cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.3754257
title: FUNZIP-PhasedDiploidAssemblies.tgz

description: Assembly Results<br>
DOI: 10.6084/m9.figshare.3754257.v1
title: FUNZIP-PhasedDiploidAssemblies.tgz

description: Assembly Results<br>
DOI: 10.6084/m9.figshare.3753909
title: stl file. New Bathonian (Middle Jurassic) sauropod remains from the Valtos Formation, Isle of Skye, Scotland

description: Surface models of the sauropod footprint from the Valtos Formation produced using Agisoft Photoscan software
DOI: 10.6084/m9.figshare.3753909.v1
title: stl file. New Bathonian (Middle Jurassic) sauropod remains from the Valtos Formation, Isle of Skye, Scotland

description: Surface models of the sauropod footprint from the Valtos Formation produced using Agisoft Photoscan software
DOI: 10.6084/m9.figshare.3753906
title: ply file. New Bathonian (Middle Jurassic) sauropod remains from the Valtos Formation, Isle of Skye, Scotland

description: Surface models of the sauropod footprint from the Valtos Formation produced using Agisoft Photoscan software
DOI: 10.6084/m9.figshare.3753903
title: obj file. New Bathonian (Middle Jurassic) sauropod remains from the Valtos Formation, Isle of Skye, Scotland

description: Surface models of the sauropod footprint from the Valtos Formation produced using Agisoft Photoscan software
DOI: 10.6084/m9.figshare.3753906.v1
title: ply file. New Bathonian (Middle Jurassic) sauropod remains from the Valtos Formation, Isle of Skye, Scotland

description: Surface models of the sauropod footprint from the Valtos Formation produced using Agisoft Photoscan software
DOI: 10.6084/m9.figshare.3753903.v1
title: obj file. New Bathonian (Middle Jurassic) sauropod remains from the Valtos Formation, Isle of Skye, Scotland

description: Surface models of the sauropod footprint from the Valtos Formation produced using Agisoft Photoscan software
DOI: 10.6084/m9.figshare.3753834
title: Immediate versus delayed prostatectomy: Nationwide population-based study<sup>*</sup>

description: <b>Objective</b>: The aim of this study was to compare the outcome of immediate versus delayed radical prostatectomy (RP) in men with low-grade prostate cancer. <b>Materials and methods</b>: The study included a nationwide population-based cohort in the National Prostate Cancer Register of Sweden, of 7608 men with clinically localized, biopsy Gleason score 6 prostate cancer who underwent immediate or delayed RP in 1997–2007. Multivariable models compared RP pathology, use of salvage radiotherapy and prostate cancer mortality based on timing of RP (2 years after diagnosis). Median follow-up was 8.1 years. <b>Results</b>: Men undergoing RP more than 2 years after diagnosis had a higher risk of Gleason upgrading [odds ratio 2.93, 95% confidence interval (CI) 2.34–3.68] and an increased risk of salvage radiotherapy [hazard ratio (HR) 1.90, 95% CI 1.41–2.55], but no significant increase in prostate cancer-specific mortality (HR 1.85, 95% CI 0.57–5.99). In competing risk analysis, 7 year prostate cancer-specific cumulative mortality was similar, at less than 1%, for immediate RP and active surveillance regardless of later intervention. Limitations of this study include the lack of data on follow-up biopsies and the limited follow-up time. <b>Conclusion</b>: Men undergoing RP more than 2 years after diagnosis had more adverse pathological features and second line therapy, highlighting the trade-off in deferring immediate curative therapy. However, men with delayed RP constitute a minority with higher risk cancer among the much larger group of low-risk men initially surveilled, and the overall risk of prostate cancer mortality at 7 years was similarly low with immediate RP or active surveillance.
DOI: 10.6084/m9.figshare.3753834.v1
title: Immediate versus delayed prostatectomy: Nationwide population-based study<sup>*</sup>

