cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.4964966
title: Micro-Food Web of an Arable Soil affected by Plant Removal

description: An arable site was cropped either with maize, amended with maize litter or remained bare soil. The microbial and nematode communities were investigated in two successive years along a depth transect.<br>The data shown are the raw data set of the publication "Disentangling the root- and detritus-based food chain in the micro-food web of an arable soil by plant removal in PLOS ONE<br>
DOI: 10.6084/m9.figshare.4964987.v2
title: The interaction between glucose and cytokinin signaling in controlling <i>Arabidopsis thaliana</i> seedling root growth and development

description: Cytokinin (CK) and glucose (GLC) control several common responses in plants. There is an extensive overlap between CK and GLC signal transduction pathways in Arabidopsis. Physiologically, both GLC and CK could regulate root length in light. CK interacts with GLC via HXK1 dependent pathway for root length control. Wild-type (WT) roots cannot elongate in the GLC free medium while CK-receptor mutant <i>ARABIDOPSIS HISTIDINE KINASE4</i> (<i>ahk4</i>) and type B ARR triple mutant <i>ARABIDOPSIS RESPONSE REGULATOR1, 10,11</i> (<i>arr1, 10,11</i>) roots could elongate even in the absence of GLC as compared with the WT. The root hair initiation was also found defective in CK signaling mutants <i>ahk4, arr1,10,11</i> and <i>arr3,4,5,6,8,9</i> on increasing GLC concentration (up to 3%); and lesser number of root hairs were visible even at 5% GLC as compared with the WT. Out of 941 BAP regulated genes, 103 (11%) genes were involved in root growth and development. Out of these 103 genes, 60 (58%) genes were also regulated by GLC. GLC could regulate 5736 genes, which include 327 (6%) genes involved in root growth and development. Out of these 327 genes, 60 (18%) genes were also regulated by BAP. Both GLC and CK signaling cannot alter root length in light in auxin signaling mutant <i>AUXIN RESPONSE3/INDOLE-3-ACETIC ACID17</i> (<i>axr3</i>/<i>iaa17</i>) suggesting that they may involve auxin signaling component as a nodal point. Therefore CK- and GLC- signaling are involved in controlling different aspects of root growth and development such as root length, with auxin signaling components working as downstream target.
DOI: 10.6084/m9.figshare.4964966.v1
title: Micro-Food Web of an Arable Soil affected by Plant Removal

description: An arable site was cropped either with maize, amended with maize litter or remained bare soil. The microbial and nematode communities were investigated in two successive years along a depth transect.<br>The data shown are the raw data set of the publication "Disentangling the root- and detritus-based food chain in the micro-food web of an arable soil by plant removal in PLOS ONE<br>
DOI: 10.6084/m9.figshare.4964939
title: CGG_CDF from Aeroacoustic catastrophes: upstream cusp beaming in Lilley's equation

description: This file contains the Green function (see figure 3) wrapped around a \ sphere as shown in figure 4. Structures are labelled according to \ figure 4.
DOI: 10.6084/m9.figshare.4964987.v1
title: The Interaction between Glucose and Cytokinin Signaling in Controlling <i>Arabidopsis thaliana</i> Seedling Root Growth and Development

description: Cytokinin (CK) and glucose (GLC) control a number of common responses in plants. There is an extensive overlap between CK and GLC signal transduction pathways in Arabidopsis. Physiologically, both GLC and CK could regulate root length in light. CK interacts with GLC via HXK1 dependent pathway for root length control. Wild-type (WT) roots cannot elongate in the GLC free medium while CK-receptor mutant <i>ARABIDOPSIS HISTIDINE KINASE4</i> (<i>ahk4</i>) and type B ARR triple mutant <i>ARABIDOPSIS RESPONSE REGULATOR1, 10,11</i> (<i>arr1, 10,11</i>) roots could elongate even in the absence of GLC as compared to the WT. The root hair initiation was also found defective in CK signaling mutants <i>ahk4, arr1,10,11</i> and <i>arr3,4,5,6,8,9</i> on increasing GLC concentration (up to 3%); and lesser number of root hairs were visible even at 5% GLC as compared to the WT. Out of 941 BAP regulated genes, 103 (11%) genes were involved in root growth and development. Out of these 103 genes, 60 (58%) genes were also regulated by GLC. GLC could regulate 5736 genes, which include 327 (6%) genes involved in root growth and development. Out of these 327 genes, 60 (18%) genes were also regulated by BAP. Both GLC and CK signaling cannot alter root length in light in auxin signaling mutant <i>AUXIN RESPONSE3/INDOLE-3-ACETIC ACID17</i> (<i>axr3</i>/<i>iaa17</i>) suggesting that they may involve auxin signaling component as a nodal point. Therefore CK- and GLC- signaling are involved in controlling different aspects of root growth and development such as root length, with auxin signaling components working as downstream target.
DOI: 10.6084/m9.figshare.4964936
title: CGF_notebook from Aeroacoustic catastrophes: upstream cusp beaming in Lilley's equation

