cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.17084420
title: Additional file 4 of Remarkably coherent population structure for a dominant Antarctic Chlorobium species

description: Additional file 3. Data from Ca. Chlorobium antarcticum 16S rRNA gene variation analysis and comparative analysis of AL, EF and TB MAGs and Cpv-DSM265 genome. Supplementary dataset.
DOI: 10.6084/m9.figshare.17084414
title: Additional file 3 of Remarkably coherent population structure for a dominant Antarctic Chlorobium species

description: Additional file 2. MIMAG data for Ca. Chlorobium antarcticum. Supplementary dataset.
DOI: 10.6084/m9.figshare.17084405
title: Additional file 2 of Determination of total protein content in biomedical products by the PDMS-assisted lab-in-a-syringe assay using 3D printed scaffolds removal

description: Additional file 2. LIS_channel.stl. Drawing of the straight channel used for 3D printing. LIS_Tchannel.stl. Drawing of the T-channel used for 3D printing. LIS_reservoir.stl. Drawing of the reservoir used for 3D printing.
DOI: 10.6084/m9.figshare.17084375
title: Additional file 6 of Genetic basis of orange spot formation in the guppy (Poecilia reticulata)

description: Additional file 6. List of xanthophore and iridophore-related genes. Asterisks indicate genes with known effects on multiple pigment cells (xanthophore, iridophore, and melanophore).
DOI: 10.6084/m9.figshare.17084369
title: Additional file 5 of Genetic basis of orange spot formation in the guppy (Poecilia reticulata)

description: Additional file 5. List of DEGs with enriched GO terms.
DOI: 10.6084/m9.figshare.17084360
title: Additional file 4 of Genetic basis of orange spot formation in the guppy (Poecilia reticulata)

description: Additional file 4. List of DEGs detected by stage comparison. Upregulation and downregulation of genes in stages 2 and 3 compared to stage 1 are presented as positive and negative logFC (logFC stage2, logFC stage3) values, respectively.
DOI: 10.6084/m9.figshare.17084357
title: Additional file 3 of Genetic basis of orange spot formation in the guppy (Poecilia reticulata)

description: Additional file 3. List of differentially expressed genes (DEGs) detected by comparison of the orange and dull skin specimens. Upregulation and downregulation of genes in the orange skin specimens are presented as positive and negative log2-fold change (logFC) values, respectively.
DOI: 10.6084/m9.figshare.17084351
title: Additional file 2 of Genetic basis of orange spot formation in the guppy (Poecilia reticulata)

description: Additional file 2. Results of total RNA amount used for library generation, sequencing, and mapping of each sample.
DOI: 10.6084/m9.figshare.17057183.v1
title: Home based COVID care.sav

description: SPSS spread sheet containing the raw data and the questionnaire of the research study, "Practices, awareness and perception towards home-based COVID-19 management among the general population in south India"<br>
DOI: 10.6084/m9.figshare.17085335
title: Supplementary Material for: Dietary Omega-3 Fatty Acid Intake and Mortality in CKD Population: A 1999–2014 NHANES Analysis

description: <b><i>Introduction:</i></b> High risk of early death, especially contributed to cardiovascular disease, exists in patients who have chronic kidney disease (CKD). And the burden of cardiovascular disease is able to be lightened by an increase in omega-3 polyunsaturated fatty acid (omega-3 PUFA). A diet high in omega-3 PUFA in the general population is protective, although it is inconclusive about its beneficial role in the CKD population. <b><i>Methods:</i></b> From the 1999 to 2014 National Health and Nutrition Examination Surveys (NHANES), we can collect 2,990 participants who suffered from CKD, who were classified into 4 groups: &lt;0.86, 0.87–1.30, 1.31–1.92, and 1.93–9.65 g/day based on NHANES 24-h dietary recall questionnaire dietary omega-3 PUFA. Moreover, their mortality details were available to be obtained by linking NHANES to the National Death Index. The associations between dietary omega-3 PUFA and mortality were evaluated by constructing multivariable Cox proportional hazards models. <b><i>Results:</i></b> Over 8 years of a median follow-up, 864 deaths were recorded. The adjusted hazard ratios (95% confidence interval) for all-cause mortality of the diseased people with CKD in the 2nd (0.87–1.30 g/day), 3rd (0.87–1.30 g/day), and 4th (1.93–9.65 g/day) quartiles of dietary omega-3 PUFA were 0.94 (0.72, 1.23), 0.74 (0.54, 1.02), and 0.67 (0.48, 0.93), respectively, versus those with the lowest quartile of dietary omega-3 PUFA intake (&lt;0.86 g/day) (<i>p</i> for trend = 0.011). <b><i>Conclusion:</i></b> There may be a inverse relation of dietary omega-3 PUFA intake and all-cause mortality in patients with CKD. Therefore, an increase of dietary omega-3 PUFA may be encouraged to be used clinically in patients with CKD.
DOI: 10.6084/m9.figshare.17085014
title: Sea level