description: <b>Objective</b>: The aim of this study was to compare the outcome of immediate versus delayed radical prostatectomy (RP) in men with low-grade prostate cancer. <b>Materials and methods</b>: The study included a nationwide population-based cohort in the National Prostate Cancer Register of Sweden, of 7608 men with clinically localized, biopsy Gleason score 6 prostate cancer who underwent immediate or delayed RP in 1997–2007. Multivariable models compared RP pathology, use of salvage radiotherapy and prostate cancer mortality based on timing of RP (2 years after diagnosis). Median follow-up was 8.1 years. <b>Results</b>: Men undergoing RP more than 2 years after diagnosis had a higher risk of Gleason upgrading [odds ratio 2.93, 95% confidence interval (CI) 2.34–3.68] and an increased risk of salvage radiotherapy [hazard ratio (HR) 1.90, 95% CI 1.41–2.55], but no significant increase in prostate cancer-specific mortality (HR 1.85, 95% CI 0.57–5.99). In competing risk analysis, 7 year prostate cancer-specific cumulative mortality was similar, at less than 1%, for immediate RP and active surveillance regardless of later intervention. Limitations of this study include the lack of data on follow-up biopsies and the limited follow-up time. <b>Conclusion</b>: Men undergoing RP more than 2 years after diagnosis had more adverse pathological features and second line therapy, highlighting the trade-off in deferring immediate curative therapy. However, men with delayed RP constitute a minority with higher risk cancer among the much larger group of low-risk men initially surveilled, and the overall risk of prostate cancer mortality at 7 years was similarly low with immediate RP or active surveillance.
DOI: 10.6084/m9.figshare.3753810
title: Mental distress and self-perceived wealth, justice and freedom across eight countries: The invisible power of the macrosystem

description: This data set comprises the data used for all analyses in the manuscript "Mental distress and self-perceived wealth, justice and freedom across eight countries: The invisible power of the macrosystem." The goal of this exploratory study was to investigate the relationship between perceived macro-level factors (wealth, justice and freedom) and mental distress. For that reason symptoms of depression, anxiety and stress as well as self-perceived wealth, justice and freedom were assessed in population-based surveys in Spain, France, Germany, Poland, Russia, Sweden, the United Kingdom and the United States of America. <br>
DOI: 10.6084/m9.figshare.3753786
title: Supplementary Material for: Real-Time Sexing of Chicken Embryos and Compatibility with in ovo Protocols

description: The chicken embryo is an established model system for studying early vertebrate development. One of the major advantages of this model is the facility to perform manipulations in ovo and then continue incubation and observe the effects on embryonic development. However, in common with other vertebrate models, there is a tendency to disregard the sex of the experimental chicken embryos, and this can lead to erroneous conclusions, a lack of reproducibility, and wasted efforts. That this neglect is untenable is emphasised by the recent demonstration that avian cells and tissues have an inherent sex identity and that male and female tissues respond differently to the same stimulus. These sexually dimorphic characteristics dictate that analyses and manipulations involving chicken embryos should always be performed using tissues/embryos of known sex. Current sexing protocols are unsuitable in many instances because of the time constraints imposed by most in ovo procedures. To address this lack, we have developed a real-time chicken sexing assay that is compatible with in ovo manipulations, reduces the number of embryos required, and conserves resources.
DOI: 10.6084/m9.figshare.3753786.v1
title: Supplementary Material for: Real-Time Sexing of Chicken Embryos and Compatibility with in ovo Protocols

