cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.3487349
title: Identifying UCE loci and designing baits to target them

description: Targeted enrichment of conserved genomic regions is a popular method for collecting large amounts of sequence data from non-model taxa for phylogenetic, phylogeographic, and population genetic studies. Yet, few open-source workflows are available to identify conserved genomic elements shared among divergent taxa and to design enrichment baits targeting these regions. This fileset supports an open-source workflow for for accomplishing these tasks.
DOI: 10.6084/m9.figshare.3487349.v1
title: Identifying UCE loci and designing baits to target them

description: Targeted enrichment of conserved genomic regions is a popular method for collecting large amounts of sequence data from non-model taxa for phylogenetic, phylogeographic, and population genetic studies. Yet, few open-source workflows are available to identify conserved genomic elements shared among divergent taxa and to design enrichment baits targeting these regions. This fileset supports an open-source workflow for for accomplishing these tasks.
DOI: 10.6084/m9.figshare.3487319
title: Impact of gonadectomy on blood pressure regulation in ageing male and female rats

description: Data points corresponding to the Figures submitted for "Impact of gonadectomy on blood pressure regulation in ageing male and female rats" manuscript
DOI: 10.6084/m9.figshare.3487268
title: A systematic review of faculty development initiatives designed to enhance teaching effectiveness: A 10-year update: BEME Guide No. 40

description: <b>Background:</b> This review, which focused on faculty development initiatives designed to improve teaching effectiveness, synthesized findings related to intervention types, study characteristics, individual and organizational outcomes, key features, and community building. <b>Methods:</b> This review included 111 studies (between 2002 and 2012) that met the review criteria. <b>Findings:</b> Overall satisfaction with faculty development programs was high. Participants reported increased confidence, enthusiasm, and awareness of effective educational practices. Gains in knowledge and skills, and self-reported changes in teaching behaviors, were frequently noted. Observed behavior changes included enhanced teaching practices, new educational initiatives, new leadership positions, and increased academic output. Organizational changes were infrequently explored. Key features included evidence-informed educational design, relevant content, experiential learning, feedback and reflection, educational projects, intentional community building, longitudinal program design, and institutional support. <b>Conclusion:</b> This review holds implications for practice and research. Moving forward, we should build on current success, broaden the focus beyond individual teaching effectiveness, develop programs that extend over time, promote workplace learning, foster community development, and secure institutional support. We should also embed studies in a theoretical framework, conduct more qualitative and mixed methods studies, assess behavioral and organizational change, evaluate transfer to practice, analyse key features, and explore the role of faculty development within the larger organizational context.
DOI: 10.6084/m9.figshare.3487268.v2
title: A systematic review of faculty development initiatives designed to enhance teaching effectiveness: A 10-year update: BEME Guide No. 40

description: <b>Background:</b> This review, which focused on faculty development initiatives designed to improve teaching effectiveness, synthesized findings related to intervention types, study characteristics, individual and organizational outcomes, key features, and community building. <b>Methods:</b> This review included 111 studies (between 2002 and 2012) that met the review criteria. <b>Findings:</b> Overall satisfaction with faculty development programs was high. Participants reported increased confidence, enthusiasm, and awareness of effective educational practices. Gains in knowledge and skills, and self-reported changes in teaching behaviors, were frequently noted. Observed behavior changes included enhanced teaching practices, new educational initiatives, new leadership positions, and increased academic output. Organizational changes were infrequently explored. Key features included evidence-informed educational design, relevant content, experiential learning, feedback and reflection, educational projects, intentional community building, longitudinal program design, and institutional support. <b>Conclusion:</b> This review holds implications for practice and research. Moving forward, we should build on current success, broaden the focus beyond individual teaching effectiveness, develop programs that extend over time, promote workplace learning, foster community development, and secure institutional support. We should also embed studies in a theoretical framework, conduct more qualitative and mixed methods studies, assess behavioral and organizational change, evaluate transfer to practice, analyse key features, and explore the role of faculty development within the larger organizational context.
DOI: 10.6084/m9.figshare.3487268.v1
title: A systematic review of faculty development initiatives designed to enhance teaching effectiveness: A 10-year update: BEME Guide No. 40

