cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.15151/esrf-es-1307693340
title: Assessing the local structure and stability of Ni and Cu based single-atom catalysts during hydrogenation reactions by operando XAS

description: Single-atom catalysts (SACs), consisting of isolated metal active site dispersed on suitable supports, hold great promise for maximized metal utilization, exceptional tunability of the catalytic site, and selectivity. One of their key issues is that, when the metal atom concentration exceeds a certain threshold or the catalyst is exposed to certain experimental conditions, the single atoms tend to aggregate in clusters and nanoparticles, compromising the system selectivity and activity. We propose to investigate by XAS a set of 4 Ni-SACs and 4 Cu-SACs samples, with increasing metal loadings from 0.3 to 3 wt%, supported on C3N4, in selected oxidizing/reducing environments and during the hydrogenation reaction of C2H2 to C2H4. The proposed study will provide a molecular understanding of the mechanisms leading to the aggregation of the single atoms under reaction conditions, helping to design more stable and efficient SACs.
DOI: 10.15151/esrf-es-1307694051
title: Precipitation and grain growth in aluminum foams during annealing

description: Aluminum foams are important in many applications. However, the microstructural evolution inside the foam cells walls/ligaments has not yet been sufficiently studied. We propose measuring microstructure evolution in open-cell and closed-cell Al foams during an industrially relevant annealing protocol using phase-contrast and diffraction-contrast tomography (PCT and DCT, respectively). Such measurements will allow us to study the interaction between constituents of the microstructure and the macrostructure of the foams in 3D. In particular, we are interested in how precipitates in the foam—easily identifiable from PCT—interact with grain boundaries— located using DCT— during heat treatment.
DOI: 10.15151/esrf-es-1307694061
title: Kinetic characterization of Ca2+-involved complexation of humic acid (HA) by stopped-flow SAXS experiments for optimizing water treatment

description: In our proposed stopped-flow SAXS experiments we want to elucidate the structure of the initially formed complexes during the mixing of humic acid with oppositely charged cationic polyelectyolyte (cPE). The aim of the sf-SAXS experiment is to probe how the mesoscopic structure of formed complexes evolves over time under different conditions, such as the type of cPEs, their Mw, the mixing ratio and the solvent quality (e.g. the salt concentration). This shall allow for rationalising the tendency for further growth into flocs and precipitates, the compactness of formed complexes, and the tendency to form long-term stably dispersed aggregates – all aspects of central importance for ultimately understanding the flocculation process that is essential in raw water purification.
DOI: 10.15151/esrf-es-1307695043
title: temperature dependent swelling transitions in Hummers graphite oxide immersed in excess of liquid 1-alcohols.

description: The project suggests in situ XRD study of Hummers graphite oxide (HGO) swelling in liquid 1-alcohols as a function of temperature. According to preliminary data, HGO immersed in long 1-alcohols (carbon numbers C14, C16, C18, C20) shows swelling transition at elevated temperatures with sharp change of inter-layer distance. HGO swelling in small alcohols (methanol and ethanol) is known from earlier studies to show completely different type of structural changes with absent of well defined swelling transitions. No studies were so far performed for HGO in other alcohols between ethanol (C2) and 1-pentadecanol C15. We suggest to study temperature dependence of swelling for HGO immersed in a set of liquid 1-alcohols with chain length C3 to C15. It is expected that swelling transition will be observed for alcohols with C&gt;9 and gradual changes of interlayer distance for smaller alcohols. Adding these data to already collected preliminary results will result in rapid publication.
DOI: 10.15151/esrf-es-1306925003
title: Structural study of black and white porcelain from Jin dynasty (112-1234 AD)

description: The objective of the current proposal is to carry out similar investigations on black and white porcelains which were produced in large quantity but from local raw materials and mainly intended for local markets. These productions are an interesting example of manufacturing fine objects from inexpensive materials of variable quality. The rather complex and heterogeneous microstructure of decors, coming from the use of weakly refined materials, is an invaluable source of information concerning the manufacturing processes. Moreover, these productions were not managed by the central power such as more prestigious productions; their study is also a good an appropriate way to investigate the local traditions and specifically to study how craftsmen were able to take advantage of their local resource. In order to analyse the entire complex structure of those porcelains, we propose to perform hierarchical imagings by scanning X-ray microscope on ID21 of a selection of samples.
DOI: 10.15151/esrf-es-1306925307
title: In-situ micro computed tomography of the formation of electrospun nanoporous Ni