description: The chicken embryo is an established model system for studying early vertebrate development. One of the major advantages of this model is the facility to perform manipulations in ovo and then continue incubation and observe the effects on embryonic development. However, in common with other vertebrate models, there is a tendency to disregard the sex of the experimental chicken embryos, and this can lead to erroneous conclusions, a lack of reproducibility, and wasted efforts. That this neglect is untenable is emphasised by the recent demonstration that avian cells and tissues have an inherent sex identity and that male and female tissues respond differently to the same stimulus. These sexually dimorphic characteristics dictate that analyses and manipulations involving chicken embryos should always be performed using tissues/embryos of known sex. Current sexing protocols are unsuitable in many instances because of the time constraints imposed by most in ovo procedures. To address this lack, we have developed a real-time chicken sexing assay that is compatible with in ovo manipulations, reduces the number of embryos required, and conserves resources.
DOI: 10.6084/m9.figshare.3753759
title: Spatial Scaling of the Profile of Selective Attention in the Visual Field

description: Datasets for Gannon, Knapp, Adams, Long, & Parks (2016)
DOI: 10.6084/m9.figshare.3753759.v1
title: NTA2_20.eeg

description: Datasets for Gannon, Knapp, Adams, Long, & Parks (2016)
DOI: 10.6084/m9.figshare.3753759.v3
title: Spatial Scaling of the Profile of Selective Attention in the Visual Field

description: Datasets for Gannon, Knapp, Adams, Long, & Parks (2016)
DOI: 10.6084/m9.figshare.3753759.v2
title: NTA2_20.eeg

description: Datasets for Gannon, Knapp, Adams, Long, & Parks (2016)
DOI: 10.6084/m9.figshare.3753756
title: Supplementary Material for: TNFα Augments Cytokine-Induced NK Cell IFNγ Production through TNFR2

description: NK cells play a central role in innate immunity, acting directly through cell-mediated cytotoxicity and by secreting cytokines. TNFα activation of TNFR2 enhances NK cell cytotoxicity, but its effects on the other essential function of NK cells - cytokine production, for which IFNγ is paramount - are poorly defined. We identify the expression of both TNFα receptors on human peripheral blood NK cells (TNFR2 &gt; TNFR1) and show that TNFα significantly augments IFNγ production from IL-2-/IL-12-treated NK cells in vitro, an effect mimicked by a TNFR2 agonistic antibody. TNFα also enhanced murine NK cell IFNγ production via TNFR2 in vitro. In a mouse model characterized by the hepatic recruitment and activation of NK cells, TNFR2 also regulated NK cell IFNγ production in vivo. Specifically, in this model, after activation of an innate immune response, hepatic numbers of TNFR2-expressing and IFNγ-producing NK cells were both significantly increased; however, the frequency of IFNγ-producing hepatic NK cells was significantly reduced in TNFR2-deficient mice. We delineate an important role for TNFα, acting through TNFR2, in augmenting cytokine-induced NK cell IFNγ production in vivo and in vitro, an effect with significant potential implications for the regulation of innate and adaptive immune responses.
DOI: 10.6084/m9.figshare.3753612
title: Effect of interferon-β1α therapy on multiple sclerosis based on gadolinium-enhancing or active T2 magnetic resonance imaging outcomes: a meta-analysis

description: <b>Objectives:</b> Interferon-beta1alpha (IFN-β1α) is widely used to modify the course of relapsing-remitting multiple sclerosis. However, many patients have relapses. The purpose of this study was to evaluate magnetic resonance imaging (MRI) as a predictor of IFN-β1α treatment efficacy in patients with MS. <b>Methods:</b> PubMed, Embase, and the Cochrane Library were searched to identify eligible studies. Manual searches were also conducted. All eligible trials included MS patients who received IFN-β1α based on gadolinium-enhancing or active T2 MRI lesions for determination of relapse rates. <b>Results:</b> Of 499 identified studies, we included 10 trials reporting data on 6,037 MS patients. IFN-β1α therapy significantly reduced the risk of relapse (RR: 0.87; 95% confidence intervals (CI): 0.76–0.99; <i>p</i> = 0.032). Furthermore, baseline median T2 lesion volume was found to be related to IFN-β1α therapy and relapse (<i>p</i> = 0.018). Subgroup analysis suggested that IFN-β1α therapy was associated with reduced risk of relapse (RR: 0.82; 95%CI: 0.71–0.94; <i>p</i> = 0.005 versus placebo). However, there was no significant difference in the risk of relapse compared to treatment with low dose IFN-β1α (RR: 0.93; 95%CI: 0.80–1.08; <i>p</i> = 0.337) or glatiramer acetate (RR: 0.93; 95%CI: 0.77–1.14; <i>p</i> = 0.506). Finally, IFN-β1α therapy significantly increased the risk of injection-site disorders, influenza-like syndrome, and alanine transferase elevation. <b>Discussion:</b> Effects of IFN-β1α therapy are associated with a statistically significant impact on baseline median T2 lesion volume. However, the safety outcomes are significantly worse in patients who receive IFN-β1α therapy.
DOI: 10.6084/m9.figshare.3753612.v1
title: Effect of interferon-β1α therapy on multiple sclerosis based on gadolinium-enhancing or active T2 magnetic resonance imaging outcomes: a meta-analysis

