cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.23803824.v1
title: Supplementary Material for: Long-term trajectories of biomarkers, functional, and echocardiographic parameters in patients with chronic heart failure from dilated or ischaemic cardiomyopathy

description: Introduction: The long-term evolution of clinical, echocardiographic and laboratory parameters of cardiac function in patients with chronic heart failure (HF) with either reduced (HFrEF) or mildly reduced (HFmrEF) left ventricular ejection fraction (LVEF) is incompletely characterized. Methods: We identified patients with chronic stable HF who presented at least twice to a university HF outpatient clinic between 1995 and 2021. Trajectories of NYHA functional class, LVEF, left ventricular internal enddiastolic diameter (LVIDD), NT-proBNP concentrations and HF treatment over ten years follow-up were analysed using fractional polynomials. Analyses were repeated after stratifying patients according to aetiology (ischemic vs. dilated) or HF category (HFrEF vs. HFmrEF). Results: A total of 2,132 patients were included, of whom 51% had ischemic and 49% had dilated HF. 86% and 14% were classified as HFrEF and HFmrEF, respectively. Mean LVEF was 28±10%, and median NT-proBNP and eGFR values were 1,170 (385-3,176) pmol/L and 81 (62-100) ml/min/1.73m², respectively. Median follow-up was 5.2 (2.6-9.2) years. Overall, NYHA functional class and LVIDD trajectories were U-shaped, whereas LVEF and NT-proBNP concentrations markedly improved during the first year and remained stable thereafter. However, the evolution of HF parameters significantly differed with respect to HF category and aetiology, with greater improvements seen in patients with HFrEF of non-ischemic origin. Improvements in HF variables were associated with optimization of HF therapy, notably with initiation and up-titration of renin-angiotensin-system blockers. Discussion/Conclusion: This study provides insights into the natural history of HF in a large cohort of well-treated chronic HF outpatients with respect to subgroups of HF and different etiologist.
DOI: 10.6084/m9.figshare.23803815
title: Supplementary Data1; Supplemetary Data 2

description: Supplementary Data 1: Experimental average values (mol/L) and Relative Standard Deviation (RSD) of macronutrients, micronutrients and organic ligands in Xylem-sap at 3 and 5 months of growth in control and spiked conditions.Supplementary Data 2: Experimental REE values of Native Soil, Substrates, Roots, Xylem-sap and Leaves for control and spiked condition normalized to the Upper Continental Crust<br>
DOI: 10.6084/m9.figshare.23803815.v1
title: Supplementary Data1; Supplemetary Data 2

description: Supplementary Data 1: Experimental average values (mol/L) and Relative Standard Deviation (RSD) of macronutrients, micronutrients and organic ligands in Xylem-sap at 3 and 5 months of growth in control and spiked conditions.Supplementary Data 2: Experimental REE values of Native Soil, Substrates, Roots, Xylem-sap and Leaves for control and spiked condition normalized to the Upper Continental Crust<br>
DOI: 10.6084/m9.figshare.23803926
title: Supplementary Material for: Long-term trajectories of biomarkers, functional, and echocardiographic parameters in patients with chronic heart failure from dilated or ischaemic cardiomyopathy

description: Introduction: The long-term evolution of clinical, echocardiographic and laboratory parameters of cardiac function in patients with chronic heart failure (HF) with either reduced (HFrEF) or mildly reduced (HFmrEF) left ventricular ejection fraction (LVEF) is incompletely characterized. Methods: We identified patients with chronic stable HF who presented at least twice to a university HF outpatient clinic between 1995 and 2021. Trajectories of NYHA functional class, LVEF, left ventricular internal enddiastolic diameter (LVIDD), NT-proBNP concentrations and HF treatment over ten years follow-up were analysed using fractional polynomials. Analyses were repeated after stratifying patients according to aetiology (ischemic vs. dilated) or HF category (HFrEF vs. HFmrEF). Results: A total of 2,132 patients were included, of whom 51% had ischemic and 49% had dilated HF. 86% and 14% were classified as HFrEF and HFmrEF, respectively. Mean LVEF was 28±10%, and median NT-proBNP and eGFR values were 1,170 (385-3,176) pmol/L and 81 (62-100) ml/min/1.73m², respectively. Median follow-up was 5.2 (2.6-9.2) years. Overall, NYHA functional class and LVIDD trajectories were U-shaped, whereas LVEF and NT-proBNP concentrations markedly improved during the first year and remained stable thereafter. However, the evolution of HF parameters significantly differed with respect to HF category and aetiology, with greater improvements seen in patients with HFrEF of non-ischemic origin. Improvements in HF variables were associated with optimization of HF therapy, notably with initiation and up-titration of renin-angiotensin-system blockers. Discussion/Conclusion: This study provides insights into the natural history of HF in a large cohort of well-treated chronic HF outpatients with respect to subgroups of HF and different etiologist.
DOI: 10.6084/m9.figshare.23803926.v1
title: Supplementary Material for: Long-term trajectories of biomarkers, functional, and echocardiographic parameters in patients with chronic heart failure from dilated or ischaemic cardiomyopathy