description: The aim of this proposal is to obtain the structural evolution during the calcination of our novel electrospun monolithic nanoporous nickel (or called nickel mat). A bespoke setup will allow a sample to rotate freely while being heated in a vertical tubular furnace in order to obtain operando x-ray images exploiting the rapid acquisition facilities available at ID19. The metal precursor/polymer composite mat will be first calcined in air to 800 °C to eliminate the polymer, then the resulted nickel oxide fibre will be reduced in 5% H2/N2 up to 600, 700 and 800 °C. The microstructure evolution will be monitored by X-ray micro-CT continuously during the processes. The results will help understanding the formation mechanism of electrospun metal, enable delicate control of its microstructure and provide scientific insight to the communities of functional ceramic and metallurgy.
DOI: 10.15151/esrf-es-1306926280
title: Understanding degradation phenomena in high-performing polymer-based gas diffusion electrodes for electrochemical CO2 reduction

description: Electrochemical CO2 reduction (eCO2R) powered by renewable electricity can convert detrimental CO2 emissions into sustainable fuels and chemicals. By using gas diffusion electrodes (GDEs) and by reacting CO2 from the gas phase, high eCO2R current density can be achieved. GDEs, however, degrade fast during eCO2R due to flooding by the electrolyte, thus operating for &lt; 100 h. Flooding can be curbed in polymer GDEs using hydrophobic substrates, but it can still be induced by precipitation of hygroscopic carbonate crystals in the GDE due to CO2 dissolution. In our previous work, polymer GDEs of small pore size were 50x more stable than their large pore size counterpart (&lt; 1 h to &gt; 50 h). We thus propose to use operando XRD in Beamline ID31 to study carbonate precipitation during eCO2R, its kinetics and its dependence on GDE pore size. As GDE degradation is the most severe issue facing eCO2R, these results will provide fundamental understanding as well as important technological guidelines.
DOI: 10.15151/esrf-es-1316796119
title: Test of 3D diffraction data acquisition

description: Test of 3D diffraction data acquisition
DOI: 10.15151/esrf-es-1306468205
title: Zebra finch whole brain atlas

description: The goal of the experiment is to acquire an entire zebra finch brain (480±10 mm3; n=4, mean±std) at a voxel size of 720 nm, which is sufficient to identify cell bodies and trace individual large myelinated axons (&gt; 2 µm diameter). Tracing these axons will allow us to generate a detailed map of how different brain areas communicate with each other, which is of particular interest for stuttering behavior and will be a future invaluable resource for general speech and vocal learning research with the songbird as its key model organism.
DOI: 10.15151/esrf-es-1306469542
title: 3D characterization of Gleason grades in prostate carcinoma by X-ray nano-holotomography

description: Prostate carcinoma is the most common cancer in men and, along with bronchial carcinoma, one of the best-studied malignancies. However, the unique Gleason grading system has been extensively revised but still constitutes the basis for the WHO-ISUP and serves as a predictive marker established worldwide. Depending on the degree of differentiation, different therapeutic strategies are applied. But the unique clinical and molecular heterogeneity of prostate cancer remains largely unconsidered. However, based on this scoring, no correlation to an overall survival rate can be established to date. This suggests that the two-dimensional examination based on thin slide sections used so far has hidden certain information about the specific carcinoma. These structural features require a resolution of well below 1 µm, and in combination with the excellent soft-tissue contrast, the X-ray nano-holotomography (XNH) setup at the ID16A-beamline is ideally suited for our research case.
DOI: 10.15151/esrf-es-1306470976
title: Kinetics of photo-switching in lipid monolayers containing DPPC and azobenzene-glycolipids

description: Lipid membranes are highly interactive and the structure of the proteins is intimately connected with the lipid environment. The motion of lipids and proteins occur on time scales from ns to ms. We introduce a model system in which we use photo-switchable glycoconjugates to induce structural changes in a membrane consisting of DPPC to study the lipid-lipid interaction. The reversibly switching of the glycoconjugates results in a conformation change of the molecule. Existing static XRR and GID measurements on mixed monolayers revealed reversible structural changes in the ordering and orientation of the lipids. The observed structural changes suggest a mechanical coupling between the lipids. The dynamic of this coupling is not well understood yet and needs more investigation. This experiment will not only contribute to the fundamental understanding of membrane dynamics but also to potential applications for molecular switches such as drug delivery, cell recognition and optical storage.
DOI: 10.15151/esrf-es-1305993541
title: Speciation of neodynium in the rhizobacteria pseudomonas putida : focus on the influence of exposure media and Nd complexes with pyoverdine