description: This file contains the Green function (see figure 3) wrapped around a \ sphere as shown in figure 4. Structures are labelled according to \ figure 4.
DOI: 10.6084/m9.figshare.4964933
title: CuspRays_CDF from Aeroacoustic catastrophes: upstream cusp beaming in Lilley's equation

description: Off - symmetry line cusp rays as shown in figure 5. Arrow indicates \ direction of the flow
DOI: 10.6084/m9.figshare.4964990.v2
title: Raw data dominance test and qPCR Senegalese sole juveniles

description: These data are related to dominance behaviour in Senegalese sole, a marine flatfish species with has high importance in aquaculture industry.
DOI: 10.6084/m9.figshare.4964990.v1
title: Raw data dominance test and qPCR Senegalese sole juveniles

description: These data are related to dominance behaviour in Senegalese sole, a marine flatfish species with has high importance in aquaculture industry.
DOI: 10.6084/m9.figshare.4964915
title: Proton lung MRI and lobe masks

description: This data set is a collection of ~60 proton MRI of the lung along with corresponding estimated lobar masks.
DOI: 10.6084/m9.figshare.4964936.v1
title: CGF_notebook from Aeroacoustic catastrophes: upstream cusp beaming in Lilley's equation

description: This file contains the Green function (see figure 3) wrapped around a \ sphere as shown in figure 4. Structures are labelled according to \ figure 4.
DOI: 10.6084/m9.figshare.4964894
title: Assessing the Openness of Anthropology Journals data file and codebook

description: This dataset includes a master list of anthropology-related journals sourced from American Anthropological Association, the World Council of Anthropological Associations (WCAA), Journal Citation Reports (JCR), Scimago Scientific Journal Rankings (SJR), and the Directory of Open Access Journals (DOAJ) and were evaluated based on open access publishing options presented on the publisher websites. The journals are coded as follows: 0) non-transparent publishing options; 1) subscription only; 2) open access option; 3) completely open access with an article processing charge (APC); 4) delayed open access (free to read and publish with embargoes); and 5) fully open access (free to read and publish without embargoes). Other data points include the Article Processing Charge (APC) amount to publish open access, as well as the journal impact factor and SCimago impact factor for each journal at the time of coding (2015).<br>We hope that this information and openness matrix will help facilitate selection of open access publishing avenues for anthropology researchers, as well as provide a tool for librarians and information professionals consulting with anthropology scholars interested in open scholarship.
DOI: 10.6084/m9.figshare.4964912
title: Raw results underpinning "Validating Two Novel Equivalent Impedance Estimators"

description: Simply the raw data this project was based on. Lamentably unlabelled in many places I'm afraid. Just putting it here for openness.<br><br>"<i>FinalAllSysRecord.mat</i>" contains the specific data the conclusions in the letter were based on.<br>
DOI: 10.6084/m9.figshare.4964912.v1
title: Raw results underpinning "Validating Two Novel Equivalent Impedance Estimators"

description: Simply the raw data this project was based on. Lamentably unlabelled in many places I'm afraid. Just putting it here for openness.<br><br>"<i>FinalAllSysRecord.mat</i>" contains the specific data the conclusions in the letter were based on.<br>
DOI: 10.6084/m9.figshare.4964873
title: Supplementary Material for: Neutrophil Extracellular Traps Stimulate Proinflammatory Responses in Human Airway Epithelial Cells

