cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.7033190
title: MeSH to USDA NDB mappings

description: Manually curated mapping from the USDA Nutrient Databases to NIH Medical Subject Headings terminology. Useful for connecting nutrient composition values directly to PubMed literature.
DOI: 10.6084/m9.figshare.7033190.v1
title: MeSH to USDA NDB mappings

description: Manually curated mapping from the USDA Nutrient Databases to NIH Medical Subject Headings terminology. Useful for connecting nutrient composition values directly to PubMed literature.
DOI: 10.6084/m9.figshare.7033208.v1
title: ChEBI to USDA NDB mappings

description: Manually curated mapping from the USDA Nutrient Databases to EMBL-EBI's Chemical Entities of Biological Interest (ChEBI) ontology. Useful for connecting nutrient composition values directly to biochemical pathways and Cheminformatics resources.
DOI: 10.6084/m9.figshare.7033184
title: Driving Visual Stimuli (Egocentric Vision)

description: The Ethical Committee in School of Psychology, University of Lincoln, approved this study.
DOI: 10.6084/m9.figshare.7033184.v1
title: Driving Visual Stimuli (Egocentric Vision)

description: The Ethical Committee in School of Psychology, University of Lincoln, approved this study.
DOI: 10.6084/m9.figshare.7032944
title: Aligned long insertions

description: Aligned long insertions to the hg38 contig using BLAST
DOI: 10.6084/m9.figshare.7031129
title: Source code S1. An example R script for data analysis. from Network resilience of mutualistic ecosystems and environmental changes: an empirical study

description: It is theorized that a mutualistic ecosystem's resilience against perturbations (e.g. species extinction) is determined by a single macroscopic parameter (network resilience), calculable from the network. Given that such perturbations occur owing to environmental changes (e.g. climate change and human impact), it has been predicted that mutualistic ecosystems that exist despite extensive environmental changes exhibit higher network resilience; however, such a prediction has not been confirmed using real-world data. Thus, in this study, the effects of climate change velocity and human activities on mutualistic network resilience were investigated. A global dataset of plant–animal mutualistic networks was used, and spatial analysis was performed to examine the effects. Moreover, the potential confounding effects of network size, current climate and altitude were statistically controlled. It was demonstrated that mutualistic network resilience was globally influenced by warming velocity and human impact, in addition to current climate. Specifically, pollination network resilience increased in response to human impact, and seed-dispersal network resilience increased with warming velocity. The effect of environmental changes on network resilience for plants was remarkable. The results confirmed the prediction obtained based on the theory and imply that real-world mutualistic networks have a structure that increases ecosystem resilience against environmental changes. These findings will enhance the understanding of ecosystem resilience.
DOI: 10.6084/m9.figshare.7031126
title: Table S2. List of seed-dispersal networks. from Network resilience of mutualistic ecosystems and environmental changes: an empirical study

description: See Table S1 for description of table elements.
DOI: 10.6084/m9.figshare.7031123
title: Table S1. List of pollination networks. from Network resilience of mutualistic ecosystems and environmental changes: an empirical study

description: This table includes the network ID, network type (i.e., binary or weighted), reference, plant network resilience (βeff for plant networks), animal network resilience (βeff for animal networks), the number of plants (#Plants) and the number of animals (#Animals), the number of links (#Links), climatic and geographic parameters [i.e., longitude, latitude, elevation, mean annual temperature (Tmean), temperature seasonality (Tseasonality), annual precipitation (Pann), precipitation seasonality (Pseasonality), human impact, temperature-change (warming) velocity (Tvelocity), and precipitation-change velocity (Pvelocity)].
DOI: 10.6084/m9.figshare.7031123.v1
title: Table S1. List of pollination networks. from Network resilience of mutualistic ecosystems and environmental changes: an empirical study

description: This table includes the network ID, network type (i.e., binary or weighted), reference, plant network resilience (βeff for plant networks), animal network resilience (βeff for animal networks), the number of plants (#Plants) and the number of animals (#Animals), the number of links (#Links), climatic and geographic parameters [i.e., longitude, latitude, elevation, mean annual temperature (Tmean), temperature seasonality (Tseasonality), annual precipitation (Pann), precipitation seasonality (Pseasonality), human impact, temperature-change (warming) velocity (Tvelocity), and precipitation-change velocity (Pvelocity)].
DOI: 10.6084/m9.figshare.7031126.v1
title: Table S2. List of seed-dispersal networks. from Network resilience of mutualistic ecosystems and environmental changes: an empirical study