description: With a predicted world population of over 9 billion people in 2050 and rapid economic growth, the pressure on natural resources is exponentially increasing. It is the case for critical metals, including Rare Earth Elements (REEs), that are the heart of a number of strategic technologies for the environmental transition. In this context, bio-inspired technologies could bring neat alternative to traditional pyro-metallurgy. Extraction strategies using bacterial proteins specific to REEs have recently emerge. This project aims to study the Nd complexes formed by molecules identified in the bacteria model Pseudomonas putida, such as periplasmic protein and siderophore.The second objective is to characterize Nd speciation in P. putida whole cells and compare it with the speciation of soluble proteins, with P. putida cultures performed in different media.This project should help to understand the implication of different ligands in REE behavior in P. putida.
DOI: 10.15151/esrf-es-1305996901
title: Manipulation of topological textures in a magnetic domain wall

description: During experiment MI-1429, we imaged the magnetic texture of a teardrop-shape sample in Permalloy by Fourier-transform holography (FTH). To our surprise, the domain wall consisted of several Bloch-wall-type segments of alternating polarities. As MI-1429 was a 3D imaging experiment, we did not apply magnetic field to avoid perturbating the texture. Now we would like to do so, in order to elucidate the origin of the non-uniform domain wall polarity. Is this the equilibrium configuration, or does it arise from pinning on extrinsic defects? How does it react to weak magnetic field? Can we eventually manipulate the number of segments, in the perspective to encode information? We will this time focus on a 2D imaging procedure under applied magnetic field.
DOI: 10.5281/zenodo.8354192
title: DATA AVAILABILITY FOR PAPER ENTITLED "Potential Educational Method for Socio-Emotional Development of Stunted Toddler in Indonesia "

description: This repository includes: 1. List of appendices 2. Certificate of ethical test
DOI: 10.5281/zenodo.8354191
title: DATA AVAILABILITY FOR PAPER ENTITLED "Potential Educational Method for Socio-Emotional Development of Stunted Toddler in Indonesia "

description: This repository includes: 1. List of appendices 2. Certificate of ethical test
DOI: 10.5281/zenodo.8354182
title: Legacy 2022 UAV REM (python) & histograms

description: Legacy 2022 UAV REM generated using python and histograms for 2022 UAV DTM, REM (ArcMap), and REM (Python)
DOI: 10.5281/zenodo.8354181
title: Legacy 2022 UAV REM (python) & histograms

description: Legacy 2022 UAV REM generated using python and histograms for 2022 UAV DTM, REM (ArcMap), and REM (Python)
DOI: 10.5281/zenodo.8354172
title: Defining neutralization and allostery by antibodies against COVID-19 variants

description: The changing landscape of mutations in the SARS-CoV-2 Spike protein is linked to the emergence of variants, immune-escape and reduced efficacy of the existing repertoire of anti-viral antibodies. A major factor that contributes to the functional activity of neutralizing antibodies are the intrinsic quaternary changes that occur as a result of antibody-Spike trimer interactions. In this study, we reveal the conformational dynamics and allosteric perturbations linked to binding of human monoclonal antibodies and the viral Spike protein. We identify epitope hotspots of known and novel antibodies, and associated changes in Spike dynamics that distinguish weak, moderate and strong neutralizing antibodies. We show the impact of mutations in Wuhan-Hu-1, Delta, and Omicron variants of concern (VoCs) on differences in the antibody-induced conformational changes in Spike and illustrate how these render certain antibodies ineffective. Our comparative analyses of the antibody-footprints on Spike variants reveal how antibodies with similar binding affinities may induce destabilizing or stabilizing allosteric effects. These differences have important implications for neutralization efficacy and for developing new antibodies targeting emerging variants. Our results provide mechanistic insights into the functional modes and synergistic behavior of human antibodies against COVID-19, and provide a foundation for the design of effective antiviral strategies.
DOI: 10.5281/zenodo.8354171
title: Defining neutralization and allostery by antibodies against COVID-19 variants