description: Tissue injury leads to the release of uric acid (UA). At high local concentrations, UA can form monosodium urate crystals (MSU). MSU and UA stimulate neutrophils to release extracellular traps (NET). Here, we investigated whether these NET could be involved in the development of inflammation by stimulating cytokine release by airway epithelial cells. We found that NET significantly increased the secretion of CXCL8/IL-8 and IL-6 by alveolar and bronchial epithelial cells. These effects were not observed when NETosis was inhibited by Diphenyleneiodonium, elastase inhibitor, or Cl-amidine. Similar findings were made with NET induced by cigarette smoke extract, suggesting that NET proinflammatory capacity is independent of the inducing stimulus. Furthermore, NET affected neither the viability and morphology of epithelial cells nor the barrier integrity of polarized cells. The epithelial stimulatory capacity of NET was not affected by degradation of DNA with micrococcal nuclease, treatment with heparin, or inhibition of the elastase immobilized to DNA, but it was significantly reduced by pretreatment with an anti-HMGB-1 blocking antibody. Altogether, our findings indicate that NET exert direct proinflammatory effects on airway epithelial cells that might contribute in vivo to the further recruitment of neutrophils and the perpetuation of inflammation upon lung tissue damage.
DOI: 10.6084/m9.figshare.4964849
title: Are landscape attributes a useful shortcut for classifying vegetation in the Tropics? A case study of La Amistad International ParkBITR-16-382 Data matrix.xlsx

description: Given the existence of floristic data for many localities we ask, how useful is floristic data for developing classificationschemes in species-rich tropical landscapes? Can floristic data provide support for classification according to river catchment? We analysed the distribution of vascular plant species within plots across an elevation gradient of 130 to 3200 m asl within La Amistad National Park (PILA). We tested the hypothesis that elevation explains the most amount of variation in species composition by applying multivariate analyses to community structure.
DOI: 10.6084/m9.figshare.4964807
title: Fig 3

description: <b>Average concentration of the investigated elements at different sampling sites during monsoon in Beijing</b>
DOI: 10.6084/m9.figshare.4964834
title: Social Media Planned Parenthood Data.xlsx

description: A dataset gathered to evidence twitter behaviour around the defunding of planned parenthood
DOI: 10.6084/m9.figshare.4964849.v1
title: Are landscape attributes a useful shortcut for classifying vegetation in the Tropics? A case study of La Amistad International ParkBITR-16-382 Data matrix.xlsx

description: Given the existence of floristic data for many localities we ask, how useful is floristic data for developing classificationschemes in species-rich tropical landscapes? Can floristic data provide support for classification according to river catchment? We analysed the distribution of vascular plant species within plots across an elevation gradient of 130 to 3200 m asl within La Amistad National Park (PILA). We tested the hypothesis that elevation explains the most amount of variation in species composition by applying multivariate analyses to community structure.
DOI: 10.6084/m9.figshare.4964702
title: Questionnaire original language (portuguese).pdf

description: This is the questionnaire used in a survey to to explore the beliefs and attitudes of Brazilians not associated with livestock production towards farm animal production.
DOI: 10.6084/m9.figshare.4964807.v1
title: Fig 3

description: <b>Average concentration of the investigated elements at different sampling sites during monsoon in Beijing</b>
DOI: 10.6084/m9.figshare.4964894.v1
title: Assessing the Openness of Anthropology Journals data file and codebook

description: This dataset includes a master list of anthropology-related journals sourced from American Anthropological Association, the World Council of Anthropological Associations (WCAA), Journal Citation Reports (JCR), Scimago Scientific Journal Rankings (SJR), and the Directory of Open Access Journals (DOAJ) and were evaluated based on open access publishing options presented on the publisher websites. The journals are coded as follows: 0) non-transparent publishing options; 1) subscription only; 2) open access option; 3) completely open access with an article processing charge (APC); 4) delayed open access (free to read and publish with embargoes); and 5) fully open access (free to read and publish without embargoes). Other data points include the Article Processing Charge (APC) amount to publish open access, as well as the journal impact factor and SCimago impact factor for each journal at the time of coding (2015).<br>We hope that this information and openness matrix will help facilitate selection of open access publishing avenues for anthropology researchers, as well as provide a tool for librarians and information professionals consulting with anthropology scholars interested in open scholarship.
DOI: 10.6084/m9.figshare.4964660
title: Climate-smart agriculture: perspectives and framings