description: Hourly sea level observed by four online observation sites: Chudao marine ranch , Liugongdao marine ranch, Yutai marine ranch and Anyuan marine ranch
DOI: 10.6084/m9.figshare.17085434
title: Supplementary Material for: Length of Stay in Older Patients Undergoing Transcatheter Aortic Valve Replacement: Value of a Geriatric Approach

description: <b><i>Background:</i></b> For patients with transcatheter aortic valve replacement (TAVR), increased length of stay (LOS) is associated with increased long-term mortality. The main objective of our study was to analyze the association between geriatrics factors and the hospital LOS for older patients undergoing TAVR for severe aortic stenosis. <b><i>Methods:</i></b> This retrospective single-center study included all patients aged ≥75 who underwent TAVR between January 2018 and January 2019. Hospital LOS and postoperative complications were analyzed regarding the geriatric factors recorded during a systematic preoperative, comprehensive geriatric assessment (CGA). The individualized-care plans established after the preoperative CGA were also analyzed. <b><i>Results:</i></b> median LOS of the 196 patients included was 6 days (interquartile range: 4–8), and 29% of patients had prolonged LOS. In a multivariable analysis, the preoperative factors associated with a prolonged hospital LOS were EuroSCORE I (<i>p</i> value = 0.02), prior major neurocognitive disorders (<i>p</i> value = 0.01), femoral access (<i>p</i> value &lt;0.001), all complications (<i>p</i> value &lt;0.001), and discharge in a rehabilitation center (<i>p</i> value &lt;0.001). One-fourth (27%) of the patients had at least 1 geriatric complication. After CGA, 69 patients did not need any geriatric recommendation, whereas for the 127 other patients, an individualized-care plan was established but only 46 (36%) of them were followed up. <b><i>Conclusion:</i></b> Our results favor the preoperative screening for major neurocognitive disorders in order to reduce LOS. Furthermore, the proposed individual-care plans after CGA were poorly followed. Practitioners may perceive the preoperative CGA as a screening tool, but its primary objective is to develop an individualized-care plan as a prehabilitation plan in order to optimize the physical, functional, and social issues.
DOI: 10.6084/m9.figshare.17085428
title: Supplementary Material for: Low Concentration of Fecal Valeric Acid at 1 Year of Age Is Linked with Eczema and Food Allergy at 13 Years of Age: Findings from a Swedish Birth Cohort

description: <b><i>Background:</i></b> Short-chain fatty acids (SCFAs) are abundant bacterial metabolites in the gut, with immunomodulatory properties. Hence, they may influence allergy development. Previous studies have linked fecal SCFA pattern during infancy with allergy. However, the association of SCFAs to allergic outcomes in adolescence is not well established. Here, we examined how the fecal SCFA pattern at 1 year of age related to allergy at 13 years of age. <b><i>Methods:</i></b> Levels of 8 SCFAs in fecal samples collected at 1 year of age from 110 children were quantified using gas chromatography. The same individuals were evaluated at 13 years of age for allergic symptoms, allergy diagnosis and allergy medication by questionnaire, and for sensitization using skin prick test against egg, milk, fish, wheat and soy, cat, dog, horse, birch, and timothy grass. <b><i>Results:</i></b> The concentration of fecal valeric acid at 1 year of age was inversely associated with eczema at 13 years of age (OR 0.6, 95% CI: 0.4–1.0, <i>p</i> = 0.049) and showed a trend for inverse association with food allergy at 13 years of age (OR 0.6, 95% CI: 0.4–1.0, <i>p</i> = 0.057). In a sub-group analysis of children with eczema at 1 year of age, a higher concentration of fecal valeric acid was linked with reduced risk of their eczema remaining at 13 years of age (OR 0.2, 95% CI: 0.0–1.5), although this latter analysis did not reach statistical significance (<i>p</i> = 0.12). <b><i>Conclusions:</i></b> Our findings lend further support to the notion of early childhood as a critical period when allergy may be programmed via the gut microbiota. Higher levels of fecal valeric acid may be characteristic of a protective gut microbiota and/or actively contribute to protection from eczema and food allergy.
DOI: 10.6084/m9.figshare.17085437
title: phylogenetic tree generated by RAxML

