cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.4652746.v2
title: MarshGradientData.xlsx

description: Plant biodiversity data taken from a salt marsh at Wrightsville Beach, NC. For use in teaching ecological modeling using R. See accompanying code.<br>
DOI: 10.6084/m9.figshare.4652746.v1
title: MarshGradientData.xlsx

description: Plant species data taken from a salt marsh at Wrightsville Beach, NC. For use in teaching ecological modeling using R. See accompanying code.<br>
DOI: 10.6084/m9.figshare.4652749.v3
title: Salt Marsh Plant Biodiversity Analyses

description: For use in teaching biodiversity indices and ecological modeling using R. See accompanying excel file for data.<br>
DOI: 10.6084/m9.figshare.4652698
title: Temporal and spatial variations in the composition of freshwater photosynthetic picoeukaryotes revealed by MiSeq sequencing from flow cytometry sorted samples

description: The OTU_table is the tax_table with OTU taxonomy and abundante, and other file represent each OTU reference sequences in fasta format.
DOI: 10.6084/m9.figshare.4652698.v1
title: Temporal and spatial variations in the composition of freshwater photosynthetic picoeukaryotes revealed by MiSeq sequencing from flow cytometry sorted samples

description: The OTU_table is the tax_table with OTU taxonomy and abundante, and other file represent each OTU reference sequences in fasta format.
DOI: 10.6084/m9.figshare.4652749.v4
title: Salt Marsh Plant Biodiversity Analyses

description: For use in teaching biodiversity indices and ecological modeling using R. See accompanying excel file for data.<br>
DOI: 10.6084/m9.figshare.4652749.v6
title: Salt Marsh Plant Biodiversity Analyses

description: For use in teaching biodiversity indices and ecological modeling using R. See accompanying excel file for data.<br>
DOI: 10.6084/m9.figshare.4652749.v5
title: Salt Marsh Plant Biodiversity Analyses

description: For use in teaching biodiversity indices and ecological modeling using R. See accompanying excel file for data.<br>
DOI: 10.6084/m9.figshare.4652608
title: 5-guild riparian flow-population model

description: This code accompanies: Lytle, D. A., D. M. Merritt, J. D. Tonkin, J. D. Olden, and L. V. Reynolds. (2017). Linking river flow regimes to riparian plant guilds: a community-wide modeling approach. <i>Ecological Applications.</i> For code to run, it requires the accompanied 'Maybell.csv' file in the same directory.
DOI: 10.6084/m9.figshare.4652536
title: Madjedbebe Geoarchaeology & Lithics, 2012-2015 Excavations

description: Research compendium for Madjedbebe Geoarchaeology & Lithics, 2012-2015 Excavations
DOI: 10.6084/m9.figshare.4652572
title: Landslides and tsunamis predicted by incompressible SPH with application to the 1958 Lituya Bay event and idealised experiment

description: Tsunamis caused by landslides may result in significant destruction of the surroundings with both societal and industrial impact. The 1958 Lituya Bay landslide and tsunami is a recent and well-documented terrestrial landslide generating a tsunami with a run-up of 524 m. Although recent computational techniques have shown good performance in the estimation of the run-up height, they fail to capture all the physical processes, in particular the landslide-entry profile and interaction with the water. Smoothed particle hydrodynamics (SPH) is a versatile numerical technique for describing free-surface and multi-phase flows, particularly those that exhibit highly nonlinear deformation in landslide-generated tsunamis. In the current work the novel multi-phase incompressible SPH method with shifting is applied to the Lituya Bay tsunami and landslide and is the first methodology able to reproduce realistically both the run-up and landslide-entry as documented in a benchmark experiment. The method is the first paper to develop a realistic implementation of the physics that in addition to the non-Newtonian rheology of the landslide includes turbulence in the water phase and soil saturation. Sensitivity to the experimental initial conditions is also considered. This work demonstrates the ability of the proposed method in modelling challenging environmental multi-phase, non-Newtonian and turbulent flows.
DOI: 10.6084/m9.figshare.4652458
title: VaccineHesitancyData_PLOS.docx

