cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.5413932
title: Swelling of MX-80 bentonite in a narrow tube

description: This dataset consists of the results of 16 bentonite swelling experiments. The samples (<em>d</em> = 1.0 cm, <em>h</em> = 2.0 cm) were made by compacting MX-80 bentonite into vertical aluminum tubes. The bottom end of the samples was fixed while the top end was able to move. The experiments were started by pouring simulated groundwater (0.1 M NaCl) onto the samples. The swelling process of each sample was monitored four days using a developed X-ray imaging method. Eight different combinations of initial dry density (1.40–1.80 g/cm<sup>3</sup>) and water content (12–24%) values with two repetitions for each case were used in the experiments. The method yields the partial density profiles of bentonite and water, and the deformation of the samples in the axial direction as a function of time. The method was validated by slicing the samples at the end of the experiments and measuring the partial densities of bentonite and water in the slices by oven drying. In addition, a separate sedimentation test was performed to ensure that the added tracer particles, needed in the deformation measurement, follow the solid material also in the most dilute parts of the samples. The experimental setup in this study mimics a scenario where bentonite, planned to be used as a buffer material in a nuclear waste repository, swells into a rock fracture filled by groundwater. For more information see: Harjupatana, T., Miettinen, A., & Kataja, M. (2022). A method for measuring wetting and swelling of bentonite using X-ray imaging. <em>Applied Clay Science</em>, <em>221</em>, 106485. https://doi.org/10.1016/j.clay.2022.106485
DOI: 10.5281/zenodo.5413931
title: Swelling of MX-80 bentonite in a narrow tube

description: This dataset consists of the results of 16 bentonite swelling experiments. The samples (<em>d</em> = 1.0 cm, <em>h</em> = 2.0 cm) were made by compacting MX-80 bentonite into vertical aluminum tubes. The bottom end of the samples was fixed while the top end was able to move. The experiments were started by pouring simulated groundwater (0.1 M NaCl) onto the samples. The swelling process of each sample was monitored four days using a developed X-ray imaging method. Eight different combinations of initial dry density (1.40–1.80 g/cm<sup>3</sup>) and water content (12–24%) values with two repetitions for each case were used in the experiments. The method yields the partial density profiles of bentonite and water, and the deformation of the samples in the axial direction as a function of time. The method was validated by slicing the samples at the end of the experiments and measuring the partial densities of bentonite and water in the slices by oven drying. In addition, a separate sedimentation test was performed to ensure that the added tracer particles, needed in the deformation measurement, follow the solid material also in the most dilute parts of the samples. The experimental setup in this study mimics a scenario where bentonite, planned to be used as a buffer material in a nuclear waste repository, swells into a rock fracture filled by groundwater. For more information see: Harjupatana, T., Miettinen, A., & Kataja, M. (2022). A method for measuring wetting and swelling of bentonite using X-ray imaging. <em>Applied Clay Science</em>, <em>221</em>, 106485. https://doi.org/10.1016/j.clay.2022.106485
DOI: 10.5281/zenodo.6396422
title: Dataset related on article "Generation of two human iPSC lines, FINCBi002-A and FINCBi003-A, carrying heteroplasmic macrodeletion of mitochondrial DNA causing Pearson's syndrome

description: Dataset contains: - Sanger sequencing data: 4 files (ABI format chromatogram) - 2 files (pdf) of CGH array experiments
DOI: 10.5281/zenodo.6396421
title: Dataset related on article "Generation of two human iPSC lines, FINCBi002-A and FINCBi003-A, carrying heteroplasmic macrodeletion of mitochondrial DNA causing Pearson's syndrome

description: Dataset contains: - Sanger sequencing data: 4 files (ABI format chromatogram) - 2 files (pdf) of CGH array experiments
DOI: 10.5281/zenodo.4545606
title: Annexes for the 2019 EU report on pesticide residues

description: Annex II: full list of samples exceeding the MRLs anonymised previously the sample code and including information on the measured residue concentrations and the origin of the samples Annex III: PRIMo file containing the results of the exposure assessment and detailed information on the overall control programme results and Annex IV: 2019 analytical scope from the official laboratories reporting to EFSA pesticide residues.
description: EU; XLSX; data.collection@efsa.europa.eu
DOI: 10.5281/zenodo.6322020
title: Annexes for the 2020 EU report on pesticide residues