description: the phylogenetic tree of <i>O. bidens </i>and other 16 fish species
DOI: 10.15151/esrf-es-536299636
title: SAARLAND BAG: ATOMIC MECHANISMS OF ACTION OF MEMBRANE PROTEINS AND BIOSYNTHETIC ENZYMES

description: Projects are focussed primarily within the framework of the DFG-funded excellence network program on "Ca2+signals: Molecular Mechanisms und Integrative Functions" at Saarland University and a new joint multidisciplinary initiative of the University with the Helmholtz Institute of Pharmaceutical Research Saarland on natural bioactive compounds including their interactions with their target proteins. These projects involve the structure determination of membrane proteins and soluble proteins.
DOI: 10.15151/esrf-es-541045402
title: Fundamental and Applied Aspects of Radiation Damage

description: The Radiation Damage BAG investigates the fundamental mechanisms of radiation damage. It develops best practice data collection protocols to minimise radiation damage derived artefacts. It develops metrics and methods to track and quantify both global and local radiation damage.
DOI: 10.15151/esrf-es-612774574
title: Institut Pasteur BAG - Structural biology of infectious agents

description: The Institut Pasteur’s BAG gathers the projects of the research units and platforms of the Institut Pasteur in Paris which are active in the structural biology field: Structural Microbiology (P.M. Alzari), Structural Dynamics of Macromolecules (M. Delarue), Structural Virology (F. Rey) and the Platform of Crystallography (A. Haouz). The non-exhaustive list of ongoing projects includes: - actinobacterial SepF, FtsZ and other cell division proteins; - central metabolic enzymes from actinobacteria; - DNA gyrase from Mycobacterium tuberculosis or model organisms; - Plasmodium proteases as drug targets; - bacterial models of pentameric ligand-gated ion channel family (pLGIC) receptors; - eukaryotic and archeal DNA polymerases and replisome proteins; - viral envelope proteins from pathogenic viruses, and their complexes with neutralizing antibodies; - enzymes and structural proteins from other human pathogens, supported by evolving national and international collaborations.
DOI: 10.15151/esrf-es-633368422
title: Synchrotron Serial Crystallography (SSX) BAG

description: The aim of this BAG is the development of new methods, hardware and software for different applications in SSX. The new EBS machine is in the privileged position of exploiting flux density previously unmatched at synchrotron beamlines. This is likely to open a new paradigm in serial synchrotron crystallography, by enhancing the signal to noise of the diffraction data and reducing the minimum exposure time. The increase in photon flux density at the sample position will interest most of the MX beamlines and it is going to be particularly effective for microfocus beamline such as ID23-2 and ID30A3. We plan to further develop different SSX data collection methods in the attempt to profit of the characteristic of the new beam and to extend the implementation of automated procedures to simplify the access to SSX methods for the MX community.
DOI: 10.15151/esrf-es-578178918
title: In2S3 nanoribbons formation mechanism probed by time resolved SAXS / WAXS

description: The aim of this proposal is to unravel the growth kinetics of non-toxic colloidal semi-conducting nanoplatelets, a material of current relevance for various fundamental and applicative standpoints using time-resolved small/wide angle X-ray scattering. Building on our expertise both in the synthesis of indium sulfide nanoplatelets using colloidal chemistry and in time-resolved synchrotron experiments, we will focus on the effect of water on the anisotropic growth of In2S3 nano-ribbons and discover mechanistic pathways which control lateral extension of these 2D materials. This will advance our understanding of nanoparticle synthesis in general by setting up design rules. The long-term objective is to enable the predictive synthesis of complex 2 dimensional nanomaterials with complex shapes and curvature.
DOI: 10.15151/esrf-es-582425948
title: Deciphering the molecular details of sialic acids metabolic pathways in live cells using click chemistry combined with X-ray fluorescence an

description: The main objective of the project is to obtain organelle level 2D/3D quantitative information on a targeted glycosylation pathway using new strategy based on bioorthogonal metal-based chemical reporter using metabolic oligosaccharide engineering, demonstrating the importance of combined X-ray fluorescence and X-ray phase contrast imaging to help deciphering the molecular details of oligosaccharides synthesis and biological behavior.
DOI: 10.15151/esrf-es-576758083
title: Impact of solvent layer, size, and ligand decoration on hydration shells around iron oxide nanoparticles