description: These data report findings from an online survey to 1,000 Canadian parents with children aged 5 and younger regarding immunization-related decision-making, and focusing specifically on the MMR vaccine. The survey questions and statements are organized into 4 categories: perceptions about vaccines and vaccination; views on the public debate about vaccines and vaccine-preventable disease; information seeking needs and practices; and risk communication strategies.<br>Participants were recruited in December 2015 using the Angus Reid Online Forum panel, a key consumer panel consisting of approximately 150,000 Canadian adults spread across all geographic regions of Canada. The panel is benchmarked to known census targets, such as age, region, income and education.
DOI: 10.6084/m9.figshare.4652482
title: homework2_data.csv

description: From https://www.census.gov/housing/nychvs/data/2014/userinfo2.html but parsed properly<br>
DOI: 10.6084/m9.figshare.4650274
title: Alcohol paper materials

description: The ZIP file contains all necessary Matlab code, data and guide for reproducing the results from Davis-Stober, McCarthy, Cavagnaro, Price, Brown, and Park (submitted).<br><br>The pdf file contains the table that presents the Bayes Factors for all six substantive models under both conditions, Sober and Intoxicated.<br>
DOI: 10.6084/m9.figshare.4652458.v1
title: VaccineHesitancyData_PLOS.docx

description: These data report findings from an online survey to 1,000 Canadian parents with children aged 5 and younger regarding immunization-related decision-making, and focusing specifically on the MMR vaccine. The survey questions and statements are organized into 4 categories: perceptions about vaccines and vaccination; views on the public debate about vaccines and vaccine-preventable disease; information seeking needs and practices; and risk communication strategies.<br>Participants were recruited in December 2015 using the Angus Reid Online Forum panel, a key consumer panel consisting of approximately 150,000 Canadian adults spread across all geographic regions of Canada. The panel is benchmarked to known census targets, such as age, region, income and education.
DOI: 10.6084/m9.figshare.4650271
title: Ervi.morphoj

description: Data for the scientific article of "Morphological variation of <i>Aphidius ervi</i> Haliday (Hymenoptera: Braconidae) associated with different aphid hosts".
DOI: 10.6084/m9.figshare.4650274.v1
title: Alcohol paper materials

description: The ZIP file contains all necessary Matlab code, data and guide for reproducing the results from Davis-Stober, McCarthy, Cavagnaro, Price, Brown, and Park (submitted).<br><br>The pdf file contains the table that presents the Bayes Factors for all six substantive models under both conditions, Sober and Intoxicated.<br>
DOI: 10.6084/m9.figshare.4650271.v1
title: Ervi.morphoj

description: Data for the scientific article of "Morphological variation of <i>Aphidius ervi</i> Haliday (Hymenoptera: Braconidae) associated with different aphid hosts".
DOI: 10.17028/rd.lboro.4650205
title: Inter-model Comparison of Five Climate-Based Daylight Modelling Techniques: Redirecting Glazing/Shading Systems - input and output data

description: The compressed folder contains input and output data used in the corresponding publication by the same title, written for the 15th International Conference of IBPSA.The subfolder 'Sim_input' contains data used for all simulations, formatted for the Radiance system use (i.e. geometrical model, material definition and BSDF description). The subfolder 'Results' contains the illuminance profile (global and direct) and the derived CBDM metrics, for each of the simulation methods analysed in the paper.<br>The classrooms' 3D models are also available at the Reference link provided within this entry that redirects to a GitHub repository.<br>
DOI: 10.6084/m9.figshare.4650190
title: Opting out from European Union legislation: the differentiation of secondary law

description: Differentiated integration in the European Union (EU) has been primarily discussed and analysed at the treaty level, whereas lack of systematic data has hampered the examination of secondary-law or legislative differentiation. We present a new data set of differentiation in EU legislation from 1958 to 2012, a descriptive analysis and a comparison of the patterns of primary- and secondary-law differentiation across time, member states and policies. We find that differentiation facilitating the accession of new members and constitutional differentiation accommodating the opposition against the integration of core state powers drive both primary- and secondary-law differentiation. In addition, we find complementarity between differentiation in treaty law and secondary legislation depending on the availability and salience of differentiation opportunities.
DOI: 10.6084/m9.figshare.4650169
title: Supplementary Material for: Microvascular Plasticity After Experimental Stroke: A Molecular and MRI Study

