cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.23931603.v1
title: Supplementary Material for: Assessment of the needs of nephrology divisions to implement return of clinically significant research genetic results: a survey of Nephrotic Syndrome Study Network (NEPTUNE) investigators

description: Introduction: There is an increasing need to return genetic testing results to patients with kidney disease who first were genotyped on a research basis. Operationalizing this process in nephrology clinics is challenged by a limited number of genetic providers with whom to partner and a general lack of support services for all clinicians. Methods: We administered a survey in March 2022 to assess the current ability and ongoing needs of nephrology divisions to return clinically significant research genetic results to patients and to implement clinical genetic testing. This survey was distributed to institutions within the Nephrotic Syndrome Study Network (NEPTUNE) as part of the planning process for return of research genetic results to participants with pathogenic variants in Mendelian nephrotic syndrome genes. Results: 27 of 28 sites (96%) completed the survey. 59% (n= 16) of sites said they could handle return of research genetic results independently, with the rest expressing hesitation about the volume and complexity of patients and the limited resources and access to genetics services. 81% (n=22) of these institutions did have a genetics clinic and 26% (n=7) have a nephrology genetics clinic. However, 70% (n= 10) of these clinics have a waiting time over one month. 89% of divisions (n=24) are conducting genetic testing and 96% of those (n=23) use a kidney multi-gene panel. In 46% of divisions (n=11), nephrologists are handling logistics of obtaining genetic testing samples themselves. Conclusion: We identified specific areas of support needed for return of clinically significant genetic results from research studies. While the surveyed nephrologists are conducting genetic testing, there are limitations in the support services available. This survey will help guide other research studies that wish to return genetic results to participants and also highlights the need for increasing support to effectively operationalize genetic testing in nephrology clinics.
DOI: 10.6084/m9.figshare.29184404.v1
title: <b>Table S2. Domegraphic characteristics of the study population (N=60).</b>

description: <b>Table S2. Domegraphic characteristics of the study population (N=60).</b>
DOI: 10.6084/m9.figshare.5667598.v1
title: Commercialization channels of organic products in Brazil: analysis at the first level of the production chain

description: Abstract Specialized literature on organic production highlights the presence and concentration of retail, especially supermarkets, in the organic enhancement chain. This presents enormous obstacles for the entrance of small farmers in the production of organic products due to administrative barriers, in addition to pressure for lower prices by the supermarket retail network. This paper investigates the commercialization channels of organic production in Brazil. The survey was undertaken in 2013; questionnaires were sent to 900 out of approximately 11.200 farmers producing organic products; 216 answers were received. Analysis showed that approximately 90% of farmers provided for the internal market and 60% of the products were fresh fruits and vegetables. The distribution of organic products in Brazil is highly fragmented at the local, regional and national levels. The presence of supermarkets and intermediaries in the commercialization of fruits and vegetables is relevant, regardless of the size of the farm. There is a great dispersion of channels in the case of small farmers, although supermarkets rank second. However, direct commercialization (farmers markets) is the main form of commercialization of the produce. Commercialization triggered by social programs has guaranteed a considerable part of the income on small production units or small farms. It seems that high involvement of retail networks and agents in the agribusiness segment causes low development rates in small agricultural units and in local development due to the latter’s low profit margins.
DOI: 10.6084/m9.figshare.7033331.v2
title: Dark Energy and Dark Matter

description: The rudiments of a theory of dark energy. The theoretical result is confronted with the numerical value calculated from the available data. Excellent matching of numerical values resulting in three independent paths makes the approach plausible. The work at hand is analogous to Kepler's laws of planetary orbits. Only Isaac Newton put Kepler 's laws on a theoretical basis, which is provided here by Thomas Görnitz [1]. The empirical Balmer formula for the frequencies of the spectral lines in the arc spectrum of hydrogen was also theoretically justified by Niels Bohr, who calculated the energy levels of the hydrogen atom and the frequencies of the spectral lines.<br>
DOI: 10.17632/7734j4fd98
title: NIR spectral data and actual quality measurement of intact cocoa Bean samples

