cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.21158905.v1
title: Benchmark data comparison DFT vs TB3

description: detailed data in support of https://github.com/usnistgov/ThreeBodyTB.jl/ https://arxiv.org/abs/2112.11585 <br> Contains comparison of DFT and tight binding for elastic and band structure data, as well at atomization energies.
DOI: 10.6084/m9.figshare.9963620.v1
title: Data for article "the vaporous water on the seafloor: evidence from in situ detection"

description: <b>Data Set S1 </b>and<b> Data Set S2 </b>display the <i>in situ</i> temperature and Raman spectra raw data of Yokosuka site hydrothermal fluids. <b>Movie S1 </b>shows the shimmering water observed in Yokosuka site by ROV. And <b>Movie S2 </b>displays the detection process implemented in Yokosuka site.
DOI: 10.17632/g8zbgt7jz9
title: Emotional priming for sustainable consumption? The effects of social media content on the valuation of chocolate

description: The uploaded data set and do files accompany the paper Liza von Grafenstein, Sarah Iweala, Stefan Pahl, Anette Ruml, Emotional priming for sustainable consumption? The effects of social media content on the valuation of chocolate, Q Open, Volume 5, Issue 1, 2025, qoaf003, https://doi.org/10.1093/qopen/qoaf003
DOI: 10.6084/m9.figshare.5128036.v1
title: Supplementary Material for: Dietary Elimination of Soybean Components Enhances Allergic Immune Response to Peanuts in BALB/c Mice

description: <b><i>Background:</i></b> Food allergy research is hampered by a lack of animal models that consistently mimic human food allergic responses. Laboratory mice are generally fed grain-based chow made with large amounts of soybeans rich in immunomodulatory isoflavones. We tested the role of dietary soy components in the induction of food allergic responses in the BALB/c mouse strain, which is known to be resistant to anaphylaxis when orally challenged by food allergens. <b><i>Methods:</i></b> Mice were fed a soy-free diet for 2 generations. After weaning, mice were maintained on the same diet or fed a diet containing soy isoflavones, i.e. genistein and daidzein, followed by weekly oral sensitizations with crude peanut extract plus cholera toxin and finally challenged at week 7. The anaphylactic symptoms, body temperature, peanut-specific antibodies and mast cell degranulation were assessed. <b><i>Results:</i></b> Soy-free diet mice showed significantly higher anaphylactic symptom scores and mast cell degranulation after challenge and higher peanut-specific antibody levels than mice fed regular chow. Introduction of a regular soy diet or an isoflavone diet to soy-free diet mice significantly suppressed the allergic reactions compared to the soy-free diet. <b><i>Conclusion:</i></b> Rodent diet is an important variable and needs to be taken into consideration when designing experiments involving animal models. Our results indicate that elimination of soy components from the diet enhances peanut sensitization in BALB/c mice. In addition to serving as a valuable tool to mimic human food allergy, the dietary influence on the immune response could have far-reaching consequences in research involving animal models.
DOI: 10.6084/m9.figshare.7900427.v1
title: gVCF_HG01773

description: 1000 Genomes gVCF mapped to hs37d5 for HG01773. Complete collection: https://doi.org/10.6084/m9.figshare.c.4414307
DOI: 10.6084/m9.figshare.9255425.v3
title: The effect of ego depletion or mental fatigue on subsequent physical endurance performance: a meta-analysis

description: - Ego depletion and mental fatigue impair subsequent endurance performance- The duration of the depletion task doesn't predict the magnitude of impairment- The depletion effect is higher on isolation than whole-body tasks- The depletion effect is higher when the person-situation fit is low- This effect should not be seen only through the "fatigue" prism but also as "value"<br>
DOI: 10.6084/m9.figshare.20528295.v1
title: Data for: Ecosystem-based management outperforms species-focused stocking for enhancing fish populations

