cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.4535450.v1
title: Supplementary Material for: Use of Transcutaneous Bilirubin to Determine the Need for Phototherapy in Resource-Limited Settings

description: <b><i>Background:</i></b> Routine and timely determination of total serum bilirubin (TSB) remains a challenge in many resource-limited countries with substantial burden of severe neonatal hyperbilirubinemia. Limited evidence exists on the potential usefulness of transcutaneous bilirubin (TcB) to identify infants who may require phototherapy based on possible treatment criteria in such settings. <b><i>Objective:</i></b> To compare the number of infants requiring phototherapy across different TSB criteria and determine the predictive performance of TcB under each criterion. <b><i>Methods:</i></b> Infants with paired TcB and TSB measurements in a maternity hospital in Lagos, Nigeria, were assessed for phototherapy based on TSB criteria by the American Academy of Pediatrics (AAP), National Institute for Health and Clinical Excellence (NICE) UK, and World Health Organization (WHO), and an absolute threshold of ≥12 mg/dL. The predictive performance of TcB across treatment criteria was evaluated with receiver operating curve analysis. <b><i>Results:</i></b> A total of 1,011 infants with a mean TcB of 10.54 ± 3.19 (range: 2.7-19.9) mg/dL and TSB of 9.63 ± 2.61 (range: 0.3-19.5) mg/dL were assessed. Some 60 (5.9%) infants required phototherapy by 1 or more TSB criteria, with TSB ≥12 mg/dL identifying 55 (91.7%) and AAP 27 (45%) of these infants. All infants identified by the NICE and WHO criteria were equally detected by the AAP criterion. TcB showed negative predictive values of 99.0-99.9%, and positive predictive values of 7.7-15.5% across all criteria. <b><i>Conclusions:</i></b> The number of infants requiring phototherapy varies significantly across treatment criteria. TcB may be useful in identifying infants who do not require phototherapy, but may also identify a high proportion of false positives that is burdensome in resource-limited settings.
DOI: 10.6084/m9.figshare.16825690.v1
title: Naqinezhad et al._GCB_Hyrcanian data.xlsx

description: The current dataset includes the data on the 95 selected species in the 512 used plots with the 8 variables used in the models + future bio1 and bio18 values + Ellenberg and growth form info for each species. This is included in the attached excel (in long format (presences+absences) for the main dataset).<br>
DOI: 10.6084/m9.figshare.25735446.v1
title: Supplementary Material for: Association between waist-hip ratio and Female Infertility in the United States: Data from National Health and Nutrition Examination Survey 2017–2020

description: Introduction: Obesity has previously been correlated with an elevated risk of reproductive system diseases in women. The waist-hip ratio (WHR) has been shown to be correlated with visceral fat, making it one of the most commonly used indicators of abdominal obesity. However, little is known about the relationship between WHR and infertility. Therefore, the aim of this study was to evaluate the effect of the WHR on infertility in women of childbearing age.
Methods: The study used cross-sectional data from women aged 20 to 45 who participated in the National Health and Nutrition Examination Survey (NHANES), which was conducted between 2017 and 2020. We collected details of their Waist Circumference, hip Circumference, fertility status and several other essential variables. We used multivariate logistic regression analysis and subgroup analyses to assess the association between WHR and infertility.
Results: There were 976 participants, with 12.0% (117/976) who experienced infertility. After adjusting for potential confounding factors, our multivariate logistic regression analysis revealed that every 0.1 unit increase in WHR resulted in a more than 35% higher risk of infertility (OR (95% CI): 1.35 (1.01~1.81), P = 0.043). Compared to the group with WHR &lt;0.85, the risk of infertility increased in the group with WHR ≥0.85, with an adjusted odds ratio (OR) of 1.74 (95% CI 1.06~2.85). When WHR was treated as a continuous variable, it was observed that each 0.1 unit increase in WHR was associated with a relatively high risk in the secondary infertility population after adjusting all covariates, with an OR of 1.66 (95% CI 1.14~2.40, P = 0.01). When WHR was analyzed as a categorical variable, the group with WHR≥0.85 exhibited a significantly higher risk of secondary infertility than the group with WHR&lt;0.85, with the OR of 2.75 (95% CI: 1.35-5.59, P = 0.01) after adjusting for all covariates. Furthermore, the interaction analysis indicated that there was a significant interaction between age status on WHR and the risk of infertility. 
Conclusion: WHR showed a positive correlation with the risk of infertility. This study highlights the importance of effectively managing abdominal fat and promoting the maintenance of optimal WHR levels to mitigate the progression of infertility, particularly for younger women.
DOI: 10.17632/ttj49r2m2d.1
title: Datasets on Berlin PCD-variability

