cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.25442/hku.25963831.v1
title: Supporting data for “Spatio-Temporal Structures of Flow and Pollutant in the Atmospheric Surface Layer over Real Urban Surface”.

description: This is the Supporting data for “Spatio-Temporal Structures of Flow and Pollutant in the Atmospheric Surface Layer over Real Urban Surface”. The dataset includes the OpenFoam generated large-eddy simulation dataset of flow and pollutant in the downtown region of kowloon, Hong Kong. The time scale in 14400 sec, and spatial scale is up to 5440 meters. This dataset can be used for the urban wind and polluant dispersion study.
DOI: 10.6084/m9.figshare.5051593.v3
title: P3HT and PCBM atomistic force fields

description: GROMOS 53A6 based atomistic force field for the conjugated polymer P3HT, the fullerene derivative PCBM and chlorobenzene.<br>The provided files are in GROMACS format (see GROMACS manual and tutorial in case of need). A pre-equilibrated system containing a P3HT chain (24 repeat units) and a PCBM molecule solvated in chlorobenzene is provided. The associated top(ology) file (and files included therein) is provided, along with run parameter files for an energy minimization (em.mdp), NVT equilibration (shortNVT.mdp), NPT equilibration (shortNPT.mdp), and production run (prodNPT.mdp).<br>NOTE! The archive "p3ht_gromos_v_2017RA-JACS.ff.zip" needs to be unzipped first (command: unzip p3ht_gromos_v_2017RA-JACS.ff.zip).<br> For details on the atomistic force fields, see the associated publication (and please cite it if you find the files useful for your work):<br><b>Bulk Heterojunction Morphologies with Atomistic Resolution from Coarse-Grain Solvent Evaporation Simulations</b>Riccardo Alessandri, Jaakko J. Uusitalo, Alex H. de Vries, Remco W. A. Havenith, and Siewert J. Marrink<i>J. Am. Chem. Soc.</i>, <b>2017</b>, 139 (10), pp 3697–3705<br>
DOI: 10.6084/m9.figshare.11931987.v1
title: Dataset for percolation in rods of different lengths

description: Data analysed in Figure 1(b) of NM19072341
DOI: 10.6084/m9.figshare.28623284.v1
title: Supplementary Material for: Difference in long-term mortality after Takotsubo Syndrome. The role of gender, disease burden, socioeconomic profile, and psychological distress.

description: Introduction
While Takotsubo Syndrome (TTS) is less common in men, their mortality rates surpass those of women. The influence of socioeconomic factors and psychological distress remains unexplored. This study aimed to investigate gender differences in socioeconomic profiles and psychological distress among patients with incident TTS, and to examine gender differences in survival after discharge, accounting for socioeconomic and psychological factors.
Methods
A nationwide cohort study using national registers included all patients discharged from Danish hospitals with an incident TTS diagnosis were eligible. Socioeconomic factors, including marital status, cohabitation status, labor market attachment, highest formal education, family income, and psychological distress, were assessed and compared. Cox regression models were applied to analyze the data.
Results
Of 662 patients with Takotsubo Syndrome discharged alive 79 (11.9%) were men with a median age of 67 years (IQR 62–77). Men with TTS were socioeconomically disadvantaged compared to women. Unadjusted analyses indicated that male gender was associated with increased mortality (HR 2.61, 95% CI 1.18–3.25, P=0.009). Low income, living alone, being widowed, and receiving a retirement pension were all significantly associated with three-year mortality risk. However, in the main adjusted model, aside from the gender difference, only the Charlson Comorbidity Index was significantly associated with a higher mortality risk (HR 1.26, 95% CI 1.15–1.39, P&lt;0.001). No significant interactions between gender and socioeconomic variables were observed.
Conclusion
Men with TTS experienced greater socioeconomic disadvantages and higher three-year mortality than women, with comorbidity scores significantly influencing outcomes in both genders.
DOI: 10.6084/m9.figshare.5915131.v1
title: Supplementary Material for: Presence of Kidney Disease as an Outcome Predictor in Patients with Pulmonary Arterial Hypertension