description: This dataset contains absorbance spectrum (NIR) in wavelength range from 1000 to 2500 nm for a total of 72 bulk intact cocoa bean samples. Each bulk amounted 50g of intact beans. Inner quality parameters were measured as moisture content (%) and fat content (%). We employ NIRS method as a part of technology adoption for cocoa farmers in Aceh province, Indonesia. the NIRS technology can rapidly and simultaneously predict those both quality parameters of intact cocoa beans. Dataset were presented in form of excel *.xlsx and Unscrambler file *.unsb.
DOI: 10.6084/m9.figshare.16680712.v1
title: supplementary table.docx

description: supplementary table of a article
DOI: 10.6084/m9.figshare.24106161.v2
title: Data from: No model to rule them all: a systematic comparison of 83 thermal performance curve models across traits and taxonomic groups

description: This repository contains two compilations of thermal performance datasets of a) biological traits and b) individual enzymes of ectotherms from the literature.<br><br>The two tables include:an id for each thermal performance datasetthe organism (taxon column)taxonomy information (kingdom and phylum columns)the enzyme name (if applicable)trait information (trait, broad_trait_group, specific_trait_group columns, if applicable)trait units (trait_unit_SI column)the experimental temperature in °Ctrait/enzyme measurements (trait_value column)the study from which data were obtained (citation column)
DOI: 10.6084/m9.figshare.3172573
title: A new caenagnathid (Dinosauria: Oviraptorosauria) from the Horseshoe Canyon Formation of Alberta, Canada, and a reevaluation of the relationships of Caenagnathidae

description: Our understanding of caenagnathids has benefited from recent discoveries, including nearly complete skeletons from the Hell Creek Formation of Montana. However, their phylogenetic relationships remain unclear. A new specimen from the Horseshoe Canyon Formation of Alberta has implications for the phylogeny and paleobiology of these creatures. The partial skeleton is articulated and includes a mandible, a full cervical and dorsal series of vertebrae, a right pectoral girdle and arm, a sternum, gastralia, a partial ilium, and a partial hind limb. The mandible is edentulous and the articular ridge is intermediate in form between <i>Caenagnathus collinsi</i> and <i>Chirostenotes pergracilis</i>. The neck is long and composed of at least 11 well-pneumatized cervical vertebrae with fused cervical ribs. The dorsal ribs have finger-like uncinate processes dissimilar in shape to those of other oviraptorosaurs. The pectoral girdle is large and typically maniraptoran, except that the glenoid of the scapulocoracoid faces laterally instead of posteroventrally. The arm is well muscled and can be interpreted to have been a pennibrachium, as indicated by ulnar papillae on the ulna. The manus is characterized by a short first metacarpal but an elongate phalanx I-1 and oviraptorid-like phalangeal proportions in the second digit. These and other features indicate that the specimen represents a new taxon, <i>Apatoraptor pennatus</i>, gen. et sp. nov. Phylogenetic analysis resolves the complicated relationships of Caenagnathidae and allows the evolution of display features to be traced throughout Oviraptorosauria. http://zoobank.org/urn:lsid:zoobank.org:pub:122957D7-F65F-4A2C-86AF-386AE8AAF2C4 SUPPLEMENTAL DATA—Supplemental materials are available for this article for free at www.tandfonline.com/UJVP Citation for this article: Funston, G. F., and P. J. Currie. 2016. A new caenagnathid (Dinosauria: Oviraptorosauria) from the Horseshoe Canyon Formation of Alberta, Canada, and a reevaluation of the relationships of Caenagnathidae. Journal of Vertebrate Paleontology. DOI: 10.1080/02724634.2016.1160910.
DOI: 10.6084/m9.figshare.28241096.v1
title: BAM files

description: Introduction: The microbiome—the community of trillions of microorganisms living in and on the human body—plays a significant role in health and disease, including in pancreatic cancer. Research has increasingly shown that the gut and pancreatic microbiomes may influence the development, progression, and therapeutic intervention of pancreatic cancer. Microbiome dysbiosis (an imbalance in microbial communities) has been linked to an altered immune response in pancreatic cancer. Certain bacteria, for instance, promote the recruitment of immunosuppressive cells in the tumor microenvironment, which can enable cancer cells to evade the immune system.Objectives: Determination of unique phylogenetic operational taxonomic units (OTUs) of microbiome responsible for pancreatic cancer development in mice.Materials & Methods: Isolation of Genomic DNA from fecal matter isolated from healthy mice and mice with subcutaneous PANC-1 human pancreatic cancer xenografts, 16S rDNA PCR and creating amplicon libraries and NG Sequencing, Software analysis of the data generated and identified OTUs of the microbiota.Discussion/Results: A comprehensive data analysis of 16S rDNA sequencing demonstrates increased abundance of several phylogenetic species of bacteria and less abundance of other OTUs of bacteria as per 16S rDNA sequencing data analysis in feces microbiome of mice with pancreatic cancer.
DOI: 10.6084/m9.figshare.7283087.v1
title: Global Human Modification