description: The cooling services from urban green spaces (UGS) are controlled by various green, grey and blue parameters which may show high spatial and temporal variabilities. This study analyzes the Land Surface Temperature (LST), the Park Cooling Distance (PCD) and Park Cooling Intensity (PCI) of 228 parks, 512 allotments and 143 cemeteries in Berlin (Germany), based on six hot summer Landsat 8 Oli scenes. While LST displayed a low temporal and spatial variability (mean CV: 0.04 to 0.07), both coefficients were much higher for PCD (CV: 0.8 to 1.1) and PCI (CV: 0.6 to 1.0). Among the three UGS types, 50% of the cemetery sites showed a low temporal PCD variability (CV &lt; 0.2), while only 20% of the allotment and 37% of the park sites belonged to this group. The PCD reliability was mainly related to outer parameters within the PCD, but regression analyses failed to conclusively explain this (R2: 0.3 to 0.4). Since the reliability of providing cooling services is an important feature of UGS sites, we developed a conceptual model for determining the relevance of UGS sites for UHI mitigation in Berlin. According to this approach, parks are most relevant, mainly due to their total area, abundance and high PCD, but also due to their proximity to the densely populated city center. Allotments provide the least and most unreliable cooling services in contrast to cemeteries where these are the most intense and most reliable, however least relevant due to their small total size and abundance.
DOI: 10.6084/m9.figshare.2066568.v2
title: Characterising the zonally asymmetric features of the Southern Hemisphere extratropical circulation and their influence on regional climate variability: supplementary metadata

description: This page contains supplementary material relating to the following PhD thesis:Irving D (2016). Characterising the zonally asymmetric features of the Southern Hemisphere extratropical circulation and their influence on regional climate variability. PhD thesis, University of Melbourne. https://minerva-access.unimelb.edu.au/handle/11343/91740<br>In particular, it contains metadata files (.met) for each of the figures in that thesis, outlining the history of command line entries that were executed from initial data download right up to the generation of the figure. A version controlled (using Git) repository of the code referred to in those .met files is also included (github_DamienIrving_climate-analysis.zip), however readers are encouraged to view that code at the GitHub repository linked to below instead (because then they can view any subsequent improvements to the code and/or submit suggested improvements / pull requests). It should be noted that it is my daily repository, meaning there is code in there that does not directly relate to the paper - the .met files explain which code is relevant.The motivation for this approach to publishing reproducible computational research is outlined in the thesis and also at:Irving D (2016). A minimum standard for publishing computational results in the weather and climate sciences.<em> Bulletin of the American Meteorological Society. </em>97, 1149-1158.<em> </em>doi:10.1175/BAMS-D-15-00010.1.
DOI: 10.6084/m9.figshare.28787327.v1
title: <b>Amino acid starvation and iron limitation facilitate the biofilm formation of </b><b><i>Klebsiella pneumoniae</i></b><b> within urine</b>

description: Biofilm formation is a critical virulence mechanism in pathogens.<i> Klebsiella pneumoniae</i> enhances biofilm formation in urine, a key factor implicated in catheter-associated and urinary tract infections. Here we found that compared to nutrient-rich media, <i>K. pneumoniae</i> exhibited heightened biofilm production in urine. Transposon-insertion sequencing identified 19 fitness genes crucial for urinary adaptation, primarily involved in <i>de novo</i> biosynthesis of arginine, methionine, and isoleucine, indicating urine represents an amino acid-starved (AAS) environment. AAS modulated c-di-GMP signaling, upregulating eight diguanylate cyclase (DGC) genes, four phosphodiesterase (PDE) genes, and four dual-function genes, to promote biofilm formation. Furthermore, transcriptomics revealed urine-induced activation of exopolysaccharide (EPS) biosynthesis genes (lipopolysaccharides, capsules, peptidoglycan, and the enterobacterial common antigen). Iron limitation in urine further amplified EPS production and biofilm development. In conclusion, this study identifies AAS-driven c-di-GMP signaling and iron restriction as central mechanisms underlying <i>K. pneumoniae</i> biofilm formation in urine, offering potential targets for anti-biofilm vaccine strategies.
DOI: 10.6084/m9.figshare.12117432.v1
title: Pre-analysed data for Fig. 7 from Experimental investigation on combustion characteristics of flammable refrigerant R290/R1234yf leakage from heat pump system for electric vehicles