description: <b><i>Background:</i></b> Pulmonary arterial hypertension (PAH) may lead to right heart failure and subsequently alter glomerular filtration rates (GFR). Chronic kidney disease (CKD, GFR &lt;60 mL/min/1.73 m<sup>2</sup>) may also adversely affect PAH prognosis. This study aimed to assess how right heart hemodynamics was associated with reduced estimated GFR (eGFR) and the association of CKD with survival in PAH patients. <b><i>Methods:</i></b> In a prospective PAH cohort (2003–2012), invasive hemodynamics and eGFR were collected at diagnosis (179 patients) and during follow-up (159 patients). The prevalence of CKD was assessed at PAH diagnosis. Variables, including hemodynamics, associated with reduced eGFR at diagnosis and during follow-up were tested in multivariate analysis. The association of CKD with survival was evaluated using a multivariate Cox regression model. <b><i>Results:</i></b> At diagnosis, mean age was 60.4 ± 16.5 years, mean pulmonary arterial pressure was 43 ± 12 mm Hg, and eGFR was 74.4 ± 26.4 mL/min/1.73 m<sup>2</sup>. CKD was observed in 52 incident patients (29%). Independent determinants of reduced eGFR at diagnosis were age, systemic hypertension, and decreased cardiac index. Independent determinants of reduced eGFR during follow-up were age, female gender, PAH etiology, systemic hypertension, decreased cardiac index, and increased right atrial pressure. Age ≥60 years, female gender, NYHA 4, and CKD at diagnosis were independently associated with decreased survival. The adjusted hazards ratio for death associated with CKD was 1.81 (95% confidence interval [1.01–3.25]). <b><i>Conclusion:</i></b> CKD is frequent at PAH diagnosis and is independently associated with increased mortality. Right heart failure may induce renal hypoperfusion and congestion, and is associated with eGFR decrease.
DOI: 10.6084/m9.figshare.4239311.v1
title: Biochemical characterization of the medaka (<i>Oryzias latipes</i>) orthologue for mammalian tissue-type transglutaminase (TG2)

description: Transglutaminase is an enzyme family responsible for post-translational modification such as protein cross-linking and the attachment of primary amine and/or deamidation of glutamine-residue in proteins. Medaka (<i>Oryzias latipes</i>), a recently established model fish, has similar functional proteins to those characterized in mammals. Previously, we found the apparent orthologues that correspond to human transglutaminases in medaka. In this study, regarding the medaka orthologue of human tissue-type transglutaminase (OlTGT), recombinant protein was expressed in an active form in bacteria cultured at low temperature. Using the recombinant protein, we biochemically characterized the enzymatic activity and also obtained a monoclonal antibody that specifically recognized OlTGT. Immunochemical analysis revealed that OlTGT was not expressed ubiquitously, unlike its mammalian orthologue, but in primarily limited tissues such as the eye, brain, spinal cord, and gas gland.
DOI: 10.6084/m9.figshare.12706247.v3
title: Leontodon longirostris genome draft 418Mb

description: <b>1-Leontodon-genome-draft-418Mb.fasta</b>: sequences in FASTA format of the 410,019 scaffolds and contigs that were considered the 418 Mb genome draft for <i>Leontodon longirostris</i>. <br> <b>2-Maker853GeneModels-in1007LongestFragments.gff</b>: the 853 MAKER-based gene models deduced from the 1007 longest (&gt;10 kb) fragments of the 418 Mb genome draft. <br> <b>3-FunctionalAnnot-MakerGeneModels-in1007LongestFragments.tsv</b>: Functional annotation of the predicted 853 proteins deduced from MAKER-based gene models. <br> <b>4-Reconstructed-472ChimaericModels.fasta</b>: sequences in FASTA format of the 472 GeneAssembler-based gene models reconstructed using the short (&lt;10 kb) genome fragments from the 418 Mb genome draft. <br> <b>5-ShortGenomeFragments-in472ChimaericModels.tsv</b>: list of contigs and scaffolds from the 418 Mb genome draft that were used to reconstruct each chimaeric, GeneAssembler-based gene model. <br> <b>6-GeneAssemblerChimaericModels-in472ChimaericModels.gff</b>: annotation of the 472 GeneAssember-based, chimaeric gene models by genome location. <br> <b>7-FunctionalAnnotation472ChimaericModels.xlsx</b>: comprehensive functional annotation of the 472 GeneAssember-based, chimaeric gene models, including the predicted protein length, the number of exons identified in that gene model, a fragmentation index (0-1 range, where 0 means that all exons in the model come from one single sequence contig, and 1 means that each exon comes from a different contig) and the human-readable description of the predicted protein sequence taken from the GFF file.<br>
DOI: 10.6084/m9.figshare.20108954.v1
title: Supplementary Material for: Effect of Enteral Long-Chain Polyunsaturated Fatty Acids on Retinopathy of Prematurity: A Systematic Review and Meta-Analysis