description: <b>Background:</b> This review, which focused on faculty development initiatives designed to improve teaching effectiveness, synthesized findings related to intervention types, study characteristics, individual and organizational outcomes, key features, and community building. <b>Methods:</b> This review included 111 studies (between 2002 and 2012) that met the review criteria. <b>Findings:</b> Overall satisfaction with faculty development programs was high. Participants reported increased confidence, enthusiasm, and awareness of effective educational practices. Gains in knowledge and skills, and self-reported changes in teaching behaviors, were frequently noted. Observed behavior changes included enhanced teaching practices, new educational initiatives, new leadership positions, and increased academic output. Organizational changes were infrequently explored. Key features included evidence-informed educational design, relevant content, experiential learning, feedback and reflection, educational projects, intentional community building, longitudinal program design, and institutional support. <b>Conclusion:</b> This review holds implications for practice and research. Moving forward, we should build on current success, broaden the focus beyond individual teaching effectiveness, develop programs that extend over time, promote workplace learning, foster community development, and secure institutional support. We should also embed studies in a theoretical framework, conduct more qualitative and mixed methods studies, assess behavioral and organizational change, evaluate transfer to practice, analyse key features, and explore the role of faculty development within the larger organizational context.
DOI: 10.6084/m9.figshare.3487223
title: A. petiolata seedling count in germination trays.csv

description: This data set contains the number of A. petiolata seedlings counted in the germination trays from the field experiment.
DOI: 10.6084/m9.figshare.3487223.v1
title: A. petiolata seedling count in germination trays.csv

description: This data set contains the number of A. petiolata seedlings counted in the germination trays from the field experiment.
DOI: 10.6084/m9.figshare.3487217
title: Raw and Aligned Rank Raccoon Seed Attachment

description: This data set contains the number of A. petiolata seeds out of 100 that attached to raccoon fur. The data set also contains the data after it was aligned-rank transformed.
DOI: 10.6084/m9.figshare.3487217.v1
title: Raw and Aligned Rank Raccoon Seed Attachment

description: This data set contains the number of A. petiolata seeds out of 100 that attached to raccoon fur. The data set also contains the data after it was aligned-rank transformed.
DOI: 10.6084/m9.figshare.3487199
title: Supplementary Material for: Low Leptin Availability as a Risk Factor for Dementia in Chilean Older People

description: <i>Objective:</i> The aim was to study the role of leptin in the development of dementia.<i>Methods: </i>Follow-up of the ALEXANDROS cohorts, with baseline measurements in 2000. From 1,136 available subjects free of dementia at baseline, 667 subjects had frozen baseline blood samples for measuring leptin and soluble leptin receptor (sOB-R). The free leptin index (FLI) was calculated as the ratio of leptin to sOB-R. Dementia was defined as an MMSE score &lt;22 and a score &gt;5 in the Pfeffer Activities Questionnaire. <i>Results:</i> After 15 years of follow-up, 42 incident cases of dementia were identified. No difference in serum leptin was observed between people with and without dementia, but sOB-R was higher in demented than in nondemented subjects (sOB-R: 44.94 ± 23.97 vs. 33.73 ± 21.13 ng/ml). The adjusted risk for dementia increased, the higher the log sOB (hazard ratio = 3.58; 95% CI 1.72-7.45, p = 0.001). <i>Conclusion:</i> Lower availability of free leptin was found in demented than in nondemented people, suggesting a role of leptin in cognition.
DOI: 10.6084/m9.figshare.3487199.v1
title: Supplementary Material for: Low Leptin Availability as a Risk Factor for Dementia in Chilean Older People