description: Original data and scripts accompanying the study: <br> Radinger J., Matern S., Klefoth T., Wolter C., Feldhege F., Monk C.T. and Arlinghaus R. (2023) <strong>Ecosystem-based management outperforms species-focused stocking for</strong> <strong>enhancing fish populations</strong>
DOI: 10.17632/t8nzb8yk88
title: ROI analysis

description: For analysis of ROIs change in size and intensity.
DOI: 10.6084/m9.figshare.14315066.v1
title: Supplementary Material for: Management of Significant Airway Bleeding during Robotic Assisted Bronchoscopy: A Tailored Approach

description: Robotic assisted bronchoscopy represents a major turning point in bronchoscopic history. The management strategies to address significant airway bleeding in this “robotic era” are not well documented, and further guidance is required. We present a case report that exemplifies our approach and management strategy using a combined and simultaneous flexible/robotic bronchoscopy if this complication is encountered.
DOI: 10.6084/m9.figshare.21437604.v1
title: Mohan_NatNeuro_2022_SampleData

description: Sample Data of Widefield imaging.
DOI: 10.17632/y2cvb5nvgn
title: Mapping the MHC class I spliced immunopeptidome of cancer cells

description: Fig. 1 (+ 2D GR-LCL) files: filteredSearchResults.xlsx. Listed are all peptides identified in the HCT116, HCC1143 and 2D GR-LCL MHC-I immunopeptidomes (spliced and non-spliced, 9-12mer sequences) with MS/MS scan numbers, retention times, mass characteristics and ion scores. Fig. 1C-E File: LyS-tryp_HCC1143_30KDa.RAW LysC/trypsin digestion of the HCC1143 protein sample (proteins &gt; 30kDa) measured by Q Exactive Orbitrap Fig. 3C Folder: HCC1143_mutation_cosmic_database Mutations of the HCC1143 cell line as reported in the Cosmic database (version 17/8/2016) files: Mutations_in_sampleWed Aug 17 16-37-54 2016.csv Mutations_in_sampleWed Aug 17 16-38-01 2016.csv Mutations_in_sampleWed Aug 17 16-38-09 2016.csv Mutations_in_sampleWed Aug 17 16-38-18 2016.csv Fig. 3C-E Folder: HCT116_mutation_cosmic_database Mutations of the HCT116 cell line as reported in the Cosmic database (version 17/8/2016) files: Mutations_in_sampleWed Aug 17 17-09-53 2016.csv Fig. S5 Folder: in_vitro_digestions files: RAW files of the in vitro digestions (with or without proteasome) of the synthetic polypeptides mutCHMP7 and mutRBBP7 (see Table S6) and the target synthetic peptides’ run. The MS/MS of the identified neoepitopes are shown in Fig. S5. In particular: - “synthetic_peptides.RAW” is a mix containing also the synthetic peptides CHMP7[A324T]_316-325 and RBBP7[N17D]_12-20 - “mutCHMP7_20h.RAW” is the digestion (20h) of the synthetic substrate mutCHMP7_312-330 with purified proteasome - “mutCHMP7_20h_no-proteasome.RAW” is the digestion (20h) of the synthetic substrate mutCHMP7_312-330 without purified proteasome - “mutRBBP7_20h.RAW” is the digestion (20h) of the synthetic substrate mutRBBP7_6-25 with purified proteasome - “mutRBBP7_20h_no-proteasome.RAW” is the digestion (20h) of the synthetic substrate mutRBBP7_6-25 without purified proteasome The scripts for the MHC-I spliced peptides’ database generation Folder: TourDeForce
DOI: 10.6084/m9.figshare.20472129.v1
title: Supplementary Material for: Mosaic GLUD1 mutations associated with hyperinsulinism hyperammonemia syndrome