description: Introduction: The long-term evolution of clinical, echocardiographic and laboratory parameters of cardiac function in patients with chronic heart failure (HF) with either reduced (HFrEF) or mildly reduced (HFmrEF) left ventricular ejection fraction (LVEF) is incompletely characterized. Methods: We identified patients with chronic stable HF who presented at least twice to a university HF outpatient clinic between 1995 and 2021. Trajectories of NYHA functional class, LVEF, left ventricular internal enddiastolic diameter (LVIDD), NT-proBNP concentrations and HF treatment over ten years follow-up were analysed using fractional polynomials. Analyses were repeated after stratifying patients according to aetiology (ischemic vs. dilated) or HF category (HFrEF vs. HFmrEF). Results: A total of 2,132 patients were included, of whom 51% had ischemic and 49% had dilated HF. 86% and 14% were classified as HFrEF and HFmrEF, respectively. Mean LVEF was 28±10%, and median NT-proBNP and eGFR values were 1,170 (385-3,176) pmol/L and 81 (62-100) ml/min/1.73m², respectively. Median follow-up was 5.2 (2.6-9.2) years. Overall, NYHA functional class and LVIDD trajectories were U-shaped, whereas LVEF and NT-proBNP concentrations markedly improved during the first year and remained stable thereafter. However, the evolution of HF parameters significantly differed with respect to HF category and aetiology, with greater improvements seen in patients with HFrEF of non-ischemic origin. Improvements in HF variables were associated with optimization of HF therapy, notably with initiation and up-titration of renin-angiotensin-system blockers. Discussion/Conclusion: This study provides insights into the natural history of HF in a large cohort of well-treated chronic HF outpatients with respect to subgroups of HF and different etiologist.
DOI: 10.6084/m9.figshare.23659665
title: Supplementary Information.pdf

description: The supplementary information includes the results related to the validation and quality control strategies developed to obtain data under statistical control for the leaves and Xylem sap of Vitis vinifera, through median ICP-MS analysis
DOI: 10.6084/m9.figshare.23659665.v3
title: Supplementary Information.pdf

description: The supplementary information includes the results related to the validation and quality control strategies developed to obtain data under statistical control for the leaves and Xylem sap of Vitis vinifera, through median ICP-MS analysis
DOI: 10.6084/m9.figshare.23659665.v2
title: Supplementary Information.pdf

description: The database includes the results related to the validation and quality control strategies for the leaves and Xylem sap of Vitis vinifera, as well as the experimental average values of macronutrients, micronutrients, and organic ligands in the Xylem sap at 3 and 5 months of growth under different experimental conditions. It also includes the experimental values of REEs (Rare Earth Elements) for the native soil, substrates, roots, Xylem sap, and leaves normalized to the Upper Continental Crust.
DOI: 10.5281/zenodo.7992513
title: Fisheries independent trawl survey data of fish biomass on North American and European oceanic shelves.