description: The changing landscape of mutations in the SARS-CoV-2 Spike protein is linked to the emergence of variants, immune-escape and reduced efficacy of the existing repertoire of anti-viral antibodies. A major factor that contributes to the functional activity of neutralizing antibodies are the intrinsic quaternary changes that occur as a result of antibody-Spike trimer interactions. In this study, we reveal the conformational dynamics and allosteric perturbations linked to binding of human monoclonal antibodies and the viral Spike protein. We identify epitope hotspots of known and novel antibodies, and associated changes in Spike dynamics that distinguish weak, moderate and strong neutralizing antibodies. We show the impact of mutations in Wuhan-Hu-1, Delta, and Omicron variants of concern (VoCs) on differences in the antibody-induced conformational changes in Spike and illustrate how these render certain antibodies ineffective. Our comparative analyses of the antibody-footprints on Spike variants reveal how antibodies with similar binding affinities may induce destabilizing or stabilizing allosteric effects. These differences have important implications for neutralization efficacy and for developing new antibodies targeting emerging variants. Our results provide mechanistic insights into the functional modes and synergistic behavior of human antibodies against COVID-19, and provide a foundation for the design of effective antiviral strategies.
DOI: 10.25345/c57d2qj3w
title: MassIVE MSV000092884 - Confirmation of Lbpro*-clipped Ub chain branching by intact MS analysis
title: The amount of branching was quantified by intact MS analysis of LBpro* digested Sic1-Ubn.
DOI: 10.57745/02dvyp
title: MultiQC_trimmed_transition_zone.pdf

description: :unav
DOI: 10.57745/ely4m6
title: Experimental_design.pdf

description: :unav
DOI: 10.57745/ofezjr
title: MultiQC_trimmed_inner_sapwood.pdf

description: :unav
DOI: 10.57745/owolog
title: MultiQC_trimmed_outer_sapwood.pdf

description: :unav
DOI: 10.57745/vldvjl
title: README

description: :unav
DOI: 10.57745/agvbpi
title: MultiQC_trimmed_outer_sapwood.html

description: :unav
DOI: 10.57745/baozpw
title: README.txt

description: :unav
DOI: 10.57745/dsmdck
title: MultiQC_trimmed_inner_sapwood.html

description: :unav
DOI: 10.57745/erwudj
title: MultiQC_trimmed_transition_zone.html

description: :unav
DOI: 10.5281/zenodo.8321486
title: The thermal expansion of a Kevlar® 49 cord down to cryogenic temperatures

description: In this work the thermal expansion of a twisted Kevlar® 49 cord assembly made at SRON in the 293 K to 7 K temperature range is presented. In addition to these results, the setup used to measure this thermal expansion is described, as are the methods used to calibrate and verify the accuracy of this setup. The setup is accurate to within ±5 % compared to Ti-6Al-4V literature values. The thermal expansion of the SRON Kevlar® 49 cord assembly is measured and compared to the sparse literature available. At 7 K, the total fractional expansion of the Kevlar® cord assembly is 16E-4 relative to 293 K.
DOI: 10.5281/zenodo.8321487
title: The thermal expansion of a Kevlar® 49 cord down to cryogenic temperatures

description: In this work the thermal expansion of a twisted Kevlar® 49 cord assembly made at SRON in the 293 K to 7 K temperature range is presented. In addition to these results, the setup used to measure this thermal expansion is described, as are the methods used to calibrate and verify the accuracy of this setup. The setup is accurate to within ±5 % compared to Ti-6Al-4V literature values. The thermal expansion of the SRON Kevlar® 49 cord assembly is measured and compared to the sparse literature available. At 7 K, the total fractional expansion of the Kevlar® cord assembly is 16E-4 relative to 293 K.
DOI: 10.6084/m9.figshare.24154581
title: Supplementary Data for Genome-wide Characterization of Diverse Bacteriophages Enabled by RNA-Binding CRISPRi