description: Annex II: PRIMo rev.3.1 file containing the results of the exposure assessment Annex III: detailed information on the different control programmes, full list of samples exceeding the MRLs anonymised by sample code, analytical scope from the official laboratories reporting to EFSA data on pesticide residues, the HBGV and PF used in the risk assessment.
description: EU; XLSX; data.collection@efsa.europa.eu
DOI: 10.6084/m9.figshare.19456961
title: Supplementary Material for: Association of Serum Triglycerides and Renal Outcomes among 1.6 Million US Veterans

description: <b><i>Background:</i></b> Previous studies have suggested that metabolic syndrome (MetS) components are associated with renal outcomes, defined as a decline in kidney function or reaching end-stage renal disease (ESRD). Elevated triglycerides (TGs) are a component of MetS that have been reported to be associated with renal outcomes. However, the association of TGs with renal outcomes in chronic kidney disease (CKD) patients independent of the other components of the MetS remains understudied. <b><i>Methods:</i></b> We examined 1,657,387 patients with data on TGs and other components of MetS in 2004–2006 and followed up until 2014. Patients with ESRD on renal replacement therapy were excluded. We examined time to ESRD, estimated glomerular filtration rate (eGFR) slope (renal function decline), and time to incident CKD (eGFR &lt;60 mL/min/1.73 m<sup>2</sup>) among baseline normal kidney function (non-CKD) patients, using Cox or logistic regression, adjusted for clinical characteristics and MetS components. We also stratified analyses by the number of MetS components. <b><i>Results:</i></b> The cohort was on average 64 years old and comprised 5% females, 15% African Americans, and 24% with nondialysis-dependent CKD. Among non-CKD patients, the adjusted relationship of TGs with time to incident CKD was strong and linear. Compared to TGs 120–&lt;160 mg/dL, higher TGs were associated with a faster renal function decline across all CKD stages. Elevated TGs ≥240 mg/dL were associated with a faster time to ESRD among non-CKD and CKD stages 3A–3B, while the risk gradually declined to null or lower in CKD stages 4–5. Models were robust after MetS component adjustment and stratification. <b><i>Conclusion:</i></b> Independent of MetS components, high TGs levels were associated with a higher incidence of CKD and a faster renal function decline, yet showed no or inverse associations with time to ESRD in CKD stages 4–5. Examining the effects of TGs-lowering interventions on incident CKD and kidney preserving therapy warrants further studies including clinical trials.
DOI: 10.6084/m9.figshare.19456961.v1
title: Supplementary Material for: Association of Serum Triglycerides and Renal Outcomes among 1.6 Million US Veterans

description: <b><i>Background:</i></b> Previous studies have suggested that metabolic syndrome (MetS) components are associated with renal outcomes, defined as a decline in kidney function or reaching end-stage renal disease (ESRD). Elevated triglycerides (TGs) are a component of MetS that have been reported to be associated with renal outcomes. However, the association of TGs with renal outcomes in chronic kidney disease (CKD) patients independent of the other components of the MetS remains understudied. <b><i>Methods:</i></b> We examined 1,657,387 patients with data on TGs and other components of MetS in 2004–2006 and followed up until 2014. Patients with ESRD on renal replacement therapy were excluded. We examined time to ESRD, estimated glomerular filtration rate (eGFR) slope (renal function decline), and time to incident CKD (eGFR &lt;60 mL/min/1.73 m<sup>2</sup>) among baseline normal kidney function (non-CKD) patients, using Cox or logistic regression, adjusted for clinical characteristics and MetS components. We also stratified analyses by the number of MetS components. <b><i>Results:</i></b> The cohort was on average 64 years old and comprised 5% females, 15% African Americans, and 24% with nondialysis-dependent CKD. Among non-CKD patients, the adjusted relationship of TGs with time to incident CKD was strong and linear. Compared to TGs 120–&lt;160 mg/dL, higher TGs were associated with a faster renal function decline across all CKD stages. Elevated TGs ≥240 mg/dL were associated with a faster time to ESRD among non-CKD and CKD stages 3A–3B, while the risk gradually declined to null or lower in CKD stages 4–5. Models were robust after MetS component adjustment and stratification. <b><i>Conclusion:</i></b> Independent of MetS components, high TGs levels were associated with a higher incidence of CKD and a faster renal function decline, yet showed no or inverse associations with time to ESRD in CKD stages 4–5. Examining the effects of TGs-lowering interventions on incident CKD and kidney preserving therapy warrants further studies including clinical trials.
DOI: 10.6084/m9.figshare.19363874.v2
title: Video 2 from Randomness in the choice of neighbours promotes cohesion in mobile animal groups

