cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.3494549.v1
title: A statistical inference course based on p-values

description: Introductory statistical inference texts and courses treat the point estimation, hypothesis testing, and interval estimation problems separately, with primary emphasis on large-sample approximations. Here I present an alternative approach to teaching this course, built around p-values, emphasizing provably valid inference for all sample sizes. Details about computation and marginalization are also provided, with several illustrative examples, along with a course outline.
DOI: 10.6084/m9.figshare.3494483
title: Components of genome size evolution in Z. mays ssp mexicana

description: Raw reads from mexicana skim seq. Processing files, barcodes, etc on github and on drobo backup:/Volumes/DROBO_DATA/sequence/AMOPB_mexGBS
DOI: 10.6084/m9.figshare.3494483.v2
title: Components of genome size evolution in Z. mays ssp mexicana

description: Raw reads from mexicana skim seq. Processing files, barcodes, etc on github and on drobo backup:/Volumes/DROBO_DATA/sequence/AMOPB_mexGBS
DOI: 10.6084/m9.figshare.3494483.v1
title: Mex_sequencedata

description: Raw reads from mexicana skim seq. Processing files, barcodes, etc on github and on drobo backup:/Volumes/DROBO_DATA/sequence/AMOPB_mexGBS
DOI: 10.6084/m9.figshare.3494378
title: Diverse origins of centromere repeats in grasses (WGS data)

description: Compressed raw fastq for grass centromere repeat paper
DOI: 10.6084/m9.figshare.3494378.v2
title: Diverse origins of centromere repeats in grasses (WGS data)

description: Compressed raw fastq for grass centromere repeat paper
DOI: 10.6084/m9.figshare.3494378.v1
title: grasscentrepeat.tar.bz2

description: Compressed raw fastq for grass centromere repeat paper
DOI: 10.6084/m9.figshare.3494348
title: Increased enzyme production under liquid culture conditions in the industrial fungus <i>Aspergillus oryzae</i> by disruption of the genes encoding cell wall α-1,3-glucan synthase

description: Under liquid culture conditions, the hyphae of filamentous fungi aggregate to form pellets, which reduces cell density and fermentation productivity. Previously, we found that loss of α-1,3-glucan in the cell wall of the fungus <i>Aspergillus nidulans</i> increased hyphal dispersion. Therefore, here we constructed a mutant of the industrial fungus <i>A. oryzae</i> in which the three genes encoding α-1,3-glucan synthase were disrupted (tripleΔ). Although the hyphae of the tripleΔ mutant were not fully dispersed, the mutant strain did form smaller pellets than the wild-type strain. We next examined enzyme productivity under liquid culture conditions by transforming the cutinase-encoding gene <i>cutL1</i> into <i>A. oryzae</i> wild-type and the tripleΔ mutant (i.e. wild-type-cutL1, tripleΔ-cutL1). <i>A. oryzae</i> tripleΔ-cutL1 formed smaller hyphal pellets and showed both greater biomass and increased CutL1 productivity compared with wild-type-cutL1, which might be attributable to a decrease in the number of tripleΔ-cutL1 cells under anaerobic conditions. Summary of the growth characteristic and enzyme productivity in <i>A. oryzae ags</i> tripleΔ strain.
DOI: 10.6084/m9.figshare.3494348.v1
title: Increased enzyme production under liquid culture conditions in the industrial fungus <i>Aspergillus oryzae</i> by disruption of the genes encoding cell wall α-1,3-glucan synthase

description: Under liquid culture conditions, the hyphae of filamentous fungi aggregate to form pellets, which reduces cell density and fermentation productivity. Previously, we found that loss of α-1,3-glucan in the cell wall of the fungus <i>Aspergillus nidulans</i> increased hyphal dispersion. Therefore, here we constructed a mutant of the industrial fungus <i>A. oryzae</i> in which the three genes encoding α-1,3-glucan synthase were disrupted (tripleΔ). Although the hyphae of the tripleΔ mutant were not fully dispersed, the mutant strain did form smaller pellets than the wild-type strain. We next examined enzyme productivity under liquid culture conditions by transforming the cutinase-encoding gene <i>cutL1</i> into <i>A. oryzae</i> wild-type and the tripleΔ mutant (i.e. wild-type-cutL1, tripleΔ-cutL1). <i>A. oryzae</i> tripleΔ-cutL1 formed smaller hyphal pellets and showed both greater biomass and increased CutL1 productivity compared with wild-type-cutL1, which might be attributable to a decrease in the number of tripleΔ-cutL1 cells under anaerobic conditions. Summary of the growth characteristic and enzyme productivity in <i>A. oryzae ags</i> tripleΔ strain.
DOI: 10.6084/m9.figshare.3494342
title: Making of Project VALKYRIE's homepage

