 7: Table S7. Genes annotated for transporters and enzymes for TAG mobilization in developing P. sibirica seeds. These genes included TAG hydrolysis, peroxisomal transporter, FA Î˛-oxidation, glyoxylate cycle and gluconeogenesis.
DOI: 10.6084/m9.figshare.7547660.v1
title: MOESM7 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 7: Table S7. Genes annotated for transporters and enzymes for TAG mobilization in developing P. sibirica seeds. These genes included TAG hydrolysis, peroxisomal transporter, FA Î˛-oxidation, glyoxylate cycle and gluconeogenesis.
DOI: 10.5281/zenodo.10648267
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.