description: <b><i>Background:</i></b> Microvasculature plays a key role in stroke pathophysiology both during initial damage and extended neural repair. Moreover, angiogenesis processes seem to be a promising target for future neurorestorative therapies. However, dynamic changes of microvessels after stroke still remain unclear, and MRI follow-up could be interesting as an in vivo biomarker of these. <b><i>Methods:</i></b> The aim of this study is to characterize the microvascular plasticity 25 days after ischemic stroke using both in vivo microvascular 7T-MRI (vascular permeability, cerebral blood volume (CBV), vessel size index (VSI), vascular density) and quantification of angiogenic factor expressions by RT-qPCR in a transient middle cerebral artery occlusion rat model. CBV and VSI (perfused vessel caliber) imaging was performed using a steady-state approach with a multi gradient-echo spin-echo sequence before and 2 min after intravenous (IV) injection of ultrasmall superparamagnetic iron particles. Vascular density (per mm<sup>2</sup>) was derived from the ratio [ΔR<sub>2</sub>/(ΔR<sub>2</sub>*)<sup>2/3</sup>]. Blood brain barrier leakage was assessed using T<sub>1</sub>W images before and after IV injection of Gd-DOTA. Additionally, microvessel immunohistology was done. <b><i>Results:</i></b> 3 successive stages were observed: 1) ‘Acute stage' from day 1 to day 3 post-stroke (D1-D3) characterized by high levels of angiopoietin-2 (Ang2), vascular endothelial growth factor receptor-2 (VEGFR-2) and endothelial NO synthase (eNOS) that may be associated with deleterious vascular permeability and vasodilation; 2) ‘Transition stage' (D3-D7) that involves transforming the growth factors β1 (TGFβ1), Ang1, and tyrosine kinase with immunoglobulin-like and endothelial growth factor-like domains 1 (Tie1), stromal-derived factor-1 (SDF-1), chemokine receptor type 4 (CXCR-4); and 3) ‘Subacute stage' (D7-D25) with high levels of Ang1, Ang2, VEGF, VEGFR-1 and TGFβ1 leading to favorable stabilization and maturation of microvessels. In vivo MRI appeared in line with the angiogenic factors changes with a delay of at least 1 day. All MRI parameters varied over time, revealing the different aspects of the post-stroke microvascular plasticity. At D25, despite a normal CBV, MRI revealed a limited microvessel density, which is insufficient to support a good neural repair. <b><i>Conclusions:</i></b> Microvasculature MRI can provide imaging of different states of functional (perfused) microvessels after stroke. These results highlight that multiparametric MRI is useful to assess post-stroke angiogenesis, and could be used as a biomarker notably for neurorestorative therapy studies. Additionally, we identified that endogenous vessel maturation and stabilization occur during the ‘subacute stage'. Thus, pro-angiogenic treatments, such as cell-based therapy, would be relevant during this subacute phase of stroke.
DOI: 10.6084/m9.figshare.4650190.v1
title: Opting out from European Union legislation: the differentiation of secondary law

description: Differentiated integration in the European Union (EU) has been primarily discussed and analysed at the treaty level, whereas lack of systematic data has hampered the examination of secondary-law or legislative differentiation. We present a new data set of differentiation in EU legislation from 1958 to 2012, a descriptive analysis and a comparison of the patterns of primary- and secondary-law differentiation across time, member states and policies. We find that differentiation facilitating the accession of new members and constitutional differentiation accommodating the opposition against the integration of core state powers drive both primary- and secondary-law differentiation. In addition, we find complementarity between differentiation in treaty law and secondary legislation depending on the availability and salience of differentiation opportunities.
DOI: 10.6084/m9.figshare.4650145
title: Supplementary Material for: Characterization and Differential Expression Patterns of Conserved microRNAs and mRNAs in Three Genders of the Rice Field Eel (Monopterus albus)

description: MicroRNAs (miRNAs) are endogenous small RNAs that can regulate target mRNAs by binding to their sequences in the 3′ untranslated region. The expression of miRNAs and their biogenetic pathway are involved in sexual differentiation and in the regulation of the development of germ cells and gonadal somatic cells. The rice field eel <i>(Monopterus albus)</i> undergoes a natural sexual transformation from female to male via an intersex stage during its life cycle. To investigate the molecular mechanisms of this sexual transformation, miRNAs present in the different sexual stages of the rice field eel were identified by high-throughput sequencing technology. A significantly differential expression among the 3 genders (p &lt; 0.001) was observed for 48 unique miRNAs and 3 miRNAs*. Only 9 unique miRNAs showed a more than 8-fold change in their expression among the 3 genders, including mal-miR-430a and mal-miR-430c which were higher in females than in males. However, mal-miR-430b was only detected in males. Several potential miRNA target genes <i>(cyp19a, cyp19b, nr5a1b, foxl2 amh</i>, and<i> vasa)</i> were also investigated. Real-time RT-PCR demonstrated highly specific expression patterns of these genes in the 3 genders of the rice field eel. Many of these genes are targets of mal-miR-430b according to the TargetScan and miRTarBase. These results suggest that the miR-430 family may be involved in the sexual transformation of the rice field eel.
DOI: 10.6084/m9.figshare.4650169.v1
title: Supplementary Material for: Microvascular Plasticity After Experimental Stroke: A Molecular and MRI Study