description: <b><i>Background:</i></b> Long-chain polyunsaturated fatty acids (LCPUFA) are critical for the maturation of the brain and retina. Retinopathy of prematurity (ROP) is a preventable cause of blindness in preterm infants. LCPUFA have anti-inflammatory, antioxidant, and antiangiogenesis effects. Supplementation of enteral LCPUFA might mitigate the incidence of ROP in these infants. Available limited randomized studies showed promising results. We aimed to assess the effect of enteral supplementation of LCPUFA on ROP in preterm infants. <b><i>Methods:</i></b> We followed PRISMA guidelines and searched MEDLINE, Cumulative Index of Nursing and Allied Health Literature, Embase, and Cochrane Registry from 1990 to 2021 for the studies that examined the effects of enteral LCPUFA and ROP in preterm infants. We included the studies that satisfied the predefined inclusion criteria. RevMan 5.3 software derived the forest plot of pooled relative risk. We assessed the quality of all the included studies using GRADE recommendations. <b><i>Results:</i></b> Nine studies were eligible for the meta-analysis involving 2,482 infants. Of the nine RCTs, six studies provided LCPUFA (DHA/AA) as a separate intervention in different concentrations, and three studies provided formula milk enriched with LCPUFA. In addition, five studies recruited infants below 32 weeks of gestational age. Supplementation of LCPUFA did not reduce the incidence of severe ROP (RR 0.71, 95% CI: 0.50–1.01, 5 studies, 1,822 infants) with very low CoE or any ROP (RR 0.95, 95% CI: 0.73–1.12, 6 studies, 1,177 infants) with very low CoE or ROP requiring treatment (RR 0.92, 95% CI: 0.62–1.38, 4 studies, 1,395 infants) with very low CoE. Regarding safety outcomes, enteral LCPUFA did not increase the risk of necrotizing enterocolitis or mortality. <b><i>Discussion/Conclusion:</i></b> Supplementation of enteral LCPUFA to preterm infants did not reduce ROP incidence; however, there was a trend toward benefit in mitigating severe form of ROP. More well-designed, large, randomized controlled studies are warranted.
DOI: 10.6084/m9.figshare.26021920.v1
title: Proteic composition of <i>S. exigua</i> oral secretion

description: Comparison of the proteic composition of the oral secretion of <i>S. exigua</i> SeIV1-free and SeIV1-infected fed on artificial diet and pepper plants
DOI: 10.15468/dl.8quzj2
title: Occurrence Download

description: A dataset containing 3539 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Observation, Human Observation, Machine Observation, Living Specimen)"
 ]
 }
 },
 "TaxonKey is Agriopis aurantiaria (Hübner)"
 ]
}

 The dataset includes 3539 records from 59 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0009674-250426092105405/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.5306080.v1
title: data.zip

description: Data from: White & Kemp (2017) Colour polymorphic lures exploit innate preferences for spectral versus luminance cues in dipteran prey. <i>BMC Evolutionary Biology</i>.
DOI: 10.17028/rd.lboro.16652467.v1
title: Supporting Information Files for: Comparison of SLM cpTi sheet-TPMS and trabecular-like strut-based scaffolds for tissue engineering

description: Supporting Information Files for: Comparison of SLM cpTi sheet-TPMS and trabecular-like strut-based scaffolds for tissue engineering<br>This systematic comparison between sheet-based-TPMS and strut-based ordered and disordered Lattice topologies offers insights into parametric designs for tissue engineering scaffolds intended as implants in regenerative medicine. The study explores the effect of topology on compressive properties and in vitro osteoblastogenesis. TPMS-sheet Gyroid and IWP, Voronoi-tessellation with varying levels of sharpness and BCC-orthogonal Lattices were studied. Disparities between the design intent and the as-manufactured scaffolds that are intrinsic to the SLM manufacturing process are considered to ensure actual porosity and surface-area-per-unit-volume, two important factors in tissue engineering, are consistent across the set. Surface analysis reports the presence of a micro-porosity created by partlysintered cpTi particles. The TPMS topologies display a stretching-dominated deformation and the strut-based disordered ones a bending-dominated double-shear failure. Although the trabecular-like structures exhibit an enhanced compressive behaviour when the designed topology was smoothed, they are more prone to printing imperfections with the sharper 2 finishes. The in vitro studies reveal that the trabecular-sharp topology displays a faster proliferation rate, explained by concavity-driven cellular growth, but its smooth counterpart promotes a larger differentiation extent, outperforming TPMS, as it is aided by larger pore throats lined with a micro-porosity at the scale of osteoblastic geometric features. <br>
DOI: 10.6084/m9.figshare.28326641.v1
title: Supplementary Material for: Use of Macrogol to accelerate feeding advancement in extremely preterm infants