description: <i>Objective:</i> The aim was to study the role of leptin in the development of dementia.<i>Methods: </i>Follow-up of the ALEXANDROS cohorts, with baseline measurements in 2000. From 1,136 available subjects free of dementia at baseline, 667 subjects had frozen baseline blood samples for measuring leptin and soluble leptin receptor (sOB-R). The free leptin index (FLI) was calculated as the ratio of leptin to sOB-R. Dementia was defined as an MMSE score &lt;22 and a score &gt;5 in the Pfeffer Activities Questionnaire. <i>Results:</i> After 15 years of follow-up, 42 incident cases of dementia were identified. No difference in serum leptin was observed between people with and without dementia, but sOB-R was higher in demented than in nondemented subjects (sOB-R: 44.94 ± 23.97 vs. 33.73 ± 21.13 ng/ml). The adjusted risk for dementia increased, the higher the log sOB (hazard ratio = 3.58; 95% CI 1.72-7.45, p = 0.001). <i>Conclusion:</i> Lower availability of free leptin was found in demented than in nondemented people, suggesting a role of leptin in cognition.
DOI: 10.6084/m9.figshare.3487196
title: Raw and Aligned Rank Deer Seed Attachmentcsv

description: This data set contains the number of A. petiolata seeds out of 100 that attached to deer fur. The data set also contains the aligned-rank transformed data.
DOI: 10.6084/m9.figshare.3487196.v1
title: Raw and Aligned Rank Deer Seed Attachmentcsv

description: This data set contains the number of A. petiolata seeds out of 100 that attached to deer fur. The data set also contains the aligned-rank transformed data.
DOI: 10.6084/m9.figshare.3487190
title: seed rentention values.csv

description: This data set contains the number of seeds that were retained in Raccoon (R) and Deer (D) fur after one hour of shaking.
DOI: 10.6084/m9.figshare.3487190.v1
title: seed rentention values.csv

description: This data set contains the number of seeds that were retained in Raccoon (R) and Deer (D) fur after one hour of shaking.
DOI: 10.6084/m9.figshare.3487184
title: Problem of the direct quantum-information transformation of chemical substance

description: <i>Arthur Clark and Michael Kube–McDowell (“The Triger”, 2000) suggested the sci-fi idea about the direct transformation from a chemical substance into another by the action of a newly physical, “Trigger” field. Karl Brohier, a Nobel Prize winner, who is a dramatic persona in the novel, elaborates a new theory, re-reading and re-writing Pauling’s “The Nature of the Chemical Bond”; according to Brohier: “Information organizes and differentiates energy. It regularizes and stabilizes matter. Information propagates through matter-energy and mediates the interactions of matter-energy.” Dr Horton, his collaborator in the novel replies: “If the universe consists of energy and information, then the Trigger somehow alters the information envelope of certain substances –“. </i> <i>“Alters it, scrambles it, overwhelms it, destabilizes it” Brohier adds.</i> <i>There is a scientific debate whether or how far chemistry is fundamentally reducible to quantum mechanics. Nevertheless, the fact that many essential chemical properties and reactions are at least partly representable in terms of quantum mechanics is doubtless. </i><i>For the quantum mechanics itself has been reformulated as a theory of a special kind of information, quantum information, chemistry might be in turn interpreted in the same terms. </i> <i>Wave function, the fundamental concept of quantum mechanics, can be equivalently defined as a series of qubits, eventually infinite. A qubit, being defined as the normed superposition of the two orthogonal subspaces of the complex Hilbert space, can be interpreted as a generalization of the standard bit of information as to infinite sets or series. All “forces” in the Standard model, which are furthermore essential for chemical transformations, are groups [U(1),SU(2),SU(3)] of the transformations of the complex Hilbert space and thus, of series of qubits. </i> <i>One can suggest that any chemical substances and changes are fundamentally representable as quantum information and its transformations. If entanglement is interpreted as a physical field, though any group above seems to be unattachable to it, it might be identified as the “Triger field”. It might cause a direct transformation of any chemical substance by from a remote distance. Is this possible in principle?</i>
DOI: 10.6084/m9.figshare.3487184.v1
title: BocaRatonPaper.pdf