description: To start this site, I used Jekyll program, a markdown to HTML parser that generates static web pages. For starters, there is no secret in a static web page. Most of the pages you surf in the web are dynamic, containing elements that are generated during the rendering of the page, requiring server-side processing. Any of the popular blogging providers like Blogger and Wordpress serves dynamic pages. Dynamic pages are customizable and have a huge number of gadgets, plugins and possible hackings. They really have awesome real-time effects and fantastic complexity. However, their price is a greater time to load the page (no problem in high-quality broadband, but this is not quite the rule everywhere) and greater chance of compatibility issues with browsers or mobile platforms. Nowadays, a high priority has been given to mobile platforms.(excerpt)<br>
DOI: 10.6084/m9.figshare.3494342.v1
title: Making of VALKYRIE

description: To start this site, I used Jekyll program, a markdown to HTML parser that generates static web pages. For starters, there is no secret in a static web page. Most of the pages you surf in the web are dynamic, containing elements that are generated during the rendering of the page, requiring server-side processing. Any of the popular blogging providers like Blogger and Wordpress serves dynamic pages. Dynamic pages are customizable and have a huge number of gadgets, plugins and possible hackings. They really have awesome real-time effects and fantastic complexity. However, their price is a greater time to load the page (no problem in high-quality broadband, but this is not quite the rule everywhere) and greater chance of compatibility issues with browsers or mobile platforms. Nowadays, a high priority has been given to mobile platforms.(excerpt)<br>
DOI: 10.6084/m9.figshare.3494342.v3
title: Making of Project VALKYRIE's homepage

description: To start this site, I used Jekyll program, a markdown to HTML parser that generates static web pages. For starters, there is no secret in a static web page. Most of the pages you surf in the web are dynamic, containing elements that are generated during the rendering of the page, requiring server-side processing. Any of the popular blogging providers like Blogger and Wordpress serves dynamic pages. Dynamic pages are customizable and have a huge number of gadgets, plugins and possible hackings. They really have awesome real-time effects and fantastic complexity. However, their price is a greater time to load the page (no problem in high-quality broadband, but this is not quite the rule everywhere) and greater chance of compatibility issues with browsers or mobile platforms. Nowadays, a high priority has been given to mobile platforms.(excerpt)<br>
DOI: 10.6084/m9.figshare.3494342.v2
title: Making of VALKYRIE

description: To start this site, I used Jekyll program, a markdown to HTML parser that generates static web pages. For starters, there is no secret in a static web page. Most of the pages you surf in the web are dynamic, containing elements that are generated during the rendering of the page, requiring server-side processing. Any of the popular blogging providers like Blogger and Wordpress serves dynamic pages. Dynamic pages are customizable and have a huge number of gadgets, plugins and possible hackings. They really have awesome real-time effects and fantastic complexity. However, their price is a greater time to load the page (no problem in high-quality broadband, but this is not quite the rule everywhere) and greater chance of compatibility issues with browsers or mobile platforms. Nowadays, a high priority has been given to mobile platforms.(excerpt)<br>
DOI: 10.6084/m9.figshare.3494312
title: Data for paper: Clark's nutcracker occurrence

description: Clark's nutcracker occupancy data from 2009-2013, Greater Yellowstone Ecosystem<br>
DOI: 10.6084/m9.figshare.3494309
title: High rates of elevated diabetes distress in research populations: A systematic review and meta-analysis