description: Introduction
Delayed enteral nutrition is associated with a higher risk for adverse outcomes in extremely preterm infants. Limited evidence exists on therapeutic options to support meconium evacuation and increase gastrointestinal motility. The aim of this study was to determine the effect of macrogol on feeding tolerance and microbiome establishment in preterm infants &lt; 27 weeks of gestation.
Methods
We investigated the impact of early macrogol administration in two observational cohort studies: the multi-center German-Neonatal-Network (GNN) study comparing extremely preterm infants born in Neonatal intensive care units (NICUs) using macrogol in the first week of life in &gt;30% of their infants as compared to the remaining units, and the single center Immunoregulation-of-the-Newborn (IRoN) study including gut microbiome assessment of infants born before and after implementation of macrogol use in this NICU. 
Results
In the GNN study cohort including 4290 infants, advancement to full enteral feedings was significantly faster in macrogol-using NICUs compared to the remaining NICUs (median/SD: 14/16.5 vs. 16/16.7days, p=0.001). Risk for short-term outcomes such as sepsis or abdominal complications was not elevated in units with regular use of macrogol. In the IRoN cohort (n=68), macrogol treated infants had a shorter time to reach full enteral feeding (median/SD: Macrogol 12/4.8, Control 16/6.6days, p=0.004). Higher Bifidobacterium longum abundance in the gut microbiome correlated with acceleration to full enteral nutrition.
Conclusion
Our observational data suggests that early off-label use of macrogol may support feeding advancement in highly vulnerable babies. These data provide a basis for a randomized controlled trial.
DOI: 10.6084/m9.figshare.5129200.v1
title: Supplementary Material for: Prevention of Venous Neointimal Hyperplasia by a Multitarget Receptor Tyrosine Kinase Inhibitor

description: <b><i>Background/Aims:</i></b> Venous neointimal hyperplasia (NH) is the predominant cause of stenosis in hemodialysis arteriovenous grafts (AVG), but there is currently no clinically used therapy to prevent NH. <b><i>Methods:</i></b> A porcine AVG model was used to identify potential pharmacological targets to prevent NH. Sunitinib, a broad-spectrum tyrosine kinase inhibitor, was examined as a potential anti-NH drug utilizing in vitro and ex vivo models. <b><i>Results:</i></b> In an in vivo porcine model, PDGF, VEGF and their receptors PDGFR-α and VEGFR-2 were upregulated at the venous anastomosis within 2 weeks after AVG placement, with NH development by 4 weeks. Sunitinib inhibited PDGF-stimulated proliferation, migration, phosphorylation of MAPK and PI3K/Akt proteins and changes in the expression of cell-cycle regulatory proteins in vascular smooth-muscle cells as well as VEGF-stimulated endothelial cell proliferation in vitro. In an ex vivo model, significant NH was observed in porcine vein segments perfused for 12 days under pathological shear stress. Sunitinib (100 nM) inhibited NH formation, with the intima-to-lumen area ratio decreasing from 0.45 ± 0.25 to 0.04 ± 0.02 (p &lt; 0.05) with treatment. <b><i>Conclusion:</i></b> These findings demonstrate sunitinib to be a potential NH-preventive drug as well as the utility of an ex vivo model to investigate pharmacotherapies under pathophysiological flow conditions.
DOI: 10.6084/m9.figshare.25253041.v1
title: Abortion Data

description: This data set contains variables related to abortion, narratives, teen detachment, and a host of political, economic, and demographic factors
DOI: 10.6084/m9.figshare.24589605.v1
title: Supplementary Material for: Association between Fibrinogen-to-Albumin Ratio and Adverse Stroke Outcomes among Patients with Acute Ischemic Stroke