description: Concerning the issues regarding driving mileage reduction for electric vehicles (EVs) in cold climates, a heat pump system with low global warming potential refrigerant R290/R1234yf is employed as one of the promising solutions. Different from the widely used mobile refrigerant R134a, R290 and R1234yf are both flammable or explosive. The application of R290/R1234yf in the mobile heat pump system is hindered by unexpected refrigerant leakage with the existence of fire and explosion risk. In this study, the combustion characteristics of R290/R1234yf in a potential leakage process from an air-conditioning heat pump system for EVs were investigated. Firstly, thermodynamic behaviours of R290/R1234yf used in a typical heat pump system were analysed based on a special experimental facility designed for EVs. Then the leakage and combustion characteristics of R290/R1234yf including flame shape, temperature, radiation etc. were obtained by the experimental method under different initial temperature and mass flow rate conditions. It was found that R290/R1234yf leaked is difficult to ignite at low temperature, while the blow-off phenomenon of the jet flame would occur at high temperature with high leakage mass flow rate. In addition, the results showed that combustion intensity would be enhanced by the leakage mass flow rate between 30 and 60°C. These results could provide guidance for fire detection and rescue system design for new energy vehicles.
DOI: 10.6084/m9.figshare.12949712.v1
title: Slab Detachment, Mantle Flow, and Crustal Collision in Eastern Sicily (Southern Italy): Implications on Mount Etna Volcanism

description: Time‐series (1980–2018) of the corrected length variations between some benchmarks located in the western part of Mount Etna (Figure 6).
DOI: 10.6084/m9.figshare.23451512.v1
title: SP open form.cif

description: Covalent organic framework, spiropyran and photoresponsive COF, self-assembly, vesicles.
DOI: 10.6084/m9.figshare.26479740.v1
title: Agricultural drought risk assessments: a comprehensive review of indicators, algorithms, and validation for informed adaptations

description: This literature review discusses specific challenges associated with drought risk assessments (DRA) within agricultural systems, particularly concerning the justification for indicator selection, aggregation methods, and DRA-informed adaptation strategies. Employing a multifaceted approach combining quantitative and qualitative methods, we systematically reviewed existing DRA literature. The PRISMA methodology and bibliometric analysis were employed to quantitatively reveal trends, key contributors, and publication patterns in DRA research, offering insights into the research evolution in the field. Simultaneously, the qualitative aspect of this review involved an examination of selected papers to identify critical gaps. Our analysis reveals that 67% of the studies lack validation for their research methodology, underscoring the need for rigorous validation of DRA results to enhance research credibility among decision-makers. Additionally, a significant 88% of the reviewed papers primarily focus on risk identification, with less emphasis on adaptation strategies derived from DRA results. Therefore, we emphasize the imperative of bridging the gap between DRA research and practical applications, advocating for linking drought risk findings to adaptation strategies. This targeted approach allows for the identification of sector-specific indicators, methodologies, and adaptation strategies to address the unique vulnerabilities of agriculture, ultimately enhancing the effectiveness of drought risk management and adaptation efforts in agricultural contexts.
DOI: 10.6084/m9.figshare.11803989.v1
title: condensed_traits_NCBI v1.1.0

description: The condensed_traits.csv dataset is the first data product from the data merger workflow. It include species and strains, and the raw are in their clean, but raw, form.
DOI: 10.6084/m9.figshare.19710640.v1
title: Supplementary Material for: Immune-Nutritional Status as a Novel Prognostic Predictor of Bell’s Palsy