description: Recently, it was found that nanoparticles influence their liquid surroundings and that water restructures close to iron oxide nanoparticles of 7 nm in diameter. With this proposal we want to now study in detail how different parameters like e.g. particle size, ligand decoration, particle concentration and ageing influence the interfacial signal around iron oxide nanoparticles. For instance, an improvement of our synthesis strategy now enables us to yield IONPs with diameters of only 5 nm, for which an impact of edges and corners is expected to stronger than for the 7 nm ones. Of special interest is further the difference between nanoparticles redispersed directly after synthesis and nanoparticles, which were freeze dried in between.
DOI: 10.6084/m9.figshare.16652584.v1
title: Supplementary Material for: Clinical Manifestations, Outcomes and Mortality Risk Factors of Atrial-Esophageal Fistula：A Systematic Review

description: Medicine
DOI: 10.6084/m9.figshare.16652584
title: Supplementary Material for: Clinical Manifestations, Outcomes and Mortality Risk Factors of Atrial-Esophageal Fistula：A Systematic Review

description: Medicine
DOI: 10.25345/c52865
title: MassIVE MSV000088454 - Acetylproteomics analyses reveal critical features of lysine-epsilon-acetylation in Arabidopsis and a role of 14-3-3 protein acetylation in alkaline response
title: Lysine-epsilon-acetylation (Kac) is a post-translational modification (PTM) that is critical for metabolic regulation and cell signaling in mammals. Here, proteins were extracted from five representative Arabidopsis organs and digested by trypsin, and the acetylated peptides were enriched by anti-acetyllysine antibody. The enriched peptides were analyzed using LC-MS/MS.
DOI: 10.5281/zenodo.5728009
title: Earthquake Scenario Loss Testing Repository

description: This repository provides a set of OpenQuake-engine input files required to run past earthquake scenarios for the testing of risk models. These scenarios can be run using either earthquake rupture models or ShakeMaps.
DOI: 10.5281/zenodo.5728726
title: Calcium channel model

description: This dataset contains two data tables, include "channel_model.mat", "U_potential_3D_e(60).mat". The first data table is used to construct 2D and 3D calcium channel models. The model is constructed based on the model in the Ref. (Corry et al., 2001). The second data table gives the potential distribution in 3D calcium ion channels for Brownian dynamics calculation of ion transport in calcium ion channels.
description: {"references": ["Corry, B., Allen, T.W., Kuyucak, S., and Chung, S.H. (2001). Mechanisms of Permeation and Selectivity in Calcium Channels. Biophys J 80, 195-214. https://doi.org/10.1016/S0006-3495(01)76007-9."]}
DOI: 10.5281/zenodo.5728725
title: Calcium channel model

description: This dataset contains two data tables, include "channel_model.mat", "U_potential_3D_e(60).mat". The first data table is used to construct 2D and 3D calcium channel models. The model is constructed based on the model in the Ref. (Corry et al., 2001). The second data table gives the potential distribution in 3D calcium ion channels for Brownian dynamics calculation of ion transport in calcium ion channels.
description: {"references": ["Corry, B., Allen, T.W., Kuyucak, S., and Chung, S.H. (2001). Mechanisms of Permeation and Selectivity in Calcium Channels. Biophys J 80, 195-214. https://doi.org/10.1016/S0006-3495(01)76007-9."]}
DOI: 10.6084/m9.figshare.17085470
title: Supplementary Material for: Drug Use Changes at the Individual Level: Results from a Longitudinal, Multisite Survey in Young Europeans Frequenting the Nightlife Scene

description: <b><i>Background:</i></b> Monitoring emerging trends in the increasingly dynamic European drug market is vital; however, information on change at the individual level is scarce. In the current study, we investigated changes in drug use over 12 months in European nightlife attendees. <b><i>Method:</i></b> In this longitudinal online survey, changes in substances used, use frequency in continued users, and relative initiation of use at follow-up were assessed for 20 different substances. To take part, participants had to be aged 18–34 years; be from Belgium, Italy, the Netherlands, Sweden, or the UK; and have attended at least 6 electronic music events in the past 12 months at baseline. Of 8,045 volunteers at baseline, 2,897 completed the survey at both time points (36% follow-up rate), in 2017 and 2018. <b><i>Results:</i></b> The number of people using ketamine increased by 21% (<i>p</i> &lt; 0.001), and logarithmized frequency of use in those continuing use increased by 15% (<i>p</i> &lt; 0.001; 95% CI: 0.07–0.23). 4-Fluoroamphetamine use decreased by 27% (<i>p</i> &lt; 0.001), and logarithmized frequency of use in continuing users decreased by 15% (<i>p</i> &lt; 0.001, 95% CI: −0.48 to −0.23). The drugs with the greatest proportion of relative initiation at follow-up were synthetic cannabinoids (73%, <i>N</i> = 30), mephedrone (44%, <i>N</i> = 18), alkyl nitrites (42%, <i>N</i> = 147), synthetic dissociatives (41%, <i>N</i> = 15), and prescription opioids (40%, <i>N</i> = 48). <b><i>Conclusions:</i></b> In this European nightlife sample, ketamine was found to have the biggest increase in the past 12 months, which occurred alongside an increase in frequency of use in continuing users. The patterns of uptake and discontinuation of alkyl nitrates, novel psychoactive substances, and prescription opioids provide new information that has not been captured by existing cross-sectional surveys. These findings demonstrate the importance of longitudinal assessments of drug use and highlight the dynamic nature of the European drug landscape.
DOI: 10.6084/m9.figshare.17085470.v1
title: Supplementary Material for: Drug Use Changes at the Individual Level: Results from a Longitudinal, Multisite Survey in Young Europeans Frequenting the Nightlife Scene