description: Introduction: The hyperinsulinemia-hyperammonemia syndrome (HIHA) is the second most common cause of congenital hyperinsulinism and is caused by activating heterozygous missense mutations in GLUD1. In the majority of HIHA cases, the GLUD1 mutation is found to be de novo. We have identified three patients in whom clinical evaluation was suggestive of HIHA but with negative mutation analysis in peripheral blood DNA for GLUD1 as well as other known HI genes. Methods: We performed next-generation sequencing (NGS) on peripheral blood DNA from two children with clinical features of HIHA in order to look for mosaic mutations in GLUD1. Pancreas tissue was also available in one of these cases for NGS. In addition, NGS was performed on peripheral blood DNA from a woman with a history of HI in infancy whose child had HIHA due to a presumed de novo GLUD1 mutation. Results: Mosaic GLUD1 mutations were identified in these three cases at percent mosaicism ranging from 2.7% to 10.4% in peripheral blood. In one case with pancreas tissue available, the mosaic GLUD1 mutation was present at 17.9% and 28.9% in different sections of pancreas. Two unique GLUD1 mutations were identified in these cases, both of which have been previously reported (c.1493c&gt;t/p.Ser445Leu and c.820c&gt;t/p.Arg221Cys). Conclusion: The results suggest that low-level mosaic mutations in known HI genes may be the underlying molecular mechanism in some children with HI who have negative genetic testing in peripheral blood DNA.
DOI: 10.6084/m9.figshare.24629637.v3
title: Supplementary Information: An Ediacaran orogeny in subglacial East Antarctica is uncovered by detrital garnet geochronology

description: Supplementary data, notes, figures and tables related to this study. Supplementary Data 1 contains a list of all analysed samples and their locations and descriptions, Supplementary Data 2 contains (detrital) garnet Lu-Hf isotopic data, Supplementary Data 3 contains detrital zircon U-Pb data and Supplementary Data 4 contains major element compositions for the analysed (detrital) garnets. The Supplementary Information file includes Supplementary Note 1, Supplementary Table 1 and all Supplementary Figures.<br>
DOI: 10.6084/m9.figshare.5332186.v1
title: Mouse vaccination data

description: Mice data of comparison of infection vs vaccination in pff and nb
DOI: 10.6084/m9.figshare.22092778.v1
title: Anatomical characterization of black wattle wood for the pulp and paper production

description: ABSTRACT: The growing worldwide demand in the pulp market has fostered research that evaluates alternative fiber sources with specific characteristics that attend the needs of the consumer market, with a view to add value to the final product and reduce production costs. Acacia mearnsii De Wild wood is a by-product of the extraction of tannin from the trunk bark, used for firewood, charcoal and pellets. However, its wood is still poorly studied, especially its anatomical characteristics, which can provide important information about its industrial potential. This study evaluated the anatomical characteristics of Acacia mearnsii wood for the production of pulp and paper. Ten trees at approximately seven years old were cut down, five from the seed production area (SPA) and five from the clonal population area (CPA). From each tree, one trunk disc was sectioned at the diameter at breast height (DBH), resulting in 10 (ten) wood samples. From each disc, a sapwood specimen was made oriented in the tangential longitudinal, radial longitudinal and transversal planes, for later obtaining the anatomical cuts and the macerates. The anatomical description of the wood followed the recommendations of the International Association of Wood Anatomists-IAWA. From the dimensions of the fibers, their quality evaluation ratios for the production of pulp and paper were calculated. Results obtained from the anatomical characterization allowed to conclude that the Acacia mearnsii woods from SPA and CPA are indicated as a source of raw material for the pulp and paper production.
DOI: 10.6084/m9.figshare.13060562.v1
title: Supplementary Material for: The Efficacy and Safety of Topical β-Blockers in Treating Infantile Hemangiomas: A Meta-Analysis Including 11 Randomized Controlled Trials