description: Attraction interaction networks
DOI: 10.5281/zenodo.6396276
title: Simulation data: Analysis of flame propagation mechanisms during light-round in an annular spray flame combustor: the impact of wall heat transfer and two-phase flow

description: This dataset contains simulation data of Large-Eddy Simulations of light-round ignition in MICCA-Spray, an annular spray-flame combustor at the EM2C laboratory. Two runs with different wall boundary conditions are carried out: in the first case, referred to as "baseline case", an isothermal boundary condition (\(T_{w} = 300\, \mathrm{K}\)) is imposed on all combustor walls. In the second case, all combustor walls are adiabatic.<br> Further information on operating and boundary conditions can be found in the corresponding journal publication <strong>"Analysis of flame propagation mechanisms during light-round in an annular spray flame combustor: the impact of wall heat transfer and two-phase flow"</strong>, <em>Combustion and Flame</em>, 241, July 2022, 112105. <strong>Paper abstract:</strong><br> Ignition in annular multi-burner combustors is marked by a succession of four phases, ending with a characteristic flame expansion from burner to burner, often referred to as light-round. During this last phase, flame propagation is prone to substantial change depending on the boundary and operating conditions. With realistic aero-engine conditions in mind, wall heat transfers can be enhanced during ignition in cold wall conditions, which aid an understanding of the main governing mechanisms of flame propagation.<br> From a modeling perspective, several works have outlined the need for detailed descriptions of the liquid phase, turbulent combustion and wall heat transfer, which are all included in the present work for the first time. Large-Eddy Simulations of light-round are performed in the annular MICCA-Spray combustor with cold walls, Lagrangian particle tracking, a dynamic closure for the sub-grid scale flame surface wrinkling as well as a custom tabulated wall model. The predicted light-round duration from the simulation is found to be in good agreement with experimental data.<br> It is shown that the volumetric expansion of burnt gases induces a flow acceleration in azimuthal direction which constitutes the main driving mechanism of flame propagation. Droplet accumulations in the wake of swirling jets are generated ahead of the propagating flame fronts, which in turn cause a characteristic sawtooth propagation mode of the leading point. A cooling effect of the combustor walls on burnt gases is particularly pronounced downstream, diminishing the resulting flame propagation speed.<br> The main governing mechanisms are investigated by means of a mathematical model for the absolute turbulent flame speed to quantify their relative impact on flame propagation. Finally, <em>a priori</em> estimations are provided for the flame propagation speed based on different models and boundary conditions, which are directly plugged into the model.
DOI: 10.5281/zenodo.6396275
title: Simulation data: Analysis of flame propagation mechanisms during light-round in an annular spray flame combustor: the impact of wall heat transfer and two-phase flow

description: This dataset contains simulation data of Large-Eddy Simulations of light-round ignition in MICCA-Spray, an annular spray-flame combustor at the EM2C laboratory. Two runs with different wall boundary conditions are carried out: in the first case, referred to as "baseline case", an isothermal boundary condition (\(T_{w} = 300\, \mathrm{K}\)) is imposed on all combustor walls. In the second case, all combustor walls are adiabatic.<br> Further information on operating and boundary conditions can be found in the corresponding journal publication <strong>"Analysis of flame propagation mechanisms during light-round in an annular spray flame combustor: the impact of wall heat transfer and two-phase flow"</strong>, <em>Combustion and Flame</em>, 241, July 2022, 112105. <strong>Paper abstract:</strong><br> Ignition in annular multi-burner combustors is marked by a succession of four phases, ending with a characteristic flame expansion from burner to burner, often referred to as light-round. During this last phase, flame propagation is prone to substantial change depending on the boundary and operating conditions. With realistic aero-engine conditions in mind, wall heat transfers can be enhanced during ignition in cold wall conditions, which aid an understanding of the main governing mechanisms of flame propagation.<br> From a modeling perspective, several works have outlined the need for detailed descriptions of the liquid phase, turbulent combustion and wall heat transfer, which are all included in the present work for the first time. Large-Eddy Simulations of light-round are performed in the annular MICCA-Spray combustor with cold walls, Lagrangian particle tracking, a dynamic closure for the sub-grid scale flame surface wrinkling as well as a custom tabulated wall model. The predicted light-round duration from the simulation is found to be in good agreement with experimental data.<br> It is shown that the volumetric expansion of burnt gases induces a flow acceleration in azimuthal direction which constitutes the main driving mechanism of flame propagation. Droplet accumulations in the wake of swirling jets are generated ahead of the propagating flame fronts, which in turn cause a characteristic sawtooth propagation mode of the leading point. A cooling effect of the combustor walls on burnt gases is particularly pronounced downstream, diminishing the resulting flame propagation speed.<br> The main governing mechanisms are investigated by means of a mathematical model for the absolute turbulent flame speed to quantify their relative impact on flame propagation. Finally, <em>a priori</em> estimations are provided for the flame propagation speed based on different models and boundary conditions, which are directly plugged into the model.
DOI: 10.5281/zenodo.6396578
title: Dataset related to article "Structural MRI Signatures in Genetic Presentations of the Frontotemporal Dementia/Motor Neuron Disease Spectrum"