description: Bacteriophages constitute one of the largest sources of unknown gene content in the biosphere. Even for well-studied model phages, robust experimental approaches to identify and study their essential genes remain elusive. We uncover and exploit the conserved vulnerability of the phage transcriptome to facilitate genome-wide protein expression knockdown via programmable RNA-binding protein dRfxCas13d (CRISPRi-ART) across diverse phages and their host. Establishing the first broad-spectrum phage functional genomics platform, we predict over 90 essential genes across four phage genomes, a third of which have no known function. These results highlight hidden infection strategies encoded in the most abundant biological entities on earth and provide a facile platform to study them.<br><b>Data S1. </b>Plasmids used in this study.<b>Data S2. </b>Bacterial strains used in this study.<b>Data S3. </b>Bacteriophages used in this study.<b>Data S4. </b>Oligonucleotides used in this study, not including oligo pools.<b>Data S5. </b>Data table describing metadata, raw and normalized read counts, crRNA fitness values.<b>Data S6. </b>Curated phage genome annotations for phages T4, T5, SUSP1, and PTXU04.<b>Data S7. </b>Plaque size measurements for all plaque assays in this study.<br>
DOI: 10.34740/kaggle/ds/1250260
title: Brain MRI Images
DOI: 10.5281/zenodo.8354221
title: Dataset for CDFI: Cross Domain Feature Interaction for Robust Bronchi Lumen Detection [ICRA2023]

description: Data of lumen detection, including artifacts and clean images.
DOI: 10.5281/zenodo.8354220
title: Dataset for CDFI: Cross Domain Feature Interaction for Robust Bronchi Lumen Detection [ICRA2023]

description: Data of lumen detection, including artifacts and clean images.
DOI: 10.5281/zenodo.8354228
title: log-based testing dataset

description: The dataset used in the LogOracle and LogTCP. The github homepage is AnonymousUserOrange/AnonymousRepo (github.com)
DOI: 10.5281/zenodo.8354227
title: log-based testing dataset

description: The dataset used in the LogOracle and LogTCP. The github homepage is AnonymousUserOrange/AnonymousRepo (github.com)
DOI: 10.5281/zenodo.8262559
title: Open Dataset for publication: Half-life determination of 215At and 221Ra with high-purity radioactive ion beams - IS665

description: The dataset for publication in preparation: Half-life determination of <sup>215</sup>At and <sup>221</sup>Ra with high-purity radioactive ion beams Includes the data analysed for results given in the publication from the IS665 experimental campaign at ISOLDE (CERN).
description: This work was supported by FWO-Vlaanderen (Belgium), KU Leuven (STG/15/031, C14/22/104), and FWO and F.R.S.-FNRS under the Excellence of Science (EOS) programme (grant no. 40007501); by the European Union Seventh Framework through ENSAR(506065). S.B. acknowledges the support of the FWO Fellowship.
DOI: 10.5281/zenodo.8262560
title: Open Dataset for publication: Half-life determination of 215At and 221Ra with high-purity radioactive ion beams - IS665

description: The dataset for publication in preparation: Half-life determination of <sup>215</sup>At and <sup>221</sup>Ra with high-purity radioactive ion beams Includes the data analysed for results given in the publication from the IS665 experimental campaign at ISOLDE (CERN).
description: This work was supported by FWO-Vlaanderen (Belgium), KU Leuven (STG/15/031, C14/22/104), and FWO and F.R.S.-FNRS under the Excellence of Science (EOS) programme (grant no. 40007501); by the European Union Seventh Framework through ENSAR(506065). S.B. acknowledges the support of the FWO Fellowship.
DOI: 10.5281/zenodo.7307750
title: Network of reference tree-ring chronologies for forensic botanical (dendrochronological) examinations and dating of architectural structures in the Tyva Republic.

description: The database consists of tables. First sheet - general description of tree-ring chronologies (general information: name of chronology, authors, data type, tree-ring parameter, notes, key words; description of sample collection site: site name, location, region, latitude, longitude, height; description of sample collection: collection code designation, number of series, year of first ring, year of last ring, maximum length of sample, average width of year ring; species affiliation - species; support - grant number). Second sheet, first column - years, second column - standardized growth value. The third sheet is a PDF document containing the results of independent testing in the program COFECA (the file is opened by the command: right-click/Acrobat Document object/open). The database is implemented in the OpenOffice.org Calc spreadsheet processor. The table file format is an internal OpenOffice.org Calc format, with the extension .ods. The data is accessed and structured using the standard tools "Sort", "Autofilter", etc. In the database, the integrity restriction control is not implemented, the user is invited to monitor the integrity of the database himself. Computer type: IBM PC. PC; OS: Windows 10. Type and version of the database management system: OpenOffice.org Calc. Database size: 5.6 MB
description: Russian Science Foundation 19-14-00028 Extreme (catastrophic) droughts on the Siberian south over the past millennia