description: <b>Objectives:</b> Interferon-beta1alpha (IFN-β1α) is widely used to modify the course of relapsing-remitting multiple sclerosis. However, many patients have relapses. The purpose of this study was to evaluate magnetic resonance imaging (MRI) as a predictor of IFN-β1α treatment efficacy in patients with MS. <b>Methods:</b> PubMed, Embase, and the Cochrane Library were searched to identify eligible studies. Manual searches were also conducted. All eligible trials included MS patients who received IFN-β1α based on gadolinium-enhancing or active T2 MRI lesions for determination of relapse rates. <b>Results:</b> Of 499 identified studies, we included 10 trials reporting data on 6,037 MS patients. IFN-β1α therapy significantly reduced the risk of relapse (RR: 0.87; 95% confidence intervals (CI): 0.76–0.99; <i>p</i> = 0.032). Furthermore, baseline median T2 lesion volume was found to be related to IFN-β1α therapy and relapse (<i>p</i> = 0.018). Subgroup analysis suggested that IFN-β1α therapy was associated with reduced risk of relapse (RR: 0.82; 95%CI: 0.71–0.94; <i>p</i> = 0.005 versus placebo). However, there was no significant difference in the risk of relapse compared to treatment with low dose IFN-β1α (RR: 0.93; 95%CI: 0.80–1.08; <i>p</i> = 0.337) or glatiramer acetate (RR: 0.93; 95%CI: 0.77–1.14; <i>p</i> = 0.506). Finally, IFN-β1α therapy significantly increased the risk of injection-site disorders, influenza-like syndrome, and alanine transferase elevation. <b>Discussion:</b> Effects of IFN-β1α therapy are associated with a statistically significant impact on baseline median T2 lesion volume. However, the safety outcomes are significantly worse in patients who receive IFN-β1α therapy.
DOI: 10.6084/m9.figshare.3753597
title: Pollen morphology of species of <i>Cissus</i> (Vitaceae): an evaluation of ornamentation

description: <i>Cissus</i> (Vitaceae) occurs naturally in all states of Brazil and others countries of South America. This work was realized out the analysis of morphological characteristics of pollen of 30 Brazilian species. The pollen grains were processed with lactic acetolysis method to be measured, described and illustrated in light microscopy and non-acetolysed for analysis in scanning electron microscopy. Statistically the species were identified using principal component analysis (PCA) and hierarchical cluster analysis (HCA). As a result it was observed that pollen grains are medium in most species, 3-colporate. The ornamentation of the sexine varied and was an important character in the delimitation of species. We was concluded that the attributes of pollen distinguish most of the taxa of the genus, thus confirming the heterogeneity of pollen. It is hoped that his study contributes to a better understanding of the taxonomy of the genus and provides data for future phylogenetic analysis.
DOI: 10.6084/m9.figshare.3753597.v1
title: Pollen morphology of species of <i>Cissus</i> (Vitaceae): an evaluation of ornamentation