description: Excel files containing the list of all the variants found in a gene panel for dementia.
description: Study supported by Italian Ministry of Health - Ricerca Corrente Linea 2
DOI: 10.5281/zenodo.6396577
title: Dataset related to article "Structural MRI Signatures in Genetic Presentations of the Frontotemporal Dementia/Motor Neuron Disease Spectrum"

description: Excel files containing the list of all the variants found in a gene panel for dementia.
description: Study supported by Italian Ministry of Health - Ricerca Corrente Linea 2
DOI: 10.6084/m9.figshare.19457400
title: Supplementary Material 2 from Multi-scale mechanistic modelling of the host defense in invasive aspergillosis reveals leucocyte activation and iron acquisition as drivers of infection outcome

description: Supplementary information about model values for cytokine production rates
DOI: 10.6084/m9.figshare.19457400.v1
title: Supplementary Material 2 from Multi-scale mechanistic modelling of the host defense in invasive aspergillosis reveals leucocyte activation and iron acquisition as drivers of infection outcome

description: Supplementary information about model values for cytokine production rates
DOI: 10.6084/m9.figshare.19457406
title: Supplementary Material 3 from Multi-scale mechanistic modelling of the host defense in invasive aspergillosis reveals leucocyte activation and iron acquisition as drivers of infection outcome

description: Supplementary information about source of model parameters
DOI: 10.6084/m9.figshare.19457406.v1
title: Supplementary Material 3 from Multi-scale mechanistic modelling of the host defense in invasive aspergillosis reveals leucocyte activation and iron acquisition as drivers of infection outcome

description: Supplementary information about source of model parameters
DOI: 10.6084/m9.figshare.19457577
title: Data and code from Double cones in the avian retina form an oriented mosaic which might facilitate magnetoreception and/or polarized light sensing

description: The processed data and R scripts that were used to generate all the figures and tables
DOI: 10.6084/m9.figshare.19457577.v1
title: Data and code from Double cones in the avian retina form an oriented mosaic which might facilitate magnetoreception and/or polarized light sensing

description: The processed data and R scripts that were used to generate all the figures and tables
DOI: 10.6084/m9.figshare.19454039
title: Pandemic Veneer: Supporting Data Files

description: Code and data extracts from which Figures 1-4 where derived and upon which several comments in main body of the text rely.<br>Each Excel File contains a data extract and, where appropriate, the SQL code for Dimensions on Big Query to produce the data.
DOI: 10.6084/m9.figshare.19457741
title: Supplementary Material for: Anti-IgLON5 Encephalopathy with Concomitant Herpes Virus Encephalitis