description: <b><i>Introduction:</i></b> The prognosis of Bell’s palsy, idiopathic facial nerve palsy (FNP), is usually predicted by electroneuronography in subacute phase. However, it would be ideal to establish a reliable and objective examination applicable in acute phase to predict the prognosis of FNP. Immune-nutritional status (INS) calculated from peripheral blood examination is recently reported as the prognostic factor in various disease. However, the validity of INS as the prognostic factor in Bell’s palsy is not well known. Thus, we conducted a retrospective study to investigate the usefulness of INS as prognostic predictors of Bell’s palsy. <b><i>Methods:</i></b> We reviewed the medical records of 79 patients with Bell’s palsy and divided into two groups as “complete recovery” and “incomplete recovery” groups. Clinical features such as severity of FNP and INS, including neutrophil-lymphocyte ratio (NLR), lymphocyte-monocyte ratio (LMR), prognostic nutritional index (PNI), and controlling nutrition status (CONUT) score, were assessed. <b><i>Results:</i></b> In univariate analysis, statistically significant differences were observed in clinical score of facial movement, NLR, LMR, PNI, and CONUT score at the initial examination between the two groups (<i>p</i> &lt; 0.05). Furthermore, in multivariate analysis, statistically significant differences were also observed in facial movement score and PNI at the initial examination (<i>p</i> &lt; 0.05). <b><i>Conclusion:</i></b> Immune and nutritional condition play important roles in the pathogenesis of Bell’s palsy, suggesting that INS would be one of the useful prognostic factors in Bell’s palsy.
DOI: 10.6084/m9.figshare.11952564.v1
title: huaxi heart dataset

description: Data set for heart segmentation
DOI: 10.6084/m9.figshare.19367879.v1
title: Supplementary Material for: Single-Cell RNA Sequencing Reveals Novel Genes Regulated by Hypoxia in

description: Pulmonary arterial hypertension (PAH) is a chronic progressive disease with significant morbidity and mortality. The disease is characterized by vascular remodeling that includes increased muscularization of distal blood vessels and vessel stiffening associated with changes in extracellular matrix deposition. In humans, chronic hypoxia causes PAH, and hypoxia-induced rodent models of PAH have been used for years to study the disease. With the development of single-cell RNA sequencing technology, it is now possible to examine hypoxia-dependent transcriptional changes in vivo at a cell-specific level. In this study, we used single-cell RNA sequencing to compare lungs from wild-type (Wt) mice exposed to hypoxia for 28 days to normoxia-treated control mice. We additionally examined mice deficient for <i>Notch3</i>, a smooth muscle-enriched gene linked to PAH. Data analysis revealed that hypoxia promoted cell number changes in immune and endothelial cell types in the lung, activated the innate immunity pathway, and resulted in specific changes in gene expression in vascular cells. Surprisingly, we found limited differences in lungs from mice deficient for <i>Notch3</i> compared to Wt controls. These findings provide novel insight into the effects of chronic hypoxia exposure on gene expression and cell phenotypes in vivo and identify unique changes to cells of the vasculature.
DOI: 10.6084/m9.figshare.3547131.v1
title: Appendix A. A table showing assignment of all plant species growing in the 14 grassland sites to plant functional groups.

description: A table showing assignment of all plant species growing in the 14 grassland sites to plant functional groups.
DOI: 10.6084/m9.figshare.28810607.v1
title: Murine retinal explant from an Ng2/Cspg4:DsRed/+ animal cultured in Dulbecco's Modified Eagle Medium (DMEM) + 5% Fetal Bovine Serum (FBS) + 1% penicillin-streptomycin at 37 degrees Celsius for 6 hours. Explants were cultured on a glass-bottom petri dish and imaged every hour on a Zeiss LSM 880 point-scanning confocal microscope. Volumetric images taken through the z-axis were acquired at 40x and 63x. Images in the figure are compressed z-stacks within a selected range, but the raw image files in .czi format are also included.

description: Murine retinal explant from an Ng2/Cspg4:DsRed/+ animal cultured in Dulbecco's Modified Eagle Medium (DMEM) + 5% Fetal Bovine Serum (FBS) + 1% penicillin-streptomycin at 37 degrees Celsius for 6 hours. Explants were cultured on a glass-bottom petri dish and imaged every hour on a Zeiss LSM 880 point-scanning confocal microscope. Volumetric images taken through the z-axis were acquired at 40x and 63x. Images in the figure are compressed z-stacks within a selected range, but the raw image files in .czi format are also included.
DOI: 10.6084/m9.figshare.14931918.v1
title: Supplementary Material for: Whole-Exome Sequencing in Critically Ill Neonates and Infants: Diagnostic Yield and Predictability of Monogenic Diagnosis