description: <b><i>Background:</i></b> To evaluate the efficacy and safety of topical β-blockers in the treatment of superficial infantile hemangiomas (SIH) and mixed infantile hemangiomas (MIH), respectively, and compare the efficacy and safety of topical β-blockers with other interventions. <b><i>Methods:</i></b> The PRISMA guidelines were adhered to. We searched for randomized controlled trials in databases from 2010 to 2018 comparing topical β-blockers with other interventions for infantile hemangiomas. The outcomes evaluated were efficacy and adverse effects. Data analyses were performed using RevMan 5.3. Publication bias was assessed to account for bias in patient selection. <b><i>Results:</i></b> Eleven studies, involving 1,235 patients, were subjected to this meta-analysis. Six studies compared topical β-blockers with other interventions (propranolol, placebo, corticosteroids or pulsed dye laser) in treating SIH, and 5 studies evaluated the efficacy and safety of a topical β-blocker when it was combined with another intervention in treating MIH. A topical β-blocker was discovered to be as effective as oral propranolol in treating SIH (risk ratio, RR, 0.96, 95% confidence interval, CI, 0.91–1.02, <i>p</i> = 0.20, <i>I</i><sup>2</sup> = 0%), and topical β-blockers were more beneficial than placebo, corticosteroids or pulsed dye laser in treating SIH (RR 2.25, 95% CI 1.66–3.05, <i>p</i> &lt; 0.00001, <i>I</i><sup>2</sup> = 0%). Topical β-blockers combined with another intervention gave rise to a better clinical response in the treatment of MIH than intervention alone (RR 1.99, 95% CI 1.10–3.60, <i>p</i> = 0.02, <i>I</i><sup>2</sup> = 55%) (standard mean difference 0.80, 95% CI 0.28–1.31, <i>p</i> = 0.002, <i>I</i><sup>2</sup> = 0%). Compared with oral propranolol, topical β-blockers were associated with fewer incidences of adverse effects (RR 0.05, 95% CI 0.01–0.39, <i>p</i> = 0.004, <i>I</i><sup>2</sup> = 0%). No significant difference in adverse effects was found when a topical β-blocker was combined with another intervention in treating MIH (RR 1.01, 95% CI 0.58–1.74, <i>p</i> = 0.98, <i>I</i><sup>2</sup> = 0%). <b><i>Conclusions:</i></b> This meta-analysis provided evidence that topical β-blockers may replace oral propranolol as first-line therapy for SIH and that they are of additive value in treating MIH.
DOI: 10.6084/m9.figshare.19499102.v1
title: patches and local annotations, slide 200, zoom 248x248 um2

description: patches and local annotations: data for slide with ID of the last 3 characters of the file name: local annotations in csv format and a folder with patches at zoom level indicated at the 6th character of the file name
DOI: 10.6084/m9.figshare.21610437.v1
title: Primary Dataset

description: This file contains full transcriptions to all research interviews as well as responses to research questionnaire.
DOI: 10.17632/vv238m6wjh
title: Public subsidies have supported the development of electric trawling in Europe

description: In the 2000s, the Dutch beam trawl fleet was in chronic deficit and under pressure to reduce its environmental impact. Instead of converting to selective fishing gears, it successfully lobbied the European Commission with the support of public authorities and scientists to obtain derogations against formal scientific advice to practice a prohibited technique: electric trawling. Since then, electric trawling has expanded beyond regulatory threshold: 84 large trawlers now catch the vast majority of the Dutch flatfish quota, causing detrimental socio-environmental impacts. To assess whether the European Union's fisheries policies fulfilled legal objectives and implemented the 2030 Agenda, it appeared crucial to quantify how much public financial aid had been provided to the Dutch fishing sector for its conversion to electric trawling. The financial information enabling this evaluation was first concealed but was eventually obtained. We show that the institutional opacity surrounding electric trawling was not serendipitous and has served to dissimulate allocations of public monies to a prohibited fishing method (otter trawl), illegal licenses, and falsely 'scientific' fishing. In breach of EU laws, 20.8 million EUR of structural funds have so far been granted to this sector in the form of direct subsidies, i.e. over 30 times the amount acknowledged by the fishing industry. The findings presented here lift part of the veil surrounding electric trawling, but the complete reconstruction of the impacts of this fishing method can only be done when decision-makers and scientists disclose all data in full transparency and become the warrants of the public interest.
DOI: 10.6084/m9.figshare.24499705.v2
title: Database for validation of extremism scales and justification of violence and illegal acts. Spanish version