description: Publicly available scientific bottom trawl survey data, primarily sampling demersal commercial species, were obtained from the Northeast Pacific and North Atlantic shelf regions in 2021. The final dataset contains approx. 197,000 unique tows and includes data from 1970 to 2019 (166,000 tows between 1980-2015). For each tow in each survey, we selected all teleost and elasmobranch species and obtained species weight. We corrected these weights for differences in sampling area (in km2) and trawl gear catchability. The data processing scripts and individual survey data can be found on Github (DOI: 10.5281/zenodo.7992482). The data processing scripts are modified based on earlier work from Pinsky et al. (2013) and Maureaud et al. (2019). If the correction for gear catchability is not important, it is recommended to use the FishGlob database (DOI: 10.5281/zenodo.7484547). Please contact Daniel van Denderen (pdvd@aqua.dtu.dk) for questions. <strong>Column names</strong><br> Haul_id: unique haul identifyer<br> Survey_Region: survey name or name of ecoregion (depending on survey)<br> Gear: gear information (only included for northeast Atlantic region). Gear information is available for other regions. See original survey description (sources in manuscript).<br> Year: sampling year<br> Month: sampling month<br> Longitude: longitude (EPSG:4326)<br> Latitude: latitude (EPSG:4326)<br> Swept_area: estimate of swept area of survey gear (only included for northeast Atlantic region)<br> Bottom_depth: bottom depth in meters (as recorded in the survey data)<br> Family: taxonomic family of the teleost/elasmobranch<br> Name: species name (or higher taxonomic grouping)<br> kg_km2: wet weight (kilogram) per unit of swept area (km2)<br> kg_km2_corrected: wet weight (kilogram) per unit of swept area (km2) corrected for trawl gear catchability<br> F_type: fish type (demersal or pelagic)<br> Trophic_lev: Species-specific trophic level information <br> <strong>Data uncertainties</strong><br> Data have predominantly been analysed at the community level and between 1980 and 2015. Any species-specific inferences may need further checking. To reduce the effect of potential outlying biomass estimates, it is recommended to remove all individual observations 1.5 times less/greater than the interquantile range per survey and year based on log10-transformed biomass values. Please contact Daniel van Denderen (pdvd@aqua.dtu.dk) for any comments/questions.
DOI: 10.5281/zenodo.7992514
title: Fisheries independent trawl survey data of fish biomass on North American and European oceanic shelves.

description: Publicly available scientific bottom trawl survey data, primarily sampling demersal commercial species, were obtained from the Northeast Pacific and North Atlantic shelf regions in 2021. The final dataset contains approx. 197,000 unique tows and includes data from 1970 to 2019 (166,000 tows between 1980-2015). For each tow in each survey, we selected all teleost and elasmobranch species and obtained species weight. We corrected these weights for differences in sampling area (in km2) and trawl gear catchability. The data processing scripts and individual survey data can be found on Github (DOI: 10.5281/zenodo.7992482). The data processing scripts are modified based on earlier work from Pinsky et al. (2013) and Maureaud et al. (2019). If the correction for gear catchability is not important, it is recommended to use the FishGlob database (DOI: 10.5281/zenodo.7484547). Please contact Daniel van Denderen (pdvd@aqua.dtu.dk) for questions. <strong>Column names</strong><br> Haul_id: unique haul identifyer<br> Survey_Region: survey name or name of ecoregion (depending on survey)<br> Gear: gear information (only included for northeast Atlantic region). Gear information is available for other regions. See original survey description (sources in manuscript).<br> Year: sampling year<br> Month: sampling month<br> Longitude: longitude (EPSG:4326)<br> Latitude: latitude (EPSG:4326)<br> Swept_area: estimate of swept area of survey gear (only included for northeast Atlantic region)<br> Bottom_depth: bottom depth in meters (as recorded in the survey data)<br> Family: taxonomic family of the teleost/elasmobranch<br> Name: species name (or higher taxonomic grouping)<br> kg_km2: wet weight (kilogram) per unit of swept area (km2)<br> kg_km2_corrected: wet weight (kilogram) per unit of swept area (km2) corrected for trawl gear catchability<br> F_type: fish type (demersal or pelagic)<br> Trophic_lev: Species-specific trophic level information <br> <strong>Data uncertainties</strong><br> Data have predominantly been analysed at the community level and between 1980 and 2015. Any species-specific inferences may need further checking. To reduce the effect of potential outlying biomass estimates, it is recommended to remove all individual observations 1.5 times less/greater than the interquantile range per survey and year based on log10-transformed biomass values. Please contact Daniel van Denderen (pdvd@aqua.dtu.dk) for any comments/questions.
DOI: 10.25585/1488010
title: Metagenomic analysis of the rhizosphere of three biofuel crops at the KBS intensive site
DOI: 10.25982/68579.143/1766297
title: KBase Silver Case Study: Determining Media Formulation Requirements for Isolation of Microbiome Constituents