description: <b><i>Introduction:</i></b> Monogenic diseases play an important role in critically ill neonates and infants treated in the intensive care unit. This study aimed to determine the diagnostic yield of whole-exome sequencing (WES) for monogenic diseases and identify phenotypes more likely associated with a genetic etiology. <b><i>Methods:</i></b> From March 2017 to 2020, a comprehensive diagnostic workup including WES in a single academic center was performed in 61 unrelated, critically ill neonates and infants with an unknown underlying disease within the first year of life. We conducted 59 trio-WES, 1 duo-WES, and 1 single-WES analyses. Symptoms were classified according to the Human Phenotype Ontology. <b><i>Results:</i></b> The overall molecular genetic diagnostic rate within our cohort was 46% (28/61) and 50% (15/30) in the subgroup of preterm neonates. Identifying the genetic cause of disease facilitates individualized management in the majority of patients. A positive or negative predictive power of specific clinical features for a genetic diagnosis could not be observed. <b><i>Conclusion:</i></b> WES is a powerful noninvasive diagnostic tool in critically ill neonates and infants with a high diagnostic rate. We recommend initiating WES as early as possible due to the impact on management and family counseling. Recommendations regarding the clinical utility of WES in critically ill neonates and infants should not be based on the phenotype alone. Here, we present a clinical workflow for the application of WES for critically ill neonates and infants in an interdisciplinary setting.
DOI: 10.6084/m9.figshare.28797590.v1
title: research on soyabean leaves

description: This project focuses on developing an intelligent system capable of detecting and classifying diseases in plant leaves using image processing and deep learning techniques. Leveraging Convolutional Neural Networks (CNNs) and transfer learning, the system analyzes leaf images to identify signs of infection with high accuracy. It supports smart agriculture by enabling early disease detection, reducing crop loss, and providing actionable insights to farmers. The project uses datasets such as PlantVillage and integrates frameworks like TensorFlow, Keras, and PyTorch. The model can be deployed as a web or mobile application, offering a real-time solution for plant health monitoring in agricultural environments.
DOI: 10.21943/auas.20073767.v1
title: Vrij reizen over de arbeidsmarkt: onderzoek naar het skillspaspoort

description: De data bestaat uit interviews met werkgevers en werknemers betrekking tot het skillspaspoort.
DOI: 10.6084/m9.figshare.24718293.v1
title: reactivity_dataset.csv

description: csv file
DOI: 10.6084/m9.figshare.7874840.v1
title: gVCF_HG00234

description: 1000 Genomes gVCF mapped to hs37d5 for HG00234. Complete collection: https://doi.org/10.6084/m9.figshare.c.4414307
DOI: 10.6084/m9.figshare.28910903
title: CSV files

description: CSV files for data analyses in paper "Four decades of annual monitoring reveal declining reproductive performance of a migratory baleen whale"
DOI: 10.6084/m9.figshare.28910903.v1
title: CSV files

description: CSV files for data analyses in paper "Four decades of annual monitoring reveal declining reproductive performance of a migratory baleen whale"
DOI: 10.17632/64dt2ydtxr
title: data

description: my data
DOI: 10.17632/64dt2ydtxr.1
title: data

description: my data
DOI: 10.6084/m9.figshare.12568280.v2
title: muliti-scale daily SPEI dataset over the Mainland China from 1961-2018

description: Our drought dataset serves as a unique resource with daily resolution to a variety of research communities including meteorology, geography, and natural hazard studies. The daily SPEI dataset developed is free, open and persistent publicly available from this study.
DOI: 10.6084/m9.figshare.24679272.v2
title: Kazachstania telluris complex genome annotations - protein fasta and gff3

description: Genome annotation was performed on the five genomes of the Kazachstania telluris complex:Kazachstania telluris NRRL Y-4302 (GCA_030571675.1)Kazachstania slooffiae ABBL (GCA_017347545.2)Kazachstania bovina CBS 16326 (GCA_023309525.1)Kazachstania pintolopesii KPIN-4417 (GCA_950065675.1)Kazachstania heterogenica NRRL Y27944 (GCA_036320825.1)In addition, a local isolate, Kazachstania heterogenica sp. weizmannii (JARZAD000000000) was also annotated<br><br><br>
DOI: 10.6084/m9.figshare.22581595.v1
title: Drone and human Phelsuma count data

description: Data used for the article titled "<strong>A bird’s-eye view: Evaluating drone imagery for the detection and monitoring of endangered and invasive day gecko species" </strong>by Dubos et al.
DOI: 10.6084/m9.figshare.730644.v1
title: A Research-Driven Data Visualization Framework for High-Throughput Environmental Sequence Data

description: Original grant proposal text for Alfred P. Sloan foundation award to Holly Bik (UC Davis) and Pitch Interactive (Berkeley, CA)