description: The objectives of this study are the validation and evaluation of the psychometric properties of the Spanish version of the scales of social extremism and the use of violence and illegal acts (Ozer and Beltelsen, 2018).ddd
DOI: 10.6084/m9.figshare.25109144.v1
title: Dataset 1

description: https://doi.org/10.1101/2023.03.17.533096
DOI: 10.6084/m9.figshare.22012421.v1
title: Raw Data of the impact of multiple drivers on ambient ozone.xlsx

description: Raw data of the impact of multiple drivers on ambient ozone by machine learning coupled structure mining method.
DOI: 10.6084/m9.figshare.5120500.v1
title: Supplementary Material for: Optimal DNA Pooling-Based Two-Stage Designs in Case-Control Association Studies

description: Study cost remains the major limiting factor for genome-wide association studies due to the necessity of genotyping a large number of SNPs for a large number of subjects. Both DNA pooling strategies and two-stage designs have been proposed to reduce genotyping costs. In this study, we propose a cost-effective, two-stage approach with a DNA pooling strategy. During stage I, all markers are evaluated on a subset of individuals using DNA pooling. The most promising set of markers is then evaluated with individual genotyping for all individuals during stage II. The goal is to determine the optimal parameters (π<sup>p</sup><sub><i>sample </i></sub>, the proportion of samples used during stage I with DNA pooling; and π<sup>p</sup><sub><i>marker </i></sub>, the proportion of markers evaluated during stage II with individual genotyping) that minimize the cost of a two-stage DNA pooling design while maintaining a desired overall significance level and achieving a level of power similar to that of a one-stage individual genotyping design. We considered the effects of three factors on optimal two-stage DNA pooling designs. Our results suggest that, under most scenarios considered, the optimal two-stage DNA pooling design may be much more cost-effective than the optimal two-stage individual genotyping design, which use individual genotyping during both stages.
DOI: 10.17632/n6sjfdvp6j
title: Data for: COMPARISON OF THE SIGMOID TAKE-OFF WITH OTHER DEFINITIONS OF THE RECTOSIGMOID JUNCTION: A RETROSPECTIVE COHORT ANALYSIS

description: Raw data
DOI: 10.6084/m9.figshare.7177907.v3
title: Capital-State Index

description: Capital-state index (CSI)35 OECD countries36 years (1980-2015)
DOI: 10.17632/2587f727rh
title: Data for: Do Expert Surveys Underrate Lower-Income Countries?

description: halo_rd and halo_educ are Stata files containing the data used for the regression tables; figrddata, fig3data, and fig4data were used to generate the figures in R/ggplot2. (rrrrcode.txt contains the replication code for tables and figures alike.)
DOI: 10.6084/m9.figshare.28054269.v1
title: Data of measurements of hind limb segments of bipedal dinosaurs from Cursorial ecomorphology and temporal patterns in theropod dinosaur evolution during the mid-Cretaceous

description: CSV file contains measurements of hind limb elements, FAD, LAD, and state of foot morphology
DOI: 10.6084/m9.figshare.6078734.v2
title: DATA RAW DESCRIPTION.xlsx

description: These 2 files contained the data used to run the analyses of the manuscript entitled 'A global analysis of terrestrial plant litter dynamics in non-perennial waterways". <br><br>One file contains the raw data, the other the description of each variable. For more information, see the full manuscript.<br><b></b><br><br>
DOI: 10.6084/m9.figshare.16870861.v1
title: TestSet

description: Test Dataset for ViTMag model.
DOI: 10.6084/m9.figshare.5903848.v1
title: Supplementary Material for: Anti- Versus Pro-Inflammatory Metabololipidome Upon Cupping Treatment