description: See Table S1 for description of table elements.
DOI: 10.6084/m9.figshare.7029344
title: 2-Phase SSN mesh (in)dependence investigation

description: 2-Phase SSN mesh (in)dependence investigation
DOI: 10.6084/m9.figshare.7029344.v1
title: 2-Phase SSN mesh (in)dependence investigation

description: 2-Phase SSN mesh (in)dependence investigation
DOI: 10.6084/m9.figshare.7029329
title: 2-Phase regularisation parameter effects investigation

description: Investigation into the effects of the Moreau-Yosida 2-Phase regularisation parameter.
DOI: 10.6084/m9.figshare.7029329.v1
title: 2-Phase regularisation parameter effects investigation

description: Investigation into the effects of the Moreau-Yosida 2-Phase regularisation parameter.
DOI: 10.6084/m9.figshare.7029317
title: My data 2016-2017.xlsx

description: 2016-2017,we collected the data about the plant indicators of 4 native forage under water stress and clipping treatment. In this experiment, there were 4 water treatment and 2 clipping treatment<br><br>C means Clipping; D means Drought
DOI: 10.6084/m9.figshare.7029314
title: grasshopper-preference

description: Do grasshoppers prefer genetically different cultivars of Bouteloua grass?<br>Data from the manuscript.<br>Please see :<br>https://github.com/avahoffman/grasshopper-preferenceFor most recent code, updates, etc.<br>
DOI: 10.6084/m9.figshare.7029314.v1
title: grasshopper-preference

description: Do grasshoppers prefer genetically different cultivars of Bouteloua grass?<br>Data from the manuscript.<br>Please see :<br>https://github.com/avahoffman/grasshopper-preferenceFor most recent code, updates, etc.<br>
DOI: 10.6084/m9.figshare.7029317.v1
title: My data 2016-2017.xlsx

description: 2016-2017,we collected the data about the plant indicators of 4 native forage under water stress and clipping treatment. In this experiment, there were 4 water treatment and 2 clipping treatment<br><br>C means Clipping; D means Drought
DOI: 10.6084/m9.figshare.7029296
title: 2-Phase MMS experiments - 4th degree regularisation

description: 2-Phase MMS experiments - 4th degree Moreau-Yosida regularisation
DOI: 10.6084/m9.figshare.7029287
title: 2-Phase MMS experiments - 2nd degree regularisation

description: 2-Phase MMS experiments - 2nd degree Moreau-Yosida regularisation
DOI: 10.6084/m9.figshare.7029296.v1
title: 2-Phase MMS experiments - 4th degree regularisation

description: 2-Phase MMS experiments - 4th degree Moreau-Yosida regularisation
DOI: 10.6084/m9.figshare.7029287.v1
title: 2-Phase MMS experiments - 2nd degree regularisation

description: 2-Phase MMS experiments - 2nd degree Moreau-Yosida regularisation
DOI: 10.6084/m9.figshare.7029269
title: Berthier and Semple - raw data files

description: Raw data files for Semple and Berthier (in review)
DOI: 10.6084/m9.figshare.7029269.v1
title: Berthier and Semple - raw data files

description: Raw data files for Semple and Berthier (in review)
DOI: 10.6084/m9.figshare.7029275
title: 2-Phase mass control blow-up

description: 2-Phase mass control blow-up experiments
DOI: 10.6084/m9.figshare.7029275.v1
title: 2-Phase mass control blow-up

description: 2-Phase mass control blow-up experiments
DOI: 10.6084/m9.figshare.7029242
title: 2-Phase mass control experiments

description: 2-Phase mass control experiments: Ohta-Kawasaki
DOI: 10.6084/m9.figshare.7029242.v1
title: 2-Phase mass control experiments

description: 2-Phase mass control experiments: Ohta-Kawasaki
DOI: 10.6084/m9.figshare.7029248
title: 2-Phase mass control convergence experiments

description: 2-Phase mass control convergence experiments: Ohta-Kawasaki
DOI: 10.6084/m9.figshare.7029227
title: Raw data.xlsx

description: The raw data for Muyang's dissertation
DOI: 10.6084/m9.figshare.7029248.v1
title: 2-Phase mass control convergence experiments

description: 2-Phase mass control convergence experiments: Ohta-Kawasaki
DOI: 10.6084/m9.figshare.7029209
title: Tree growth and stem carbon accumulation in human-modified Amazonian forests following drought and fire

