cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.15151/esrf-es-2045050038
title: Exploring the capabilities of HERFD-XAS to resolve Cd speciation in environmental samples

description: Cadmium is toxic at low concentrations for most forms of life. Food is the main route of exposure to cadmium for the general population. Chocolate is a Cd contributor in human diet. Research is needed to understand the mechanisms involved in Cd accumulation in this crop, to produce beans with less Cd. Cd speciation in plant organs is challenging because of the low Cd concentrations (0.5 to 5 mg kg-1 FW). HERFD-XAS is a promising technique, and has not been used for Cd so far. We propose a Cd LIII-edge HERFD-XAS study on Cd model compounds to build a database and evaluate the potential of this method to distinguish Cd species, and assign spectral features to structural parameters. This study will be a first step of a proof of concept of the interest of HERFD-XAS to study Cd in diluted environmental samples.
DOI: 10.15151/esrf-es-2045054151
title: Exploring gelation and contact aging in colloidal gels: Insights from casein micelles with tuneable softness

description: Enzymatic milk gels result from the destabilization of casein micelles, which are natural colloids found in milk. After aggregation,
these soft particles have been shown to display “contact-aging”, i.e. the reinforcement of their contact or “sintering” over time. This
microscopic mechanism may drive the pronounced structural aging reported for a wide variety of colloidal gels, where the gel network is
found to coarsen over time. The casein micelles are colloids with softness that can be adjusted by varying the pH or adding different types of
salt. Within this proposal, we aim to relate the microscopic rearrangement of casein micelles with tuneable softness and the evolution of the
mesoscopic structure of the gels.
DOI: 10.15151/esrf-es-2045055187
title: Metal center impact on the high-pressure behaviour of chiral 2D perovskites

description: The aim of this proposal is the investigation as a function of pressure of the 2D chiral perovskites (R-/S-ClMBA)2SnI4 and (R-/S-ClMBA)2GeI4 (ClMBA= chloromethylbenzylammonium), with the same structural motif of the already HP-PXRD investigated (R-/S-/Rac-ClMBA)2PbI4. Interesting structural and optical features as a function of the central metal have been discovered at ambient pressure, suggesting that evaluating the behaviour at variable pressure would permit further comprehension of the metal role. Moreover, moving away from toxic lead is a current challenge within the field, although only few lead-free chiral perovskites have been reported so far. Our structural experiment will be coupled to the Raman and photoluminescence characterization as a function of pressure, to fully investigate the behaviour of these 2D chiral perovskites upon compression and unveil the evolution of non-linear optical properties with different metal centers.
DOI: 10.15151/esrf-es-2018233327
title: HUB Proposal: Human Organ Atlas Hub (HOAHub)

description: This HOAHub will create a physical and virtual Hub which uses HiP-CT to scan whole human organs with local cellular resolution, producing a “Human Organ Atlas in Health and Disease”. It will bridge clinical imaging (centimetre scale) to molecular modalities (nanometer scale), providing unprecedented insights into our bodies, helping cure or mitigate diseases from neuro-degeneration to cancer. The HOAHub will bring together interdisciplinary groups to produce the novel experimental and computational technologies needed to analyse and interpret the scale-bridging data. By transforming HiP-CT into an efficient tool, HOAHub will enable the clinical impact of synchrotron imaging to be realised. Through these scientific and technical efficiencies, HOAHub will not only advance biological, computational and medical fields, it will provide anatomical training resources and a new Gold Standard for validating CT, MRI and 3D histology, inspiring new techniques and real-world clinical insights.
DOI: 10.15151/esrf-es-2043620282
title: Fate and speciation of antimony during pyrite formation at low temperature

description: The geochemical behavior of Sb under reducing conditions is closely linked to the formation of digenetic iron sulfides. Since very few data is currently available on Sb speciation in such minerals, including pyrite (FeS2) ubiquitously found in surface environments, we aim at obtaining molecular scale information by performing XANES/EXAFS measurements at the Sb K-edge (30,491 eV) on synthetic FeS and FeS2 samples representative of continental sedimentary surface environments. Redox and structural information gained from XAS spectroscopy will be used together with Sb concentrations in solutions (ICP-MS), and with XRD measurement. such information is crucial to uncover the steps of Sb biogeochemical cycle in reducing surface environments and to propose conceptual models for Sb speciation in soil and sedimentary reservoirs.
DOI: 10.15151/esrf-es-2043623109
title: Synthesis and Single Crystal Structure Solution of Carbonic Acid (H2CO3) at Elevated Pressures