description: <b><i>Background/Aims:</i></b> This study aimed to explore the metabololipidome in mice upon cupping treatment. <b><i>Methods:</i></b> A nude mouse model mimicking the cupping treatment in humans was established by administrating four cupping sets on the back skin for 15 minutes. UPLC-MS/ MS was performed to determine the PUFA metabolome in mice skin and blood before and after cupping treatment. The significantly changed lipids were administered in macrophages to assess the production of pro-inflammatory cytokines IL-6 and TNF-α by ELISA. <b><i>Results:</i></b> The anti-inflammatory lipids, <i>e.g</i>. PGE<sub>1</sub>, 5,6-EET, 14,15-EET, 10S,17S-DiHDoHE, 17R-RvD1, RvD5 and 14S-HDoHE were significantly increased while pro-inflammatory lipids, <i>e.g</i>. 12-HETE and TXB<sub>2</sub> were deceased in the skin or plasma post cupping treatment. Cupping treatment reversed the LPS-stimulated IL-6 and TNF-α expression in mouse peritoneal exudates. Moreover, 5,6-EET, PGE<sub>1</sub> decreased the level of TNF-α, while 5,6-EET, 5,6-DHET downregulated IL-6 production in macrophages. Importantly, 14,15-EET and 14S-HDoHE inhibited both IL-6 and TNF-α induced by lipopolysaccharide (LPS). 17-RvD1, RvD5 and PGE<sub>1</sub> significantly reduced the LPS-initiated TNF-α, while TXB<sub>2</sub> and 12-HETE further upregulated the LPS-enhanced IL-6 and TNF-α expression in macrophages. <b><i>Conclusion:</i></b> Our results reveal the identities of anti-inflammatory <i>versus</i> pro-inflammatory metabolipidome and suggest the potential therapeutic mechanism of cupping treatment.
DOI: 10.6084/m9.figshare.21377907.v1
title: Supplementary Material for: MCPIP-1-Mediated Immunosuppression of Neutrophils Exacerbates Acute Bacterial Peritonitis and Liver Injury

description: Monocyte chemotactic protein-1-induced protein-1 (MCPIP-1) is highly expressed in activated immune cells and negatively regulates immune responses, while the mechanisms underlying the immunoregulation of neutrophils in acute bacterial infection and liver injury remain elusive. Here, we examined the role of MCPIP-1 in regulating neutrophil functions during acute bacterial peritonitis and liver injury. Mice with myeloid cell-specific overexpression (<i>Mcpip</i><sup>Mye-tg</sup>) or knockout (<i>Mcpip</i><sup>ΔMye</sup>) of MCPIP-1 were generated. We found that reactive oxygen species and myeloperoxidase production, formation of neutrophil extracellular traps, and migratory capacity were deficient in <i>Mcpip</i><sup>Mye-tg</sup> neutrophils but enhanced in <i>Mcpip</i><sup>ΔMye</sup> neutrophils. The recruitment of neutrophils and pathogen clearance were markedly suppressed in <i>Mcpip</i><sup>Mye-tg</sup> mice following intraperitoneal infection with <i>Salmonella typhimurium</i> while intensified in <i>Mcpip</i><sup>ΔMye</sup> mice. Severe acute <i>S. typhimurium</i>-infected peritonitis and liver injury occurred in <i>Mcpip</i><sup>Mye-tg</sup> mice but were alleviated in <i>Mcpip</i><sup>ΔMye</sup> mice. RNA sequencing, RNA-binding protein immunoprecipitation and qPCR analysis revealed that MCPIP-1 downregulated the protective functions of neutrophils via degrading the mRNA of cold inducible RNA-binding protein. Consistently, MCPIP-1 was highly expressed in neutrophils of patients with acute infectious diseases, especially in those with liver injury. Collectively, we uncover that MCPIP-1 negatively regulates the antibacterial capacities of neutrophils, leading to exacerbating severe acute bacterial peritonitis and liver injury. It may serve as a candidate target for maintaining neutrophil homeostasis to control acute infectious diseases.
DOI: 10.6084/m9.figshare.7699592.v1
title: Source data and statistics

description: Human cardiac muscle homogenates preparation and measurement of mitochondrial functions using High Resolution respirometry