description: Anti-IgLON5 encephalopathy is a new and rare autoimmune encephalitis with unclear pathophysiology. In this study, we reported an unusual case of anti-IgLON5 encephalopathy with concomitant herpes virus encephalitis. A 51-year-old man with HLA-DQB1*05:01 and HLA-DRB1*10:01, who suffered from an episode of acute encephalitis, mental disorders, and memory impairment was admitted to our hospital. Human alpha herpes virus 1, human gamma herpes virus 4 (Epstein-Barr virus), and IgLON5-IgG were detected in the cerebrospinal fluid, indicating anti-IgLON5 encephalopathy with concomitant herpes virus encephalitis of this patient. Brain magnetic resonance imaging revealed T2 hyperintensities in the left temporal lobe and enhancement in the hippocampus. A mild sleep disorder was also found by video polysomnography. The patient was then treated with antiviral drugs, intravenous immunoglobulins, methylprednisolone, and protein A immunoadsorption. After treatment, the patient’s clinical symptoms were partially improved. This is the first reported case of anti-IgLON5 encephalopathy with concomitant herpes virus encephalitis.
DOI: 10.6084/m9.figshare.19233194
title: A new hadrosaurid (Dinosauria: Ornithischia) from the Late Cretaceous of northern Patagonia and the radiation of South American hadrosaurids

description: Here we describe a new hadrosaurid from the Upper Cretaceous (Campanian–Maastrichtian) Allen Formation of Río Negro Province, north-west Patagonia. The new taxon is based on cranial and postcranial elements from subadult and adult specimens. The new taxon may have reached 8–9 m in total body length, and it is diagnosed by a unique combination of characters, including a very low maxilla with respect to the dentary, and a dentary with a prominent and elongate anterior process with a deep groove on its anterior end, among other features. The new taxon is known from well-preserved elements and constitutes one of the most complete hadrosaurids known from South America. Features of the teeth, cranial and postcranial bones of the new taxon overlap with those of other hadrosaurid specimens previously recorded from this continent. This new evidence allows us to recognize that <i>Secernosaurus koerneri</i>, <i>Bonapartesaurus rionegrensis</i> and ‘<i>Kritosaurus</i>’ <i>australis</i> are valid taxa. The latter can be distinguished from the other South American taxa, as well as from <i>Kritosaurus</i> from North America. Thus, a new generic name is proposed for the species ‘<i>Kritosaurus</i>’ <i>australis</i>. Phylogenetic analysis recovers a new clade of South American hadrosaurids composed of the new taxon, ‘<i>Kritosaurus</i>’ <i>australis</i>, <i>Bonapartesaurus</i> and <i>Secernosaurus</i>. The new South American clade is tentatively nested among Kritosaurini and is supported by several traits, including an ilium with a subhorizontal ridge separating the preacetabular notch from the pubic pedicle, a longitudinal ridge on the dorsal surface of the postacetabular process, and a twisted distal end of the postacetabular process. The recovery of a monophyletic clade of South American hadrosaurids indicates that the history of the clade on Gondwanan landmasses is far from well understood, and new discoveries may change the current picture of the taxonomy and phylogenetic relationships of southern duck-billed dinosaurs. http://zoobank.org/urn:lsid:zoobank.org:pub:6C6F0056-9D3A-4097-A10E-2E33C9DB76B9
DOI: 10.6084/m9.figshare.19385540.v1
title: Assessing conflict between early neornithischian tree topologies

description: The phylogenetic relationships of the species commonly referred to as ‘hypsilophodontids’ remain one of the key questions in ornithischian dinosaur research, having profound implications for understanding the origin, evolution and taxonomical compositions of several more recently evolved neornithischian clades. Recent phylogenetic analyses have recovered two conflicting placements for these taxa: (1) primarily within Cerapoda (Ornithopoda + Marginocephalia), as a paraphyletic assemblage of early ornithopods; and (2) primarily outside of Cerapoda, within the clade Thescelosauridae. Here we assess three recent independent neornithischian phylogenetic studies that have recovered topologies congruent with one of these placements. We compare the compositions of these data matrices and test how each of them responds to manipulation of taxa and characters. The positions in which controversial clades are recovered is shown to be highly dependent on the sample of taxa analysed; however, taxon incompleteness or instability is not a contributing factor in altering topology. Character completeness and homoplasy is shown not to significantly alter tree topology either, although these factors can affect resolution. In one matrix investigated, femoral and dental characters are found to provide disproportionate support for the placement of key taxa outside of Cerapoda, and the exclusion of a small number of these characters results in ‘hypsilophodontids’ falling within Ornithopoda. In contrast, matrices that originally recovered ‘hypsilophodontids’ within Cerapoda are comparably more stable, with this array of taxa remaining in a consistent position throughout all analyses. There is still much work to be done to resolve these relationships, but our study provides several suggestions for future analyses with the aim of resolving areas of conflict within the neornithischian tree.