description: The aim of this project is the single crystal structure determination and characterisation of phase transitions of crystalline carbonic acid (H2CO3) at high pressures. Understanding structure-property relations of H2CO3 is of significant interest not only to astrophysics, as H2CO3 is likely to be present on the surface and in the interiors of icy moons (e.g. Ganymede) or ice giants (e.g. Uranus), but also to solid state chemistry, as it is a molecular compound which has led to a number of mutually contradictory studies, e.g. regarding an assumed polymorphism. Up to now no single crystal diffraction data of H2CO3 has been reported and its structure even at low pressures (&lt; 10 GPa) is in dispute. In preliminary experiments, we synthesized H2CO3 crystals from a H2O + CO2 mixture and characterised the product by Raman spectroscopy. We now propose to determine the structure of H2CO3 in a wide pressure range (1-150 GPa).
DOI: 10.15151/esrf-es-2043625203
title: Nucleation of pores in 2050 alloy during heat treatment : in situ nanotomography experiments with AI resolution increase using MSDNET

description: This project aims at characterizing the nucleation of pores during heat treatment of 2050 and clarify the origin of this nucleation. We pla to combine in situ nanotomography at 100nm pixel size associated with high resolution holotomography at 35 nm pixel and We FIB/SEM 3D slicing to enhance data obtained during In situ nanotomography. This will help to clarify the site of nucleation of pores inside the grains in correlation with the small intermetallics and precipitates and also at the grain boundary.
DOI: 10.15151/esrf-es-2043640188
title: In-situ diffraction investigation of the structural evolution of a symmetric electrolytic cell device working reversibly in SOFC and SOEC co

description: Solid Oxide Cells (SOC) devices are featured by reversibility since they can work in both SOFC (F=Fuel) and SOEC (E=Electrolysis) mode. Current electrolyte materials suffer of particles agglomeration and C poisoning reducing lifetime and performance. Very recently, advanced electrocatalysts, were metal nanoparticles are produced by exsolution, are overcoming these drawbacks. Much experimental work is mandatory to characterize the materials and device under SOFC and SOC conditions
Hereby we propose to investigate the structural evolutions of a electrolytic cell working in both SOFC and SOEC conditions though in-situ experiments. Modifications will be detected by XRD measurements as function of the temperature, external atmosphere, time and cyclability. The approach involves the comparison with the separate materials (electrode and electrolyte, pellets) subjected to the same treatment to point out the difference and interaction between electrode and electrolyte materials.
DOI: 10.15151/esrf-es-2045405852
title: Processing-Morphology-Property Relations in Inkjet-Printed Organic Photovoltaics

description: Organic photovoltaics (OPVs) are an emerging alternative technology to silicon-based solar cells. Our group uses the technique of inkjet-printing (IJP) to manufacture OPVs. This allows precise patterning on a small scale with minimal material waste. Given that the use of IJP has been limited when it comes to the manufacturing of OPVs, we have been trying to shed light on the inter-dependence of crystallinity and processing parameters in inkjet-printed OPVs. So far, we have explored parameters such as the choice of solvent(s), addition of ternary components and printing temperature. This time, we propose the study of microstructural changes brought about by drying behaviour and the use of different acceptors. Concretely, this implies uncovering the molecular arrangement and formation of crystalline domains when 1) processing with solvents of different boiling points and 2) the use of different acceptors in the active layer.
DOI: 10.15151/esrf-es-2106992430
title: Strain evolution at metal-oxide interface of self-assembled in-plane nanowire with metal-tip and oxide-stem structure during melting of meta

description: Surface and interface of Indium tin oxide (ITO) nanowires (NWs) with Sn tips are model systems to understand how in-plane oxide NWs were grown via vapor-liquid-solid method (VLS). So far, TEM studies have reported the atomic arrangement and interfacial structure of the Sn tip and ITO stem, but details of the growth mechanism are still unclear which can lead to fabrication of improved devices. Coherent nanobeam X-ray diffraction together with a 3D visualization of individual ITO NWs with Sn tips by Bragg ptychography will provide insight into the Young’s equation related to the balance among the interfacial tensions involved in the VLS growth of horizontal NWs. In addition, in-situ studies will provide important clues to understand the evolution of atomic arrangements during the early stages of surface melting of metal nanocrystals.
DOI: 10.5281/zenodo.5175829
title: BIDCD SI 3D

description: Bosch Industrial Depth Completion Dataset (BIDCD) is an RGBD dataset of static table top scenes with industrial objects, collected with a depth-camera from multiple Points-of-View (POV). In this Single-Item (SI) subset, BIDCD-SI, we placed a single object on the table, and recorded it from 4-5 POV. Here we provide auxiliary 3D data: camera parameters and poses, and a fused-view colored mesh of the scene.
DOI: 10.5281/zenodo.5175828
title: BIDCD SI 3D