description: <b><i>Background:</i></b> Monitoring emerging trends in the increasingly dynamic European drug market is vital; however, information on change at the individual level is scarce. In the current study, we investigated changes in drug use over 12 months in European nightlife attendees. <b><i>Method:</i></b> In this longitudinal online survey, changes in substances used, use frequency in continued users, and relative initiation of use at follow-up were assessed for 20 different substances. To take part, participants had to be aged 18–34 years; be from Belgium, Italy, the Netherlands, Sweden, or the UK; and have attended at least 6 electronic music events in the past 12 months at baseline. Of 8,045 volunteers at baseline, 2,897 completed the survey at both time points (36% follow-up rate), in 2017 and 2018. <b><i>Results:</i></b> The number of people using ketamine increased by 21% (<i>p</i> &lt; 0.001), and logarithmized frequency of use in those continuing use increased by 15% (<i>p</i> &lt; 0.001; 95% CI: 0.07–0.23). 4-Fluoroamphetamine use decreased by 27% (<i>p</i> &lt; 0.001), and logarithmized frequency of use in continuing users decreased by 15% (<i>p</i> &lt; 0.001, 95% CI: −0.48 to −0.23). The drugs with the greatest proportion of relative initiation at follow-up were synthetic cannabinoids (73%, <i>N</i> = 30), mephedrone (44%, <i>N</i> = 18), alkyl nitrites (42%, <i>N</i> = 147), synthetic dissociatives (41%, <i>N</i> = 15), and prescription opioids (40%, <i>N</i> = 48). <b><i>Conclusions:</i></b> In this European nightlife sample, ketamine was found to have the biggest increase in the past 12 months, which occurred alongside an increase in frequency of use in continuing users. The patterns of uptake and discontinuation of alkyl nitrates, novel psychoactive substances, and prescription opioids provide new information that has not been captured by existing cross-sectional surveys. These findings demonstrate the importance of longitudinal assessments of drug use and highlight the dynamic nature of the European drug landscape.
DOI: 10.5281/zenodo.5728829
title: msd-errors - Data for variance and covariance figure

description: Data for a figure that presents the variance and covariance for a true random walk. There is a comparison shown between the numerical result from 1024 unique random walks and the analysis, by kinisi, of the same 1024 random walks.<br><br>Created using showyourwork from this GitHub repo.
DOI: 10.15468/3w8p4j
title: Two new species and one new record of Hyalopsora (Pucciniastraceae) on ferns in China

description: This dataset contains the digitized treatments in Plazi based on the original journal article Wang, Lei, Liu, Shi-Tong, Liu, Yun, Liang, Ying-Mei (2021): Two new species and one new record of Hyalopsora (Pucciniastraceae) on ferns in China. Phytotaxa 527 (1): 41-50, DOI: 10.11646/phytotaxa.527.1.4
DOI: 10.6084/m9.figshare.17085485
title: Gene Expression Data

description: Phosphorus-stress and drought-stress are common abiotic stresses for wheat. This study constructed GeneChip of wheat seedling roots using two winter wheat with contrasting drought tolerance and phosphorus utilization efficiency. They were treated with drought stress under conventional–phosphorus level (CP: 1.0 mmol/L) and low-phosphorus levels (LP: 0.05 mmol /L), respectively. Then they were used for physiological detection after 7 days of drought. Finally, five probes were randomly selected to detect relative expression levels. The objective of the present study was to increase the information about the effect of drought on the gene expression characteristics of wheat root cultured by two phosphorus levels.