description: The global Human Modification map (HM) provides a cumulative measure of human modification of terrestrial lands across the globe at a 1-km resolution. It is a continuous 0-1 metric that reflects the proportion of a landscape modified based on modeling the physical extents of 13 anthropogenic stressors and their estimated impacts using spatially-explicit global datasets with a median year of 2016. <br><br>The HM map was developed by scientists at The Nature Conservancy and Conservation Science Partners. For questions or feedback on this map please contact Christina Kennedy (ckennedy@tnc.org) or James Oakleaf. We welcome the opportunity to hear from and to collaborate with researchers on projects that integrate the HM map into their work.<br><br>For a description of the methods and to cite the use of HM map, see:<br>Kennedy CM, Oakleaf JR, Theobald DM, Baruch‐Mordo S, Kiesecker J. Managing the middle: A shift in conservation priorities based on the global human modification gradient. Glob Change Biol. 2019;25:811–826. https://doi.org/10.1111/gcb.14549<br><br>Interactive data viewer available at: http://s3.amazonaws.com/DevByDesign-Web/Apps/gHM/index.html<br><br>
DOI: 10.17632/b6x3gjsvn2
title: Data for: The influence of microplastics on trophic interaction strengths and oviposition preferences of dipterans

description: Functional response, uptake (1) and oviposition results (2).
DOI: 10.6084/m9.figshare.17109854.v1
title: data-YRB_for-share.zip

description: This dataset is used data in the article "<b>Representing Irrigation Processes in the Land Surface–Hydrological Model and a Case Study in the Yangtze River Basin, China</b>"
DOI: 10.6084/m9.figshare.13064126.v1
title: Babylonian tunings for the 9-string sammû (c. 1800–600 BCE) and a hypothetical tablature for Panhellenic aulos (c. 500 BCE)

description: This fileset considers how musical practice and notation interacted in Athens during the lifetimes of Pythagoras and Socrates. Babylonian tunings and Imperial Aramaic script provide context informing the interpretation of Hellenic evidence from a period in which all aspects of Greek civilization were influenced by the Near East.Aimed at composers, performers, scholars, and educators with an interest in the music of multicultural metropolitan societies before Plato, this is a progress report sharing research results obtained by practical experiment. It makes an intimidating body of scholarship meaningful to musicians, offers some new insights to Classicists, and hones a Very Early music methodology in which the input of skilled practitioners in diverse cultures is central to the formation of ideas. Making sense of the hole boring of auloi buried in the Classical era forces a reassessment not only of established thinking but the mode in which scholarship is conducted when studying traces of musical activity – developing interpretations, overcoming bias, and communicating results.The contents of the fileset are multimodal (video, diagrams, writing, and an 'Aulos Tablature' font) to help dismantle echo chambers of expertise and stimulate multi-perspective collaborations. The first two pages of the PDF are designed to be printed on A3/Tabloid size paper. The video is also available on YouTube (link below), where edited subtitles may be switched on for additional clarity during the technical demonstrations and discussion.
DOI: 10.6084/m9.figshare.15054198.v1
title: AUD meta-analysis summary statistics

description: AUD meta-analysis summary statistics
DOI: 10.6084/m9.figshare.29128115.v6
title: <b>Data-Driven Deep Learning for Predicting Ligament Fatigue Failure Risk Mechanisms</b>

description: This study proposes a multimodal integrated framework for ligament fatigue life assessment.
DOI: 10.6084/m9.figshare.7285127.v1
title: Supplementary Material for: Transcriptome Profile Analysis Reveals an Estrogen Induced LncRNA Associated with Lipid Metabolism and Carcass Traits in Chickens (Gallus Gallus)