description: <i>Cissus</i> (Vitaceae) occurs naturally in all states of Brazil and others countries of South America. This work was realized out the analysis of morphological characteristics of pollen of 30 Brazilian species. The pollen grains were processed with lactic acetolysis method to be measured, described and illustrated in light microscopy and non-acetolysed for analysis in scanning electron microscopy. Statistically the species were identified using principal component analysis (PCA) and hierarchical cluster analysis (HCA). As a result it was observed that pollen grains are medium in most species, 3-colporate. The ornamentation of the sexine varied and was an important character in the delimitation of species. We was concluded that the attributes of pollen distinguish most of the taxa of the genus, thus confirming the heterogeneity of pollen. It is hoped that his study contributes to a better understanding of the taxonomy of the genus and provides data for future phylogenetic analysis.
DOI: 10.6084/m9.figshare.3753594
title: Eave tubes for malaria control in Africa: initial development and semi-field evaluations in Tanzania.

description: Data associated with: Sternberg, E.D., Ng'Habi, K.R., Lyimo, I.N., Kessy, S.T., Farenhorst, M., Thomas, M.B., Knols, B.G.J., Mnoyne, L.L. (2016) Eave tubes for malaria control in Africa: initial development and semi-field evaluations in Tanzania. <i>Malaria Journal</i>. <br>Height_ET.csv: Mosquito recapture numbers after overnight release-recapture testing eave tubes treated with bendiocarb and placed at different heights. <br>Diameter_ET.csv: Mosquito recapture numbers after overnight release-recapture testing eave tubes of different diameters treated with bendiocarb. <br>Orientation_ET.csv: Mosquitoes captured in bendiocarb-treated traps placed on the ends of eave tubes at different angles relative to the inside of the house. <br>Testing actives.csv: Mosquito recapture numbers after overnight release-recapture testing eave tubes treated with different actives.<br>Testing fungus.csv: Daily survival for mosquitoes recaptured after overnight release-recapture testing eave tubes treated with fungus (mixed with silica powder). <br>Eave tubes vs LLIN_2a.csv: Recapture numbers for overnight release-recapture experiment testing eave tubes with bendiocarb-treated netting, eave tubes with LLIN material and eave tubes with untreated netting. Eave tubes vs LLIN_2b.csv: Recapture numbers for overnight release-recapture experiment testing eave tubes with bendiocarb-treated netting, an intact LLIN, and an intact untreated bed net. <br>larvae_modvill.csv: Larval population sizes for the self-sustaining mosquito population, based on larval dips. <br>adults_modvill.csv: Adult mosquitoes, captured indoors using Human Landing Catches during peak biting hours. <br><br>
DOI: 10.5281/zenodo.4013904
title: Font dataset from training VAEs

description: https://erikbern.com/2016/01/21/analyzing-50k-fonts-using-deep-neural-networks.html
DOI: 10.6084/m9.figshare.3753594.v1
title: Eave tubes for malaria control in Africa: initial development and semi-field evaluations in Tanzania.

description: Data associated with: Sternberg, E.D., Ng'Habi, K.R., Lyimo, I.N., Kessy, S.T., Farenhorst, M., Thomas, M.B., Knols, B.G.J., Mnoyne, L.L. (2016) Eave tubes for malaria control in Africa: initial development and semi-field evaluations in Tanzania. <i>Malaria Journal</i>. <br>Height_ET.csv: Mosquito recapture numbers after overnight release-recapture testing eave tubes treated with bendiocarb and placed at different heights. <br>Diameter_ET.csv: Mosquito recapture numbers after overnight release-recapture testing eave tubes of different diameters treated with bendiocarb. <br>Orientation_ET.csv: Mosquitoes captured in bendiocarb-treated traps placed on the ends of eave tubes at different angles relative to the inside of the house. <br>Testing actives.csv: Mosquito recapture numbers after overnight release-recapture testing eave tubes treated with different actives.<br>Testing fungus.csv: Daily survival for mosquitoes recaptured after overnight release-recapture testing eave tubes treated with fungus (mixed with silica powder). <br>Eave tubes vs LLIN_2a.csv: Recapture numbers for overnight release-recapture experiment testing eave tubes with bendiocarb-treated netting, eave tubes with LLIN material and eave tubes with untreated netting. Eave tubes vs LLIN_2b.csv: Recapture numbers for overnight release-recapture experiment testing eave tubes with bendiocarb-treated netting, an intact LLIN, and an intact untreated bed net. <br>larvae_modvill.csv: Larval population sizes for the self-sustaining mosquito population, based on larval dips. <br>adults_modvill.csv: Adult mosquitoes, captured indoors using Human Landing Catches during peak biting hours. <br><br>
DOI: 10.5281/zenodo.4013903
title: Font dataset from training VAEs