description: Bosch Industrial Depth Completion Dataset (BIDCD) is an RGBD dataset of static table top scenes with industrial objects, collected with a depth-camera from multiple Points-of-View (POV). In this Single-Item (SI) subset, BIDCD-SI, we placed a single object on the table, and recorded it from 4-5 POV. Here we provide auxiliary 3D data: camera parameters and poses, and a fused-view colored mesh of the scene.
DOI: 10.5281/zenodo.5175825
title: BIDCD SI

description: Bosch Industrial Depth Completion Dataset (BIDCD) is an RGBD dataset of static table top scenes with industrial objects, collected with a depth-camera from multiple Points-of-View (POV). In this Single-Item (SI) subset, BIDCD-SI, we placed a single object on the table, and recorded it from 4-5 POV.
DOI: 10.5281/zenodo.5175824
title: BIDCD SI

description: Bosch Industrial Depth Completion Dataset (BIDCD) is an RGBD dataset of static table top scenes with industrial objects, collected with a depth-camera from multiple Points-of-View (POV). In this Single-Item (SI) subset, BIDCD-SI, we placed a single object on the table, and recorded it from 4-5 POV.
DOI: 10.6084/m9.figshare.3457493
title: Electrospun type 1 collagen matrices preserving native ultrastructure using benign binary solvent for cardiac tissue engineering

description: Electrospinning is a well-established technique that uses a high electric field to fabricate ultrafine fibrous scaffolds from both natural and synthetic polymers to mimic the cellular microenvironment. Collagen is one of the most preferred biopolymers, due to its widespread occurrence in nature and its biocompatibility. Electrospinning of collagen alone has been reported, with fluoroalcohols such as hexafluoroisopropanol (HFIP) and trifluoroethanol (TFE), but the resultant collagen lost its characteristic ultrastructural integrity of D-periodicity 67 nm banding, confirmed by transmission electron microscopy (TEM), and the fluoroalcohols used were toxic to the environment. In this study, we describe the use of glacial acetic acid and DMSO to dissolve collagen and generate electrospun nanofibers of collagen type 1, which is non-toxic and economical. TEM analysis revealed the characteristic feature of native collagen triple helical repeats, showing 67 nm D-periodicity banding pattern and confirming that the ultrastructural integrity of the collagen was maintained. Analysis by scanning electron microscopy (SEM) showed fiber diameters in the range of 200–1100 nm. Biocompatibility of the three-dimensional (3D) scaffolds was established by MTT assays using rat skeletal myoblasts (L6 cell line) and confocal microscopic analysis of immunofluorescent-stained sections of collagen scaffolds for muscle-specific markers such as desmin and actin. Primary neonatal rat ventricular cardiomyocytes (NRVCM) seeded onto the collagen scaffolds were able to maintain their contractile function for a period of 17 days and also expressed higher levels of desmin when compared with 2D cultures. We report for the first time that collagen type 1 can be electrospun without blending with copolymers using the novel benign solvent combination, and the method can be potentially explored for applications in tissue engineering.
DOI: 10.6084/m9.figshare.3457493.v1
title: Electrospun type 1 collagen matrices preserving native ultrastructure using benign binary solvent for cardiac tissue engineering

description: Electrospinning is a well-established technique that uses a high electric field to fabricate ultrafine fibrous scaffolds from both natural and synthetic polymers to mimic the cellular microenvironment. Collagen is one of the most preferred biopolymers, due to its widespread occurrence in nature and its biocompatibility. Electrospinning of collagen alone has been reported, with fluoroalcohols such as hexafluoroisopropanol (HFIP) and trifluoroethanol (TFE), but the resultant collagen lost its characteristic ultrastructural integrity of D-periodicity 67 nm banding, confirmed by transmission electron microscopy (TEM), and the fluoroalcohols used were toxic to the environment. In this study, we describe the use of glacial acetic acid and DMSO to dissolve collagen and generate electrospun nanofibers of collagen type 1, which is non-toxic and economical. TEM analysis revealed the characteristic feature of native collagen triple helical repeats, showing 67 nm D-periodicity banding pattern and confirming that the ultrastructural integrity of the collagen was maintained. Analysis by scanning electron microscopy (SEM) showed fiber diameters in the range of 200–1100 nm. Biocompatibility of the three-dimensional (3D) scaffolds was established by MTT assays using rat skeletal myoblasts (L6 cell line) and confocal microscopic analysis of immunofluorescent-stained sections of collagen scaffolds for muscle-specific markers such as desmin and actin. Primary neonatal rat ventricular cardiomyocytes (NRVCM) seeded onto the collagen scaffolds were able to maintain their contractile function for a period of 17 days and also expressed higher levels of desmin when compared with 2D cultures. We report for the first time that collagen type 1 can be electrospun without blending with copolymers using the novel benign solvent combination, and the method can be potentially explored for applications in tissue engineering.
DOI: 10.5281/zenodo.5176241
title: Forbesichthys papiliiferus UTTC_102 SPAdes preassembly