description: <b><i>Background/Aims:</i></b> Accumulating evidences have demonstrated that long noncoding RNAs (lncRNA) play important roles in hepatic lipid metabolism in mammals. However, no systematic screening of the potential lncRNAs in the livers of laying hens has been performed, and few studies have been reported concerning the effects of the lncRNAs on lipid metabolism in the livers of chickens during egg-laying period. The purpose of this study was to compare the difference in lncRNA expression in the livers of pre-laying and peak-laying hens at the age of 20 and 30 weeks old by transcriptome sequencing and to investigate the interaction networks among lncRNAs, mRNAs and miRNAs. Moreover, the regulatory mechanism and biological function of lncLTR, a significantly differentially expressed lncRNA in the liver between pre- and peak-laying hens, was explored <i>in vitro</i> and <i>in vivo</i>. <b><i>Methods:</i></b> Bioinformatics analyses were conducted to identify the differentially expressed (DE) lncRNAs between the two groups of hens. The target genes of the DE lncRNA were predicated for further functional enrichment. An integrated analysis was performed among the DE lncRNA datasets, DE mRNAs and DE miRNA datasets obtained from the same samples to predict the interaction relationship. In addition, <i>in vivo</i> and <i>in vitro</i> trials were carried out to determine the expression regulation of lncLTR, and polymorphism association analysis was conducted to detect the biological role of ncLTR. <b><i>Results:</i></b> A total of 124 DE lncRNAs with a <i>P</i>-value ≤ 0.05 were identified. Among them, 44 lncRNAs including 30 known and 14 novel lncRNAs were significant differentially expressed (SDE) with FDR ≤ 0.05. Thirty-two lncRNAs were upregulated and 12 were downregulated in peak-laying group compared with pre-laying group. The functional enrichment results revealed that target genes of some lncRNAs are involved in the lipid metabolism process. Integrated analysis suggested that some of the genes involved in lipid metabolism might be regulated by both the lncRNA and the miRNA. In addition, an upregulated lncRNA, designated lncLTR, was demonstrated to be induced by estrogen via ERβ signaling. The c242. G&gt;A SNP in lncLTR was significantly associated with chicken carcass weight, evisceration weight, semi-evisceration weight, head weight, double-wing weight, claw weight traits, and blood biochemical index, especially for the blood triglyceride content. <b><i>Conclusion:</i></b> A series of lncRNAs associated with lipid metabolism in the livers of chickens were identified by transcriptome sequencing and functional analysis, providing a valuable data resource for further studies on chicken hepatic metabolism activities. LncLTR was regulated by estrogen via ERβ signaling and associated with chicken carcass trait and blood triglyceride content.
DOI: 10.6084/m9.figshare.20101301.v2
title: database.xlsx

description: This database contains the dataset for the following manuscript: Cardiovascular effects of exercise induced dynamic hyperinflation in COPD patients – dynamically hyperinflated and non-hyperinflated subgroups
DOI: 10.17632/p4prb8mb32
title: Ethyl_Levulinate_from_Colombian_Rice_Straw

description: This data set presents support information to the techno-economic and environmental assessment performed to evaluate the production of ethyl levulinate from Colombian rice straw. The data include the backup files for the simulations performed in Aspen Plus v12 for both scenarios assessed (base and alternative), the life cycle inventories (rice cultivation, base scenario, and alternative scenario are included), and the cost calculation for the alternative scenario.
DOI: 10.6084/m9.figshare.19501945.v2
title: Suarez et al. Urban birds functional diversity EAP21-0638

description: Supplementary data paper:<br>Disentangling direct and indirect effects of landscape structure on urban bird richness and functional diversity <br><br>Andrés Felipe Suárez-Castro, Martine Maron, Matthew G.E. Mitchell and Jonathan R. Rhodes<br><br>Table D1: Species recorded in the landscape units during the 5-minute point count surveys. We report the species traits and the guilds we used to classify each species. Species included within a guild are based on the main item of consumption (&gt; 60 %) as reported by Wilman et al. (2014). Groups used to estimate species abundances and the model with the lowest AIC and the coefficient of variation (CV) is shown. Within each group, we used species (s) as a covariate to model the scale parameter. Other potential covariates were season (se) and percentage of tree cover (t); hn = half detection function. Species with NA in the density estimates did not have enough records to fit the detection function. Species of raptors (<i>Ellanus axillaris</i>, <i>Aviceda subcristata </i>and <i>Haliastur sphenurus</i>) that were recorded sporadically during the point counts are omitted. <br>
DOI: 10.6084/m9.figshare.11350472.v1
title: Framework for urban freight transport analysis in medium-sized cities