description: Diabetes distress has implications for diabetes end-points, hence targeted interventions are indicated; yet, preliminary work quantifying and characterising the problem is required. We sought to identify the potential magnitude and determinants of elevated diabetes distress across study populations. Databases such as Medline, PsycINFO and Embase were searched for studies (<i>n</i> ≥50) administering the problem areas in Diabetes scale or Diabetes Distress scale, in adults with Type 1 or 2 diabetes. Random effects meta-analysis and meta-regression estimated the average rate of elevated diabetes distress and prognostic contribution of age, gender, HbA1c, and health-care context. Of the 16,627 citations identified, adequate data were available for 58 studies. On average, 22% of participants reported elevated diabetes distress. Only female gender and secondary care predicted a higher rate of elevated diabetes distress. A quarter of people with diabetes have a level of distress likely to impact outcomes. Secondary-care practitioners should be vigilant of women with diabetes.
DOI: 10.6084/m9.figshare.3494309.v1
title: High rates of elevated diabetes distress in research populations: A systematic review and meta-analysis

description: Diabetes distress has implications for diabetes end-points, hence targeted interventions are indicated; yet, preliminary work quantifying and characterising the problem is required. We sought to identify the potential magnitude and determinants of elevated diabetes distress across study populations. Databases such as Medline, PsycINFO and Embase were searched for studies (<i>n</i> ≥50) administering the problem areas in Diabetes scale or Diabetes Distress scale, in adults with Type 1 or 2 diabetes. Random effects meta-analysis and meta-regression estimated the average rate of elevated diabetes distress and prognostic contribution of age, gender, HbA1c, and health-care context. Of the 16,627 citations identified, adequate data were available for 58 studies. On average, 22% of participants reported elevated diabetes distress. Only female gender and secondary care predicted a higher rate of elevated diabetes distress. A quarter of people with diabetes have a level of distress likely to impact outcomes. Secondary-care practitioners should be vigilant of women with diabetes.
DOI: 10.6084/m9.figshare.3494294
title: Potential impacts of the loss of <i>Fraxinus excelsior</i> (Oleaceae) due to ash dieback on woodland vegetation in Great Britain

description: The non-native fungus <i>Hymenoscyphus fraxineus</i> which causes ash dieback is now established across much of Europe including the UK. The disease may potentially kill large numbers of <i>Fraxinus excelsior</i> (ash) trees in infected areas. Ash woods tend to be relatively rich in vascular plants and the composition of the flora might be expected to change if <i>F. excelsior</i> is lost and the environmental conditions (levels of shading, nutrient addition/recycling) change. We explore this possible scenario for the UK, using the floristic tables from the UK National Vegetation Classification (NVC) to identify for analysis eight ash-constant woodland types (where <i>F. excelsior</i> is a constant species) and four woodland types where <i>F. excelsior</i> is a frequent species. From these 12 communities, we identify 58 ground flora species that may be described as being ash woodland-associated species, including five species with some level of conservation protection. Changes in the ground flora are likely to be driven initially by increased light due to the opening up of the canopy as <i>F. excelsior</i> is lost, followed by increases in the shrub layer and eventually a closing of the canopy by other tree species. Using existing knowledge of plant species traits and habitat preferences (regeneration strategies, Ellenberg light values and Grime CSR scores) and community composition from NVC tables, we predict how the vascular plant community of ash-woodlands may change over time if <i>F. excelsior</i> is lost. We show that ash dieback could drive substantial changes in the ground flora community composition of currently ash-dominated woodlands.
DOI: 10.6084/m9.figshare.3494294.v1
title: Potential impacts of the loss of <i>Fraxinus excelsior</i> (Oleaceae) due to ash dieback on woodland vegetation in Great Britain