description: .
DOI: 10.5281/zenodo.5176240
title: Forbesichthys papiliiferus UTTC_102 SPAdes preassembly

description: .
DOI: 10.5281/zenodo.5176247
title: Forbesichthys papilliferus FPAP_01 SPAdes preassembly

description: .
DOI: 10.5281/zenodo.5176246
title: Forbesichthys papilliferus FPAP_01 SPAdes preassembly

description: .
DOI: 10.5281/zenodo.5176253
title: Forbesichthys papilliferus FPAP_02 SPAdes preassembly

description: .
DOI: 10.5281/zenodo.5176252
title: Forbesichthys papilliferus FPAP_02 SPAdes preassembly

description: .
DOI: 10.5281/zenodo.5176268
title: ZSM-5 SerialRED data

description: This is a dataset that was collected on 162 crystals (62 could be indexed) on sample ZSM-5 using a JEOL-2100 with ASI Timepix detector using instamatic (https://github.com/instamatic-dev/instamatic). It contains some example notebooks on how to process the data.
DOI: 10.5281/zenodo.5176267
title: ZSM-5 SerialRED data

description: This is a dataset that was collected on 162 crystals (62 could be indexed) on sample ZSM-5 using a JEOL-2100 with ASI Timepix detector using instamatic (https://github.com/instamatic-dev/instamatic). It contains some example notebooks on how to process the data.
DOI: 10.6084/m9.figshare.12493106.v8
title: Campylobacter jejuni genotypes associated with post-infection irritable bowel syndrome

description: <i>Campylobacter</i> enterocolitis can lead to post-infection irritable bowel syndrome (PI-IBS) but the factors promoting its emergence are poorly understood. While some <i>C. jejuni</i> strains are more significant for human disease, genomic and virulence characteristics that promote PI-IBS development are unknown. We combined pangenome-wide association studies and laboratory microbiology to compare <i>C. jejuni </i>from patients that develop PI-IBS with those that do not. Variation in bacterial stress response (<i>Cj0145_phoX</i>), adhesion protein (<i>Cj0628_CapA</i>), and core biosynthetic pathway genes (biotin: <i>Cj0308_bioD</i>; purine: <i>Cj0514_purQ</i>; isoprenoid: <i>Cj0894c_ispH</i>) associated with PI-IBS development. <i>In vitro </i>assays demonstrated enhanced adhesion, invasion, epithelial barrier disruption, and IL-8 secretion with PI-IBS strains. Twenty-two genomic markers, four of which in an uncharacterized gene <i>Cj1631c, </i>were used to develop a risk-score for PI-IBS development. Demonstrating that specific <i>Campylobacter</i> genotypes confer greater <i>in vitro</i> virulence and increased risk of PI-IBS has potential to improve understanding of the complex host-pathogen interactions underlying this condition.
DOI: 10.5281/zenodo.5176282
title: Forbesichthys papilliferus FPAP_CLK1 SPAdes preassembly

description: .
DOI: 10.5281/zenodo.5176281
title: Forbesichthys papilliferus FPAP_CLK1 SPAdes preassembly

description: .
DOI: 10.5281/zenodo.5176288
title: Forbesichthys papilliferus TJN_100 SPAdes preassembly

description: .
DOI: 10.5281/zenodo.5176287
title: Forbesichthys papilliferus TJN_100 SPAdes preassembly

description: .
DOI: 10.5281/zenodo.5176290
title: Percopsis omiscomaycus 77_1 SPAdes preassembly

description: .
DOI: 10.5281/zenodo.5176289
title: Percopsis omiscomaycus 77_1 SPAdes preassembly

description: .
DOI: 10.13012/b2idb-0595759_v1
title: Case Studies for 'An Interdisciplinary Approach to One Health: Course Design, Development and Delivery'

description: This file contains 13 unique case studies that were created for the One health: Infectious diseases course offered at the University of Illinois at Urbana-Champaign campus. The case studies are being made available as educational resources for other One health courses. Each case study is focused on a theme/topic which is associated with One health. These case studies were created using publicly available information and references have been provided for each case study.
DOI: 10.5281/zenodo.5176117
title: Fraxinus pennsylvanica genome assembly and annotation