description: KBase has powerful tools for extracting microbial genomes from metagenomes and performing phylogenomic analysis and metabolic modeling. These tools can be used to predict key media ingredients for isolating uncultured members of microbiomes. Essential to this process are high-quality genomes extracted from metagenomic assemblies, and Kbase has a tool for assessing the quality of genomes too.Below we identify growth factors for a myxobacteria ("slime bacteria") yet to be isolated from the rhizosphere of Miscanthus xgiganteus (hybrid of "Silvergrass"), cultivated at the Kellogg Biological Station in Michigan. Data was transferred with Globus from JGI-IMG.This narrative and the "KBase Gold Case Study: Can you find Delftia?" make up the Silver and Gold Narrative Set for teaching metagenomics concepts to students in the BIT 477/577 course at North Carolina State University.This tutorial will guide the user through the process of extracting and annotating high-quality genomes from a metagenomic data, performing phylogenomic analysis, building a metabolic model, and using these to predict nutrient requirments for growth and isolation of corresponding microbes.
DOI: 10.5281/zenodo.7371147
title: Future climate under CMIP6 solar activity scenarios

description: This dataset is used for the paper: Future climate under CMIP6 solar activity scenarios
DOI: 10.5281/zenodo.7872349
title: DIMOSIC TC data

description: This data contains<br> 1. outputs from the GFDL simple TC tracker for each DIMOSIC model.<br> 2. interpolated TC related precipitation data. exp_names for the 8 models:<br> IFS: ec_oper<br> IFS-47R3: hjdt<br> ICON: dwd3<br> SHiELD: gfdl2<br> CMC: cmc2<br> UM: ukmo<br> ARPEGE: meteofrance3<br> JMA: jma Please contact Jan-Huey.Chen@noaa.gov for any questions.
DOI: 10.6084/m9.figshare.12280547.v1
title: BeeWalk dataset 2008-19

description: DESCRIPTIONFocussed on bees in the genus Bombus (bumblebees) and Apis (honeybees), with occasional records of other bee species. No particular intentional bias in habitats surveyed.GEOGRAPHIC DESCRIPTIONThe BeeWalk survey covers Great Britain (but not Northern Ireland). Recording effort is biased towards Somerset, South Wales and the Scottish central belt as a result of publicity pushes, but East Anglia, Cornwall, north/mid Wales and north-west Scotland are somewhat under-represented in the dataset. Records within this dataset are generally collected at 100m resolution.PURPOSERecords were collected with the aim of better understanding the abundance and distribution of British bumblebee species, and creating an index of abundance in the same way as has been done for butterflies with the UKBMS dataset.DATA QUALITYData are collected by volunteers whose identification abilities will vary. Frequent bumblebee ID training courses are provided for volunteers, identification resources are provided on the project website, and the category 'indeterminate bumblebee' is provided as a catch-all for bees where the identification is uncertain. Trials carried out as part of the NPPMF project have found that volunteer's error rate using the BeeWalk methodology is not significantly different to that of an expert. Photographs and/or specimens are not required for each sighting, but unusual sightings (rare or difficult-to-identify species) are checked by referral to the recorder unless they are known to be experts. The dataset has been validated and verified using the NBN Record Cleaner, and as a consequence some erroneous grid references have been corrected and records outside their range have been checked and confirmed by an expert after referral to the original recorder, or downgraded to 'indeterminate bumblebee' where no evidence could be provided. The cryptic Bombus lucorum complex are treated as B. lucorum sensu lato, and only queens and males of B. terrestris & B. lucorum (sl) are recorded to species (indistinguishable workers are treated as the aggregate species terrestris/lucorum).METHODSVolunteers walk a set transect on a monthly basis between March and October (inclusive), recording all bumblebees seen within a 4m x 4m 2m 'recording box' in front of the recorder (see www.beewalk.org.uk for full details). Photographs are not submitted in support of all records, but netting and photographing bumblebees to help ID is encouraged. BBCT also run a series of ID training events aimed at BeeWalkers to upskill volunteers. Records submitted are validated and their distribution verified using the NBN Record Cleaner with verification rules from the Bees, Wasps and Ants Recording Society. Records which fail verification or validation checks are referred back to recorders for further evidence.
DOI: 10.25982/77705.1341/1779218
title: Impact of BBDuk metagenomic read trimming and decontamination