description: <i>Arthur Clark and Michael Kube–McDowell (“The Triger”, 2000) suggested the sci-fi idea about the direct transformation from a chemical substance into another by the action of a newly physical, “Trigger” field. Karl Brohier, a Nobel Prize winner, who is a dramatic persona in the novel, elaborates a new theory, re-reading and re-writing Pauling’s “The Nature of the Chemical Bond”; according to Brohier: “Information organizes and differentiates energy. It regularizes and stabilizes matter. Information propagates through matter-energy and mediates the interactions of matter-energy.” Dr Horton, his collaborator in the novel replies: “If the universe consists of energy and information, then the Trigger somehow alters the information envelope of certain substances –“. </i> <i>“Alters it, scrambles it, overwhelms it, destabilizes it” Brohier adds.</i> <i>There is a scientific debate whether or how far chemistry is fundamentally reducible to quantum mechanics. Nevertheless, the fact that many essential chemical properties and reactions are at least partly representable in terms of quantum mechanics is doubtless. </i><i>For the quantum mechanics itself has been reformulated as a theory of a special kind of information, quantum information, chemistry might be in turn interpreted in the same terms. </i> <i>Wave function, the fundamental concept of quantum mechanics, can be equivalently defined as a series of qubits, eventually infinite. A qubit, being defined as the normed superposition of the two orthogonal subspaces of the complex Hilbert space, can be interpreted as a generalization of the standard bit of information as to infinite sets or series. All “forces” in the Standard model, which are furthermore essential for chemical transformations, are groups [U(1),SU(2),SU(3)] of the transformations of the complex Hilbert space and thus, of series of qubits. </i> <i>One can suggest that any chemical substances and changes are fundamentally representable as quantum information and its transformations. If entanglement is interpreted as a physical field, though any group above seems to be unattachable to it, it might be identified as the “Triger field”. It might cause a direct transformation of any chemical substance by from a remote distance. Is this possible in principle?</i>
DOI: 10.6084/m9.figshare.3487184.v3
title: Problem of the direct quantum-information transformation of chemical substance

description: <i>Arthur Clark and Michael Kube–McDowell (“The Triger”, 2000) suggested the sci-fi idea about the direct transformation from a chemical substance into another by the action of a newly physical, “Trigger” field. Karl Brohier, a Nobel Prize winner, who is a dramatic persona in the novel, elaborates a new theory, re-reading and re-writing Pauling’s “The Nature of the Chemical Bond”; according to Brohier: “Information organizes and differentiates energy. It regularizes and stabilizes matter. Information propagates through matter-energy and mediates the interactions of matter-energy.” Dr Horton, his collaborator in the novel replies: “If the universe consists of energy and information, then the Trigger somehow alters the information envelope of certain substances –“. </i> <i>“Alters it, scrambles it, overwhelms it, destabilizes it” Brohier adds.</i> <i>There is a scientific debate whether or how far chemistry is fundamentally reducible to quantum mechanics. Nevertheless, the fact that many essential chemical properties and reactions are at least partly representable in terms of quantum mechanics is doubtless. </i><i>For the quantum mechanics itself has been reformulated as a theory of a special kind of information, quantum information, chemistry might be in turn interpreted in the same terms. </i> <i>Wave function, the fundamental concept of quantum mechanics, can be equivalently defined as a series of qubits, eventually infinite. A qubit, being defined as the normed superposition of the two orthogonal subspaces of the complex Hilbert space, can be interpreted as a generalization of the standard bit of information as to infinite sets or series. All “forces” in the Standard model, which are furthermore essential for chemical transformations, are groups [U(1),SU(2),SU(3)] of the transformations of the complex Hilbert space and thus, of series of qubits. </i> <i>One can suggest that any chemical substances and changes are fundamentally representable as quantum information and its transformations. If entanglement is interpreted as a physical field, though any group above seems to be unattachable to it, it might be identified as the “Triger field”. It might cause a direct transformation of any chemical substance by from a remote distance. Is this possible in principle?</i>
DOI: 10.6084/m9.figshare.3487163
title: PowerPoint Slides for: Metabolomics in Diabetic Kidney Disease: Unraveling the Biochemistry of a Silent Killer