description: We report the first chromosome-level assembly for green ash (<em>Fraxinus pennsylvanica</em>) to assist in ash breeding efforts to propagate resistance to the emerald ash borer. The final haploid assembly consists of 23 chromosomes and 87 unplaced scaffolds of 10 kb or more. Over 99% of the bases anchored to the chromosomes. The assembly spans 757 Mb and consists of 49.43% repetitive DNA. Gene annotation yielded 35,470 high-confidence gene models, all located on the chromosomes and assigned to 22,976 Asterid Orthogroups.
DOI: 10.5281/zenodo.5176116
title: Fraxinus pennsylvanica genome assembly and annotation

description: We report the first chromosome-level assembly for green ash (<em>Fraxinus pennsylvanica</em>) to assist in ash breeding efforts to propagate resistance to the emerald ash borer. The final haploid assembly consists of 23 chromosomes and 87 unplaced scaffolds of 10 kb or more. Over 99% of the bases anchored to the chromosomes. The assembly spans 757 Mb and consists of 49.43% repetitive DNA. Gene annotation yielded 35,470 high-confidence gene models, all located on the chromosomes and assigned to 22,976 Asterid Orthogroups.
DOI: 10.6084/m9.figshare.15142209
title: applsci-1327788_experiment_data.csv

description: This CSV file contains the results of a mechanical test. There are vertical displacements of a three-point bending beam at 20 control points. This part was obtained as the result of topology optimization.
DOI: 10.6084/m9.figshare.15142209.v1
title: applsci-1327788_experiment_data.csv

description: This CSV file contains the results of a mechanical test. There are vertical displacements of a three-point bending beam at 20 control points. This part was obtained as the result of topology optimization.
DOI: 10.6084/m9.figshare.14977305
title: Navigating trade-offs between dams and river conservation: data set and technical documentation

description: This repository contains spatial data and metadata for the research article: Thieme M.L. et al. (2021). Navigating trade-offs between dams and river conservation. <i>Global Sustainability</i> <b>4</b>, e17, 1–7. https://doi.org/10.1017/sus.2021.15
DOI: 10.5258/soton/d1878
title: HYSPLIT data

description: University of Southampton doctoral thesis dataset. This dataset supports the thesis entitled "Uncertainty quantification and propagation through complex chains of computational models", University of Southampton, 2021. Contains the results of running the Hybrid Single Particle Lagrangian Integrated Trajectory Model (HYSPLIT) model (developed by the Air Resources Laboratory of the National Oceanic and Atmospheric Administration in the United States of America) at the input conditions described in my thesis.
DOI: 10.5281/zenodo.5176332
title: Government evaluation: FHC (Jun 2000)

description: Survey conducted by Datafolha Instituto de Pesquisas.
DOI: 10.5281/zenodo.5176331
title: Government evaluation: FHC (Jun 2000)

description: Survey conducted by Datafolha Instituto de Pesquisas.
DOI: 10.5281/zenodo.5176323
title: Percopsis omiscomaycus TJN_237 SPAdes preassembly

description: .
DOI: 10.5281/zenodo.5176322
title: Percopsis omiscomaycus TJN_237 SPAdes preassembly

description: .
DOI: 10.5281/zenodo.5176325
title: Percopsis transmontana T1890 SPAdes preassembly

description: .
DOI: 10.5281/zenodo.5176324
title: Percopsis transmontana T1890 SPAdes preassembly

description: .
DOI: 10.5281/zenodo.5176321
title: Percopsis omiscomaycus 77_2 SPAdes preassembly

description: .
DOI: 10.5281/zenodo.5176320
title: Percopsis omiscomaycus 77_2 SPAdes preassembly

description: .
DOI: 10.5281/zenodo.5176347
title: Training data for 'Upload data to ENA' (Galaxy Training Material)

description: The data here is a subset of the data published in 10.5281/zenodo.3732359 to be used in GTN 'Upload data to ENA' tutorial. Human traces have been removed following https://training.galaxyproject.org/training-material/topics/sequence-analysis/tutorials/human-reads-removal/tutorial.html
description: {"references": ["Wolfgang Maier, 2021 Removal of human reads from SARS-CoV-2 sequencing data (Galaxy Training Materials). https://training.galaxyproject.org/training-material/topics/sequence-analysis/tutorials/human-reads-removal/tutorial.html Online; accessed Wed Aug 04 2021", "Batut et al., 2018 Community-Driven Data Analysis Training for Biology Cell Systems 10.1016/j.cels.2018.05.012"]}