description: BackgroundInvestigators using metagenomic sequencing to study their microbiomes are often provided data that has been trimmed and decontaminated or do it themselves without knowing the effect these procedures can have on their downstream analyses. Here we evaluated the impact that JGI trimming and decontamination procedures had on assembly and binning metrics, placement of metagenome assembled genomes into species trees, and functional profiles of metagenome-assembled genomes (MAGs) extracted from twenty three complex rhizosphere metagenomes. We also investigated how more aggressive trimming impacts these binning metrics.ResultsWe found that JGI trimmed and decontamination of input reads had some significant impacts in assembly and binning metrics compared to raw reads, and that differences in placement of MAGs in species trees increased with decreasing completeness and contamination thresholds. More aggressive trimming beyond those used by JGI were found to reduce MAG counts.ConclusionsMild trimming and decontamination of metagenomics reads prior to assembly can change an investigator’s answer to the questions, “Who is there and what are they doing? However, mild trimming and decontamination of metagenomic reads with high quality scores is recommended for those who elect to do so.
DOI: 10.5281/zenodo.7116177
title: Peak discharge and total flood volume dataset

description: Peak discharge and total flood volume dataset extracted from the compound flood events in the upper reaches of the Yangtze River based on peak-over-threshold approach.
DOI: 10.6084/m9.figshare.23803785
title: Annotations of 250 high quality rice genomes

description: To identify transposons, it is needed to construct a complete high-quality pan-genome from diverse rice accessions. All rice assemblies have been deposited at the Genome Warehouse (GWH) (https://bigd.big.ac.cn/gwh/) under PRJCA018476.This project contains annotated information about the genome.
DOI: 10.6084/m9.figshare.23803785.v2
title: Annotations of 250 high quality rice genomes

description: To identify transposons, it is needed to construct a complete high-quality pan-genome from diverse rice accessions. All rice assemblies have been deposited at the Genome Warehouse (GWH) (https://bigd.big.ac.cn/gwh/) under PRJCA018476.This project contains annotated information about the genome.
DOI: 10.6084/m9.figshare.23803785.v1
title: Annotations of 232 high quality rice genomes

description: To identify transposons, it is needed to construct a complete high-quality pan-genome from diverse rice accessions. All rice assemblies have been deposited at the Genome Warehouse (GWH) (https://bigd.big.ac.cn/gwh/) under PRJCA018476.This project contains annotated information about the genome.
DOI: 10.5281/zenodo.8192011
title: EA ModelSet

description: This dataset contains 863 different EA models in <code>.json</code>, <code>.xml</code> (The Open Group Standard ArchiMate Model Exchange File Format), <code>.archimate</code> (Archi-specific XML model storage format) and <code>.csv</code> format. More information about EA ModelSet can be found in the GitHub Repository or on the Website.
DOI: 10.5281/zenodo.8192010
title: EA ModelSet

description: This dataset contains 863 different EA models in <code>.json</code>, <code>.xml</code> (The Open Group Standard ArchiMate Model Exchange File Format), <code>.archimate</code> (Archi-specific XML model storage format) and <code>.csv</code> format. More information about EA ModelSet can be found in the GitHub Repository or on the Website.
DOI: 10.5517/ccdc.csd.cc2dlzll
title: CCDC 2222780: Experimental Crystal Structure Determination

description: Related Article: Rajata Kumar Sahoo, Arukela Ganesh Patro, Nabin Sarkar, Sharanappa Nembenna|2023|Organometallics|42|1746|doi:10.1021/acs.organomet.2c00610
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.cc2dlzmm
title: CCDC 2222781: Experimental Crystal Structure Determination

description: Related Article: Rajata Kumar Sahoo, Arukela Ganesh Patro, Nabin Sarkar, Sharanappa Nembenna|2023|Organometallics|42|1746|doi:10.1021/acs.organomet.2c00610
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.cc2dlznn
title: CCDC 2222782: Experimental Crystal Structure Determination

description: Related Article: Rajata Kumar Sahoo, Arukela Ganesh Patro, Nabin Sarkar, Sharanappa Nembenna|2023|Organometallics|42|1746|doi:10.1021/acs.organomet.2c00610
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.