description: https://erikbern.com/2016/01/21/analyzing-50k-fonts-using-deep-neural-networks.html
DOI: 10.6084/m9.figshare.3753561
title: Geology of the Cotiella thrust sheet, southern Pyrenees (Spain)

description: This paper presents a geological map and cross-sections of the Cotiella thrust sheet at 1:25,000 and 1:50,000 scale, respectively. The map covers an area of 225 km<sup>2</sup> in the southern Pyrenees. The structure of the studied area is dominated by an upper Santonian – lower Miocene thrust system, which transported a middle Coniacian-lower Santonian extensional basin, the Cotiella Basin, 10 s of kilometres southwards during the Pyrenean orogeny. The map focuses on the internal structure of the Cotiella Basin, its partially inverted extensional faults and its up to 6.5 km of upper Albian – lower Santonian sediments that unconformably overlie Upper Triassic salts. The map and cross-sections, together with outcrop-scale observations, have led us to interpret the rising of passive diapirs in the area. This newly recognized salt tectonic event in the Cotiella Basin is important because of the insights it can provide for the paleogeographic reconstruction of the Upper Cretaceous paleomargin of the northern parts of the Iberian Peninsula.
DOI: 10.6084/m9.figshare.3753561.v1
title: Geology of the Cotiella thrust sheet, southern Pyrenees (Spain)

description: This paper presents a geological map and cross-sections of the Cotiella thrust sheet at 1:25,000 and 1:50,000 scale, respectively. The map covers an area of 225 km<sup>2</sup> in the southern Pyrenees. The structure of the studied area is dominated by an upper Santonian – lower Miocene thrust system, which transported a middle Coniacian-lower Santonian extensional basin, the Cotiella Basin, 10 s of kilometres southwards during the Pyrenean orogeny. The map focuses on the internal structure of the Cotiella Basin, its partially inverted extensional faults and its up to 6.5 km of upper Albian – lower Santonian sediments that unconformably overlie Upper Triassic salts. The map and cross-sections, together with outcrop-scale observations, have led us to interpret the rising of passive diapirs in the area. This newly recognized salt tectonic event in the Cotiella Basin is important because of the insights it can provide for the paleogeographic reconstruction of the Upper Cretaceous paleomargin of the northern parts of the Iberian Peninsula.
DOI: 10.6084/m9.figshare.3753558
title: genus_otutable_CASyr1_logNo_InfectionStatus_SRAids.tab

description: Operational Taxonomic Unit (OTU) table for analyses from Teo et al (DOI:http://dx.doi.org/10.1016/j.chom.2015.03.008). Raw Illumina reads and metadata are available in NCBI BioProject PRJNA275918.<br>
DOI: 10.6084/m9.figshare.3753558.v1
title: genus_otutable_CASyr1_logNo_InfectionStatus.tab

description: Operational Taxonomic Unit (OTU) table for analyses from Teo et al (DOI:http://dx.doi.org/10.1016/j.chom.2015.03.008). Raw Illumina reads and metadata are available in NCBI BioProject PRJNA275918.<br>