description: Introduction: Fibrinogen-to-albumin ratio (FAR) is implicated in prothrombotic states and is associated with an increased risk of acute ischemic stroke (AIS). However, studies investigating whether the prothrombotic effect of FAR is associated with long-term adverse outcomes in patients with AIS are lacking. Therefore, we aimed to investigate the association based on The Third China National Stroke Registry (CNSR-III). Methods: Patients with AIS with complete laboratory data for fibrinogen and albumin in the CNRS-III were included in this study. The primary outcomes were poor functional outcomes (modified Rankin scale score 3–6) at 12 months, including disability (modified Rankin scale score 3–5), all-cause death, recurrent stroke, and combined vascular events within 1 year. Univariate and multivariate logistic or Cox regression analyses were used to investigate the association between FAR quartiles and adverse outcomes. Results: A total of 8984 patients with AIS were enrolled in this study. After one-year follow-up, 238 patients were lost to follow-up. A total of 1230(14.06%) patients had poor functional outcomes; 932(10.37%) and 981(10.92%) experienced stroke recurrence and combined vascular events, respectively. The adjusted odds ratios/hazard ratios and 95% confidence intervals of the highest quartile of the FAR(&gt;11.44) were 1.64(1.35-2.00) for poor functional outcomes, 1.68(1.34-2.10) for disability, 1.40(1.02-1.94) for all-cause death, 1.11(0.92-1.34) for stroke recurrence, and 1.11(0.92-1.33) for combined vascular event, respectively. Conclusion: High FAR(&gt;11.44) increased the risk of short- and long-term poor functional outcomes, including disability and all-cause death among patients with AIS. The FAR may play an important role in the early stratification of patients with AIS.
DOI: 10.6084/m9.figshare.27888276.v1
title: Additional file 9 of Transcriptome profiling of eight Zea mays lines identifies genes responsible for the resistance to Fusarium verticillioides

description: Supplementary Material 9: Table S6. List of putative candidate genes for Fusarium verticillioides resistance in the genomic regions containing QTL for FSR.
DOI: 10.6084/m9.figshare.24085110.v1
title: Raw seismic reflection data from Orca Volcano, Bransfield Strait, Antarctica

description: Raw seismic data from Orca Volcano, Bransfield Strait, acquired onboard the Spanish vessel Sarmiento de Gamboa in the framework of the BRAVOSEIS PROJECT.
DOI: 10.6084/m9.figshare.24552511.v1
title: Problems and Solutions Dataset

description: Dataset used to produce Figure 5 in the paper <i>Comparative approaches in social network ecology</i>.<br><br>The dataset has 2 columns and 38 rows, with columns as follows:<br>Problem: Potential issue for conducting comparative network analyses.<br>Solution: Potential work around for a researcher encountering the problem.<br>
DOI: 10.6084/m9.figshare.7455071.v1
title: 3D printing .stl files (ready for slicing & printing)

description: 3D printing .stl files (ready for slicing & printing)
DOI: 10.6084/m9.figshare.12811586.v1
title: Internal tides in the northeastern South China Sea

description: Internal tide models of four principal tidal constituents M2, S2, O1 and K1 in the northeastern South China Sea constructed from satellite altimetry. Each constituent has been decomposed into two or three components according to propagation direction.
DOI: 10.6084/m9.figshare.28571835.v1
title: Supplementary Material from A new notosuchian crocodyliform from the Paleocene of Patagonia and the survival of a large-bodied terrestrial lineage across the K–Pg mass extinction

description: Tewkensuchus_444x121.ctf
DOI: 10.6084/m9.figshare.5121274.v1
title: Supplementary Material for: Ontogenesis of Testis Development and Function in Humans

description: Functional gonads are mandatory for sexual reproduction and survival of higher animal species. However, at the level of the individual subject, acquired or inherited gonadal dysfunction and infertility are not commonly associated with severe life-threatening phenotypes. Medical progress and increased societal interest have led to more prioritised agendas for reproductive health problems. Increasing attention is focused on disorders of sex development, fertility and sexual function. Despite this engagement, our understanding of the detailed molecular and cellular adverse events behind such problems is still incomplete. Critical early steps, such as determination of the gonads, occur at precise temporal windows of development. The sex chromosomes are obvious critical contributors, but many other human chromosomes also contribute to sex differentiation, engaging multiple genes and proteins. The aim of this review is to give an up-to-date and comprehensive summary of the events required for gonadal ontogenesis in the human male, from the stage of embryonic sex determination to postnatal maturation including puberty. The principal genes involved in these processes are tabulated and discussed. Morphological events relevant for human gonadal development are covered, in particular in connection with early germ cell maturation and spermatogenesis. Consequences of maldevelopment caused by, e.g. cryptorchidism, are discussed.
DOI: 10.6084/m9.figshare.599005.v1
title: Gaussian Job Archive for C3H6O2

description: Archive of work produced using the resources of the Imperial College High Performance Computing Service.