description: The development of new therapies for chronic diseases, such as diabetic kidney disease (DKD), will continue to be hampered by lack of sufficient biomarkers that will provide insights and will be responsive to treatment interventions. The recent application of metabolomic technologies, such as nuclear magnetic resonance and mass spectroscopy, has allowed large-scale analysis of small molecules to be interrogated in a targeted or untargeted manner. Recent advances from both human and animal studies that have arisen from metabolomic analysis have recognized that mitochondrial function and fatty acid oxidation play key roles in the development and progression of DKD. Although many challenges in the technology for clinical chronic kidney disease (CKD) are yet to be validated, there will very likely be ongoing major contributions of metabolomics to develop new biochemical understanding for diabetic and CKD. The clinical application of metabolomics and accompanying bioinformatic tools will likely be a cornerstone of personalized medicine triumphs for CKD.
DOI: 10.6084/m9.figshare.3487163.v1
title: PowerPoint Slides for: Metabolomics in Diabetic Kidney Disease: Unraveling the Biochemistry of a Silent Killer

description: The development of new therapies for chronic diseases, such as diabetic kidney disease (DKD), will continue to be hampered by lack of sufficient biomarkers that will provide insights and will be responsive to treatment interventions. The recent application of metabolomic technologies, such as nuclear magnetic resonance and mass spectroscopy, has allowed large-scale analysis of small molecules to be interrogated in a targeted or untargeted manner. Recent advances from both human and animal studies that have arisen from metabolomic analysis have recognized that mitochondrial function and fatty acid oxidation play key roles in the development and progression of DKD. Although many challenges in the technology for clinical chronic kidney disease (CKD) are yet to be validated, there will very likely be ongoing major contributions of metabolomics to develop new biochemical understanding for diabetic and CKD. The clinical application of metabolomics and accompanying bioinformatic tools will likely be a cornerstone of personalized medicine triumphs for CKD.
DOI: 10.6084/m9.figshare.3487160
title: PosterMPMI.pdf

description: Microbial hubs in the phyllosphere, the role of algae<br>
DOI: 10.6084/m9.figshare.3487160.v1
title: PosterMPMI.pdf

description: Microbial hubs in the phyllosphere, the role of algae<br>
DOI: 10.6084/m9.figshare.3487157
title: A cartographic modeling approach to isopleth mapping

description: Isopleth maps depict different types of standardized data densities, general ratios/rates, and proportions/percentages. In this study, we describe different paths each type of standardized data takes to construct isoplethic surfaces in a cartographic modeling framework. As suggested in previous research, an area-based pycnophylactic interpolator is preferred to point interpolators in isopleth mapping not only because it preserves the total volume in each aggregation unit but also because it is non-parametric and is able to incorporate ancillary data to increase the accuracy of a surface representation. Here, a general pycnophylactic method is used to generate isopleth maps of density surfaces, but a hybrid approach is proposed to address the small denominator problem that arises when mapping ratio/rate and proportion/percentage surfaces. Finally, we propose a value-by-perspective height mapping procedure to resolve the visual equalization problem associated with ratio/rate and proportion/percentage surfaces that enable one to distinguish among high rate/large denominator, high rate/small denominator, low rate/large denominator, and low rate/small denominator regions of the surface.
DOI: 10.6084/m9.figshare.3487157.v1
title: A cartographic modeling approach to isopleth mapping

description: Isopleth maps depict different types of standardized data densities, general ratios/rates, and proportions/percentages. In this study, we describe different paths each type of standardized data takes to construct isoplethic surfaces in a cartographic modeling framework. As suggested in previous research, an area-based pycnophylactic interpolator is preferred to point interpolators in isopleth mapping not only because it preserves the total volume in each aggregation unit but also because it is non-parametric and is able to incorporate ancillary data to increase the accuracy of a surface representation. Here, a general pycnophylactic method is used to generate isopleth maps of density surfaces, but a hybrid approach is proposed to address the small denominator problem that arises when mapping ratio/rate and proportion/percentage surfaces. Finally, we propose a value-by-perspective height mapping procedure to resolve the visual equalization problem associated with ratio/rate and proportion/percentage surfaces that enable one to distinguish among high rate/large denominator, high rate/small denominator, low rate/large denominator, and low rate/small denominator regions of the surface.
DOI: 10.6084/m9.figshare.3487133
title: A. petiolata seed count in seed traps

description: This data set is the number of seeds that were captured in each seed trap. The data is also set up for SAS to predict seed count values at varying distances.