description: The non-native fungus <i>Hymenoscyphus fraxineus</i> which causes ash dieback is now established across much of Europe including the UK. The disease may potentially kill large numbers of <i>Fraxinus excelsior</i> (ash) trees in infected areas. Ash woods tend to be relatively rich in vascular plants and the composition of the flora might be expected to change if <i>F. excelsior</i> is lost and the environmental conditions (levels of shading, nutrient addition/recycling) change. We explore this possible scenario for the UK, using the floristic tables from the UK National Vegetation Classification (NVC) to identify for analysis eight ash-constant woodland types (where <i>F. excelsior</i> is a constant species) and four woodland types where <i>F. excelsior</i> is a frequent species. From these 12 communities, we identify 58 ground flora species that may be described as being ash woodland-associated species, including five species with some level of conservation protection. Changes in the ground flora are likely to be driven initially by increased light due to the opening up of the canopy as <i>F. excelsior</i> is lost, followed by increases in the shrub layer and eventually a closing of the canopy by other tree species. Using existing knowledge of plant species traits and habitat preferences (regeneration strategies, Ellenberg light values and Grime CSR scores) and community composition from NVC tables, we predict how the vascular plant community of ash-woodlands may change over time if <i>F. excelsior</i> is lost. We show that ash dieback could drive substantial changes in the ground flora community composition of currently ash-dominated woodlands.
DOI: 10.6084/m9.figshare.3494258
title: A new quality management perspective for biodiversity conservation and research: Investigating Biospecimen Reporting for Improved Study Quality (BRISQ) and the Standard PRE-analytical Code (SPREC) using Natural History Museum and culture collections as case studies

description: The aims of this paper are to debate and raise awareness about the use of systematic, interconnected approaches for biodiversity collection curation by exploring the multi-disciplinary relevance of quality management tools developed by clinical biobanks. An appraisal of their best practices indicated the need for improved sample and process chain annotation as a significant number of historical collections used in medical research were of inadequate quality. This stimulated the creation of a new discipline, biospecimen science to develop quality management tools for clinical biobanks, two of which, Biospecimen Reporting for Improved Study Quality (BRISQ) and the Standard PRE-analytical Code (SPREC) report critical information about samples and process chain variables. Unprecedented advances in molecular-genetic and <i>in silico</i> technologies applied across the tree of life require international conservation networks to generate and share knowledge. This is used in biodiversity and systematics research, and to address the accelerating loss of species, including the sustainable use of bioresources. This review investigates the application of BRISQ and SPREC for biodiversity research and conservation using natural history, museum and living culture collections as case studies. The distinction between preservation and conservation is discussed with regard to process and storage treatments and how they impact on the usability of biospecimens and cultures. We conclude: (i) more rigorous approaches are needed for the quality management of biospecimens, bioresources and their associated sample and processing data to assure their fitness-for-purpose; and (ii) biospecimen science tools developed by clinical biobanks can be adapted to future-proof the quality of biodiversity collections and the reliability of molecular data generated from their use.
DOI: 10.6084/m9.figshare.3494258.v2
title: A new quality management perspective for biodiversity conservation and research: Investigating Biospecimen Reporting for Improved Study Quality (BRISQ) and the Standard PRE-analytical Code (SPREC) using Natural History Museum and culture collections as case studies

description: The aims of this paper are to debate and raise awareness about the use of systematic, interconnected approaches for biodiversity collection curation by exploring the multi-disciplinary relevance of quality management tools developed by clinical biobanks. An appraisal of their best practices indicated the need for improved sample and process chain annotation as a significant number of historical collections used in medical research were of inadequate quality. This stimulated the creation of a new discipline, biospecimen science to develop quality management tools for clinical biobanks, two of which, Biospecimen Reporting for Improved Study Quality (BRISQ) and the Standard PRE-analytical Code (SPREC) report critical information about samples and process chain variables. Unprecedented advances in molecular-genetic and <i>in silico</i> technologies applied across the tree of life require international conservation networks to generate and share knowledge. This is used in biodiversity and systematics research, and to address the accelerating loss of species, including the sustainable use of bioresources. This review investigates the application of BRISQ and SPREC for biodiversity research and conservation using natural history, museum and living culture collections as case studies. The distinction between preservation and conservation is discussed with regard to process and storage treatments and how they impact on the usability of biospecimens and cultures. We conclude: (i) more rigorous approaches are needed for the quality management of biospecimens, bioresources and their associated sample and processing data to assure their fitness-for-purpose; and (ii) biospecimen science tools developed by clinical biobanks can be adapted to future-proof the quality of biodiversity collections and the reliability of molecular data generated from their use.
DOI: 10.6084/m9.figshare.3494258.v1
title: A new quality management perspective for biodiversity conservation and research: Investigating Biospecimen Reporting for Improved Study Quality (BRISQ) and the Standard PRE-analytical Code (SPREC) using Natural History Museum and culture collections as case studies