description: Abstract The urbanization process, especially the diverse aspects regarding size, function, position and growth of cities, significantly affect the Urban Freight Transport (UFT). This paper deals with behaviour of UFT in medium-sized cities. Here we will identify the attributes that characterize the Medium-sized Cities (MC), as well as the influence factors in UFT. In addition, a survey among specialists and public agents of medium-sized cities is presented, about the level of interaction between attributes that characterize MC and the factors that influence UFT. For analysis and validation of the opinion survey is performed non-parametric statistical test, and an analysis of the confidence interval to define the level of interaction between attributes and UFT factors. As a result, we provide a framework that demonstrates the interaction between attributes of MC and the factors that influence UFT. The factors “Projects and measures of local authorities”, and “Infrastructure available to the UFT”, together with the lack of studies related to freight transport (knowledge, innovation and technological advancement) were identified as the main issues that require attention on UFT in MC. This proposal may contribute to the decision makers regarding urban planning and brings a theoretical contribution to future research in UFT planning studies.
DOI: 10.6084/m9.figshare.22598230.v1
title: CHORISO - chemical reaction SMILES from academic journals

description: CHORISO (<b>CH</b>emical <b>O</b>rganic <b>R</b>eact<b>I</b>on <b>S</b>MILES <b>O</b>mnibus) is a curated dataset containing chemical reactions SMILES extracted from high-impact factor journals. It is built using the CJHIF dataset, and the resulting data is used to propose a new holistic evaluation of reaction prediction models (see paper). A detailed explanation of the processing steps and proposed metrics is included in this repo<i>.</i>The following files are included:choriso_public.tar.gz: compressed file containing the ChORISO dataset, 2'224'239 canonical reaction SMILES.uspto_public.tar.gz: file containing the USPTO dataset cleaned and processed following the same pipeline than CHORISO.splits.tar.gz: compressed folder containing the training, validation and test files used to train and evaluate models in the study.<br>
DOI: 10.6084/m9.figshare.24045357.v1
title: Vpe.pep.fa

description: Annotated protein sequences from the Verpa penis genome.
DOI: 10.6084/m9.figshare.24417076.v1
title: code.zip

description: <b>PhytoExpr</b>
DOI: 10.6084/m9.figshare.5349937.v1
title: Untitled Item

description: Whole genome sequencing of C. albicans ATCC10231.
DOI: 10.17632/26td6trhmg
title: Data on Lung and Intestinal Microbiome in Ageing Rats exposed to Air Pollution

description: This dataset reflects the lung and intestinal microbiome in Fischer 344 ageing rats exposed to traffic-related air pollution for 3 months. Data here include lung and intestinal microbiome identified by analysing the 16S ribosomal (r)RNA gene amplified with specific primers, including Illumina sequencing adapters and sample-specific barcodes, and sequenced on an Illumina MiSeq sequencer.
DOI: 10.17632/9zkw8tgxn7
title: Isotope and water chemistry data of groundwater, United States

description: This dataset contains isotope and water chemistry data of groundwater in the United States, downloaded from the United States Geological Survey’s Water Quality Portal, which is used for 14C groundwater age dating.
DOI: 10.17632/jvkm6n2wyc
title: [Dataset] Detrimental effects of anthropogenic disturbances on ant-mediated seed dispersal services: A global meta-analysis

description: Dataset supporting the statistical analyses of the Review Article "Detrimental effects of anthropogenic disturbances on ant-mediated seed dispersal services: A global meta-analysis" by Byanca N. T. Cavalcante, Diego Centeno-Alvarado, Fernanda M.P.Oliveira, José D.Ribeiro-Neto, Alexander V. Christianini, Xavier Arnan, and Inara R.Leal in Perspectives in Plant Ecology, Evolution and Systematics (https://doi.org/10.1016/j.ppees.2025.125876).
DOI: 10.6084/m9.figshare.21964709.v1
title: A wetter East Asia during the early Pliocene indicated by calcite nodules from the Chinese Loess Plateau

description: The dataset contains stable carbon and oxygen isotopic compositions, as well as trace elemental concentrations of calcite nodules collected from a Pliocene Red Clay sequence (Lantian) located on the southern edge of the Chinese Loess Plateau.