description: <b><i>Background:</i></b> Microvasculature plays a key role in stroke pathophysiology both during initial damage and extended neural repair. Moreover, angiogenesis processes seem to be a promising target for future neurorestorative therapies. However, dynamic changes of microvessels after stroke still remain unclear, and MRI follow-up could be interesting as an in vivo biomarker of these. <b><i>Methods:</i></b> The aim of this study is to characterize the microvascular plasticity 25 days after ischemic stroke using both in vivo microvascular 7T-MRI (vascular permeability, cerebral blood volume (CBV), vessel size index (VSI), vascular density) and quantification of angiogenic factor expressions by RT-qPCR in a transient middle cerebral artery occlusion rat model. CBV and VSI (perfused vessel caliber) imaging was performed using a steady-state approach with a multi gradient-echo spin-echo sequence before and 2 min after intravenous (IV) injection of ultrasmall superparamagnetic iron particles. Vascular density (per mm<sup>2</sup>) was derived from the ratio [ΔR<sub>2</sub>/(ΔR<sub>2</sub>*)<sup>2/3</sup>]. Blood brain barrier leakage was assessed using T<sub>1</sub>W images before and after IV injection of Gd-DOTA. Additionally, microvessel immunohistology was done. <b><i>Results:</i></b> 3 successive stages were observed: 1) ‘Acute stage' from day 1 to day 3 post-stroke (D1-D3) characterized by high levels of angiopoietin-2 (Ang2), vascular endothelial growth factor receptor-2 (VEGFR-2) and endothelial NO synthase (eNOS) that may be associated with deleterious vascular permeability and vasodilation; 2) ‘Transition stage' (D3-D7) that involves transforming the growth factors β1 (TGFβ1), Ang1, and tyrosine kinase with immunoglobulin-like and endothelial growth factor-like domains 1 (Tie1), stromal-derived factor-1 (SDF-1), chemokine receptor type 4 (CXCR-4); and 3) ‘Subacute stage' (D7-D25) with high levels of Ang1, Ang2, VEGF, VEGFR-1 and TGFβ1 leading to favorable stabilization and maturation of microvessels. In vivo MRI appeared in line with the angiogenic factors changes with a delay of at least 1 day. All MRI parameters varied over time, revealing the different aspects of the post-stroke microvascular plasticity. At D25, despite a normal CBV, MRI revealed a limited microvessel density, which is insufficient to support a good neural repair. <b><i>Conclusions:</i></b> Microvasculature MRI can provide imaging of different states of functional (perfused) microvessels after stroke. These results highlight that multiparametric MRI is useful to assess post-stroke angiogenesis, and could be used as a biomarker notably for neurorestorative therapy studies. Additionally, we identified that endogenous vessel maturation and stabilization occur during the ‘subacute stage'. Thus, pro-angiogenic treatments, such as cell-based therapy, would be relevant during this subacute phase of stroke.
DOI: 10.6084/m9.figshare.4650145.v1
title: Supplementary Material for: Characterization and Differential Expression Patterns of Conserved microRNAs and mRNAs in Three Genders of the Rice Field Eel (Monopterus albus)