description: The aims of this paper are to debate and raise awareness about the use of systematic, interconnected approaches for biodiversity collection curation by exploring the multi-disciplinary relevance of quality management tools developed by clinical biobanks. An appraisal of their best practices indicated the need for improved sample and process chain annotation as a significant number of historical collections used in medical research were of inadequate quality. This stimulated the creation of a new discipline, biospecimen science to develop quality management tools for clinical biobanks, two of which, Biospecimen Reporting for Improved Study Quality (BRISQ) and the Standard PRE-analytical Code (SPREC) report critical information about samples and process chain variables. Unprecedented advances in molecular-genetic and <i>in silico</i> technologies applied across the tree of life require international conservation networks to generate and share knowledge. This is used in biodiversity and systematics research, and to address the accelerating loss of species, including the sustainable use of bioresources. This review investigates the application of BRISQ and SPREC for biodiversity research and conservation using natural history, museum and living culture collections as case studies. The distinction between preservation and conservation is discussed with regard to process and storage treatments and how they impact on the usability of biospecimens and cultures. We conclude: (i) more rigorous approaches are needed for the quality management of biospecimens, bioresources and their associated sample and processing data to assure their fitness-for-purpose; and (ii) biospecimen science tools developed by clinical biobanks can be adapted to future-proof the quality of biodiversity collections and the reliability of molecular data generated from their use.
DOI: 10.6084/m9.figshare.3494201
title: Describing knowledge encounters in healthcare: a mixed studies systematic review and development of a classification. Knowledge sources and influences data extraction - final data set

description: This data set contains all the studies screened as potentially eligible for: "Describing knowledge encounters in healthcare: a mixed studies systematic review and development of a classification".The data set includes the following for each paper:<br> Study details 1st Author Year Citation Author contact details Questions for author(s) Potentially relevant references Terms from title / abstract Design Study method(s) Description of tool(s) Validation of tool(s) Qual / Quant / Mixed Closed / open Cross-sectional / Longitudinal Study period if longitudinal Country Setting Participant healthcare group Participant numbers Sources Types of knowledge eligible Sources of knowledge (raw) Definitions / descriptions of knowledge sources Categories of knowledge (if developed) Influences Other contextual data Influences on use of different knowledge sources Theoretical models developed to explain influences Quality Assessment - MMAS
DOI: 10.6084/m9.figshare.3494201.v1
title: Describing knowledge encounters in healthcare: a mixed studies systematic review and development of a classification. Knowledge sources and influences data extraction - final data set

description: This data set contains all the studies screened as potentially eligible for: "Describing knowledge encounters in healthcare: a mixed studies systematic review and development of a classification".The data set includes the following for each paper:<br> Study details 1st Author Year Citation Author contact details Questions for author(s) Potentially relevant references Terms from title / abstract Design Study method(s) Description of tool(s) Validation of tool(s) Qual / Quant / Mixed Closed / open Cross-sectional / Longitudinal Study period if longitudinal Country Setting Participant healthcare group Participant numbers Sources Types of knowledge eligible Sources of knowledge (raw) Definitions / descriptions of knowledge sources Categories of knowledge (if developed) Influences Other contextual data Influences on use of different knowledge sources Theoretical models developed to explain influences Quality Assessment - MMAS
DOI: 10.6084/m9.figshare.3493994
title: SBML file for nutrient transition counter

description: SBML file for nutrient transition counter.
DOI: 10.6084/m9.figshare.3493994.v1
title: SBML file for nutrient transition counter

description: SBML file for nutrient transition counter.
DOI: 10.6084/m9.figshare.3493727
title: DocProva.xlsx

description: Document de prova per carregar a Figshare
DOI: 10.6084/m9.figshare.3493727.v1
title: DocProva.xlsx

description: Document de prova per carregar a Figshare