description: This paper offers a systematic analysis of the concepts and contexts that frame the climate-smart agriculture (CSA) discourse in the academic and policy literature. Documents (<i>n </i>= 113) related to CSA and published in peer-reviewed journals, books, working papers, and scientific reports from 2004 to 2016 were reviewed. Three key trends emerged from the analysis: studies are biased towards global policy agendas; research focuses on scientific and technical issues; and the integration of mitigation, adaptation, and food security (the three pillars of CSA) is becoming a popular scholarly solution. Findings suggest that CSA is a fairly new concept used to describe a range of adaptation and mitigation practices without a specific set of criteria. Although CSA is often framed around the three pillars, the underlying issues constructing the discourse differ at global, developing, and developed country scales. Although there is increasing research on developing countries, particularly in relation to how CSA can transform smallholder agriculture, there is a paucity of research documenting the experiences from developed countries. The findings suggest that research on CSA needs to move beyond solely focussing on scientific approaches and only in certain geographical contexts. If CSA is to be applicable for farmers across the globe, then cross-disciplinary research that is underpinned by broad socio-economic and political contexts is essential to understand how differences in narratives might affect implementation on-the-ground in both developing and developed countries. <b>POLICY RELEVANCE</b> Although policy makers are increasingly supportive of the climate-smart agriculture (CSA) approach, the rhetoric has largely been developed on the basis of scientific and technical arguments. The political implications of varying perspectives have resulted in a growing divide between how developing and developed countries frame solutions to the impacts of climate change on agriculture under the 2015 Paris Agreement. Different framings are part of the explanation for why the scope of CSA is being rethought, with the scientific community redirecting attention to seeking a separate work programme under the United Nations Framework Convention on Climate Change (UNFCCC). The current policy framing of CSA will give no new policy direction unless it grounds itself in the smallholder farmer and civil society contexts.
DOI: 10.6084/m9.figshare.4964660.v1
title: Climate-smart agriculture: perspectives and framings

description: This paper offers a systematic analysis of the concepts and contexts that frame the climate-smart agriculture (CSA) discourse in the academic and policy literature. Documents (<i>n </i>= 113) related to CSA and published in peer-reviewed journals, books, working papers, and scientific reports from 2004 to 2016 were reviewed. Three key trends emerged from the analysis: studies are biased towards global policy agendas; research focuses on scientific and technical issues; and the integration of mitigation, adaptation, and food security (the three pillars of CSA) is becoming a popular scholarly solution. Findings suggest that CSA is a fairly new concept used to describe a range of adaptation and mitigation practices without a specific set of criteria. Although CSA is often framed around the three pillars, the underlying issues constructing the discourse differ at global, developing, and developed country scales. Although there is increasing research on developing countries, particularly in relation to how CSA can transform smallholder agriculture, there is a paucity of research documenting the experiences from developed countries. The findings suggest that research on CSA needs to move beyond solely focussing on scientific approaches and only in certain geographical contexts. If CSA is to be applicable for farmers across the globe, then cross-disciplinary research that is underpinned by broad socio-economic and political contexts is essential to understand how differences in narratives might affect implementation on-the-ground in both developing and developed countries. <b>POLICY RELEVANCE</b> Although policy makers are increasingly supportive of the climate-smart agriculture (CSA) approach, the rhetoric has largely been developed on the basis of scientific and technical arguments. The political implications of varying perspectives have resulted in a growing divide between how developing and developed countries frame solutions to the impacts of climate change on agriculture under the 2015 Paris Agreement. Different framings are part of the explanation for why the scope of CSA is being rethought, with the scientific community redirecting attention to seeking a separate work programme under the United Nations Framework Convention on Climate Change (UNFCCC). The current policy framing of CSA will give no new policy direction unless it grounds itself in the smallholder farmer and civil society contexts.
DOI: 10.6084/m9.figshare.4964873.v1
title: Supplementary Material for: Neutrophil Extracellular Traps Stimulate Proinflammatory Responses in Human Airway Epithelial Cells