description: MicroRNAs (miRNAs) are endogenous small RNAs that can regulate target mRNAs by binding to their sequences in the 3′ untranslated region. The expression of miRNAs and their biogenetic pathway are involved in sexual differentiation and in the regulation of the development of germ cells and gonadal somatic cells. The rice field eel <i>(Monopterus albus)</i> undergoes a natural sexual transformation from female to male via an intersex stage during its life cycle. To investigate the molecular mechanisms of this sexual transformation, miRNAs present in the different sexual stages of the rice field eel were identified by high-throughput sequencing technology. A significantly differential expression among the 3 genders (p &lt; 0.001) was observed for 48 unique miRNAs and 3 miRNAs*. Only 9 unique miRNAs showed a more than 8-fold change in their expression among the 3 genders, including mal-miR-430a and mal-miR-430c which were higher in females than in males. However, mal-miR-430b was only detected in males. Several potential miRNA target genes <i>(cyp19a, cyp19b, nr5a1b, foxl2 amh</i>, and<i> vasa)</i> were also investigated. Real-time RT-PCR demonstrated highly specific expression patterns of these genes in the 3 genders of the rice field eel. Many of these genes are targets of mal-miR-430b according to the TargetScan and miRTarBase. These results suggest that the miR-430 family may be involved in the sexual transformation of the rice field eel.
DOI: 10.6084/m9.figshare.4650118
title: .pmag file. Palaeomagnetic and geochronological evidence for a major middle Miocene unconformity in Söke Basin (western Anatolia) and its tectonic implications for the Aegean region

description: The output (.pmag) file including details of paleomagnetic analysis performed in this study can be evaluated and visualized in the available modules of the online portal of Paleomagnetism.org.
DOI: 10.6084/m9.figshare.4650109
title: Supplementary Material for: Genome-Wide Association Studies in Africans and African Americans: Expanding the Framework of the Genomics of Human Traits and Disease

description: Genomic research is one of the tools for elucidating the pathogenesis of diseases of global health relevance and paving the research dimension to clinical and public health translation. Recent advances in genomic research and technologies have increased our understanding of human diseases, genes associated with these disorders, and the relevant mechanisms. Genome-wide association studies (GWAS) have proliferated since the first studies were published several years ago and have become an important tool in helping researchers comprehend human variation and the role genetic variants play in disease. However, the need to expand the diversity of populations in GWAS has become increasingly apparent as new knowledge is gained about genetic variation. Inclusion of diverse populations in genomic studies is critical to a more complete understanding of human variation and elucidation of the underpinnings of complex diseases. In this review, we summarize the available data on GWAS in recent African ancestry populations within the western hemisphere (i.e. African Americans and peoples of the Caribbean) and continental African populations. Furthermore, we highlight ways in which genomic studies in populations of recent African ancestry have led to advances in the areas of malaria, HIV, prostate cancer, and other diseases. Finally, we discuss the advantages of conducting GWAS in recent African ancestry populations in the context of addressing existing and emerging global health conditions.
DOI: 10.6084/m9.figshare.4650115
title: <sup>40</sup>Ar/<sup>39</sup>Ar details. Palaeomagnetic and geochronological evidence for a major middle Miocene unconformity in Söke Basin (western Anatolia) and its tectonic implications for the Aegean region

description: Details of <sup>40</sup>Ar/<sup>39</sup>Ar analysis including heating steps.
DOI: 10.6084/m9.figshare.4650118.v1
title: .pmag file. Palaeomagnetic and geochronological evidence for a major middle Miocene unconformity in Söke Basin (western Anatolia) and its tectonic implications for the Aegean region

description: The output (.pmag) file including details of paleomagnetic analysis performed in this study can be evaluated and visualized in the available modules of the online portal of Paleomagnetism.org.
DOI: 10.6084/m9.figshare.4650109.v1
title: Supplementary Material for: Genome-Wide Association Studies in Africans and African Americans: Expanding the Framework of the Genomics of Human Traits and Disease

description: Genomic research is one of the tools for elucidating the pathogenesis of diseases of global health relevance and paving the research dimension to clinical and public health translation. Recent advances in genomic research and technologies have increased our understanding of human diseases, genes associated with these disorders, and the relevant mechanisms. Genome-wide association studies (GWAS) have proliferated since the first studies were published several years ago and have become an important tool in helping researchers comprehend human variation and the role genetic variants play in disease. However, the need to expand the diversity of populations in GWAS has become increasingly apparent as new knowledge is gained about genetic variation. Inclusion of diverse populations in genomic studies is critical to a more complete understanding of human variation and elucidation of the underpinnings of complex diseases. In this review, we summarize the available data on GWAS in recent African ancestry populations within the western hemisphere (i.e. African Americans and peoples of the Caribbean) and continental African populations. Furthermore, we highlight ways in which genomic studies in populations of recent African ancestry have led to advances in the areas of malaria, HIV, prostate cancer, and other diseases. Finally, we discuss the advantages of conducting GWAS in recent African ancestry populations in the context of addressing existing and emerging global health conditions.