description: Tissue injury leads to the release of uric acid (UA). At high local concentrations, UA can form monosodium urate crystals (MSU). MSU and UA stimulate neutrophils to release extracellular traps (NET). Here, we investigated whether these NET could be involved in the development of inflammation by stimulating cytokine release by airway epithelial cells. We found that NET significantly increased the secretion of CXCL8/IL-8 and IL-6 by alveolar and bronchial epithelial cells. These effects were not observed when NETosis was inhibited by Diphenyleneiodonium, elastase inhibitor, or Cl-amidine. Similar findings were made with NET induced by cigarette smoke extract, suggesting that NET proinflammatory capacity is independent of the inducing stimulus. Furthermore, NET affected neither the viability and morphology of epithelial cells nor the barrier integrity of polarized cells. The epithelial stimulatory capacity of NET was not affected by degradation of DNA with micrococcal nuclease, treatment with heparin, or inhibition of the elastase immobilized to DNA, but it was significantly reduced by pretreatment with an anti-HMGB-1 blocking antibody. Altogether, our findings indicate that NET exert direct proinflammatory effects on airway epithelial cells that might contribute in vivo to the further recruitment of neutrophils and the perpetuation of inflammation upon lung tissue damage.
DOI: 10.6084/m9.figshare.4964702.v2
title: Questionnaire original language (portuguese).pdf

description: This is the questionnaire used in a survey to to explore the beliefs and attitudes of Brazilians not associated with livestock production towards farm animal production.
DOI: 10.6084/m9.figshare.4964534
title: Fig. 2

description: 4 particulate matters accumulated by E.japonicus<br>
DOI: 10.6084/m9.figshare.4964534.v2
title: Fig. 2

description: 4 particulate matters accumulated by E.japonicus<br>
DOI: 10.6084/m9.figshare.4964522
title: SHRIMP U–Pb results. Zircon O- and Hf-isotope constraints on the genesis and tectonic significance of Permian magmatism in Patagonia

description: Summary of SHRIMP U–Pb results for zircon from samples CAT50–1905, COR1–1757 and ME9–2025
DOI: 10.6084/m9.figshare.4964534.v1
title: New draft item

description: 4 particulate matters accumulated by E.japonicus<br>
DOI: 10.6084/m9.figshare.4964528
title: O and Hf isotope data. Zircon O- and Hf-isotope constraints on the genesis and tectonic significance of Permian magmatism in Patagonia

description: Summary of the O and Hf isotope data from zircon spot analyses
DOI: 10.6084/m9.figshare.4964522.v1
title: SHRIMP U–Pb results. Zircon O- and Hf-isotope constraints on the genesis and tectonic significance of Permian magmatism in Patagonia

description: Summary of SHRIMP U–Pb results for zircon from samples CAT50–1905, COR1–1757 and ME9–2025
DOI: 10.6084/m9.figshare.4964423
title: Cone beam CT-based set-up strategies with and without rotational correction for stereotactic body radiation therapy in the liver

description: <b>Background:</b> Accurate patient positioning is crucial in stereotactic body radiation therapy (SBRT) due to a high dose regimen. Cone-beam computed tomography (CBCT) is often used for patient positioning based on radio-opaque markers. We compared six CBCT-based set-up strategies with or without rotational correction. <b>Material and methods:</b> Twenty-nine patients with three implanted markers received 3-6 fraction liver SBRT. The markers were delineated on the mid-ventilation phase of a 4D-planning-CT. One pretreatment CBCT was acquired per fraction. Set-up strategy 1 used only translational correction based on manual marker match between the CBCT and planning CT. Set-up strategy 2 used automatic 6 degrees-of-freedom registration of the vertebrae closest to the target. The 3D marker trajectories were also extracted from the projections and the mean position of each marker was calculated and used for set-up strategies 3–6. Translational correction only was used for strategy 3. Translational and rotational corrections were used for strategies 4–6 with the rotation being either vertebrae based (strategy 4), or marker based and constrained to ±3° (strategy 5) or unconstrained (strategy 6). The resulting set-up error was calculated as the 3D root-mean-square set-up error of the three markers. The set-up error of the spinal cord was calculated for all strategies. <b>Results:</b> The bony anatomy set-up (2) had the largest set-up error (5.8 mm). The marker-based set-up with unconstrained rotations (6) had the smallest set-up error (0.8 mm) but the largest spinal cord set-up error (12.1 mm). The marker-based set-up with translational correction only (3) or with bony anatomy rotational correction (4) had equivalent set-up error (1.3 mm) but rotational correction reduced the spinal cord set-up error from 4.1 mm to 3.5 mm. <b>Conclusions:</b> Marker-based set-up was substantially better than bony-anatomy set-up. Rotational correction may improve the set-up, but further investigations are required to determine the optimal correction strategy.