description: Dataset used in the paper entitled <b>TREE GROWTH AND STEM CARBON ACCUMULATION IN HUMAN-MODIFIED AMAZONIAN FORESTS FOLLOWING DROUGHT AND FIRE</b>
DOI: 10.6084/m9.figshare.7029227.v1
title: Raw data.xlsx

description: The raw data for Muyang's dissertation
DOI: 10.6084/m9.figshare.7029206
title: Driver analysis of China's anthropogenic emissions 2010-2017

description: Drivers of China's anthropogenic emissions trends 2010-2017 estimated using the approach of Index Decomposition Analysis.
DOI: 10.6084/m9.figshare.7029209.v1
title: Tree growth and stem carbon accumulation in human-modified Amazonian forests following drought and fire

description: Dataset used in the paper entitled <b>TREE GROWTH AND STEM CARBON ACCUMULATION IN HUMAN-MODIFIED AMAZONIAN FORESTS FOLLOWING DROUGHT AND FIRE</b>
DOI: 10.6084/m9.figshare.7029206.v1
title: Driver analysis of China's anthropogenic emissions 2010-2017

description: Drivers of China's anthropogenic emissions trends 2010-2017 estimated using the approach of Index Decomposition Analysis.
DOI: 10.6084/m9.figshare.7029185
title: Autophagy mediates phosphatidylserine exposure and phagosome degradation during apoptosis through specific functions of GABARAP/LGG-1 and LC3/LGG-2

description: Phagocytosis and macroautophagy/autophagy are 2 processes involved in lysosome-mediated clearance of extracellular and intracellular components, respectively. Recent studies have identified the recruitment of the autophagic protein LC3 during phagocytosis of apoptotic corpses in what is now called LC3-associated phagocytosis (LAP). LAP is a distinct process from autophagy but it relies on some members of the autophagy pathway to allow efficient degradation of the phagocytosed cargo. We investigated whether both LC3/LGG-2 and GABARAP/LGG-1 are involved in phagocytosis of apoptotic corpses during embryonic development of <i>Caenorhabditis elegans</i>. We discovered that both LGG-1 and LGG-2 are involved in the correct elimination of apoptotic corpses, but that they have different functions. <i>lgg-1</i> and <i>lgg-2</i> mutants present a delay in phagocytosis of apoptotic cells but genetic analyses indicate that LGG-1 and LGG-2 act upstream and downstream of the engulfment pathways, respectively. Moreover, LGG-1 and LGG-2 display different cellular localizations with enrichment in apoptotic corpses and phagocytic cells, respectively. For both LGG-1 and LGG-2, subcellular localization is vesicular and dependent on UNC-51/ULK1, BEC-1/BECN1 and the lipidation machinery, indicating that their functions during phagocytosis of apoptotic corpses mainly rely on autophagy. Finally, we show that LGG-1 is involved in the exposure of the ‘eat-me signal’ phosphatidylserine at the surface of the apoptotic cell to allow its recognition by the phagocytic cell, whereas LGG-2 is involved in later steps of phagocytosis to allow efficient cell corpse clearance by mediating the maturation/degradation of the phagosome.
DOI: 10.6084/m9.figshare.7029185.v1
title: Autophagy mediates phosphatidylserine exposure and phagosome degradation during apoptosis through specific functions of GABARAP/LGG-1 and LC3/LGG-2

description: Phagocytosis and macroautophagy/autophagy are 2 processes involved in lysosome-mediated clearance of extracellular and intracellular components, respectively. Recent studies have identified the recruitment of the autophagic protein LC3 during phagocytosis of apoptotic corpses in what is now called LC3-associated phagocytosis (LAP). LAP is a distinct process from autophagy but it relies on some members of the autophagy pathway to allow efficient degradation of the phagocytosed cargo. We investigated whether both LC3/LGG-2 and GABARAP/LGG-1 are involved in phagocytosis of apoptotic corpses during embryonic development of <i>Caenorhabditis elegans</i>. We discovered that both LGG-1 and LGG-2 are involved in the correct elimination of apoptotic corpses, but that they have different functions. <i>lgg-1</i> and <i>lgg-2</i> mutants present a delay in phagocytosis of apoptotic cells but genetic analyses indicate that LGG-1 and LGG-2 act upstream and downstream of the engulfment pathways, respectively. Moreover, LGG-1 and LGG-2 display different cellular localizations with enrichment in apoptotic corpses and phagocytic cells, respectively. For both LGG-1 and LGG-2, subcellular localization is vesicular and dependent on UNC-51/ULK1, BEC-1/BECN1 and the lipidation machinery, indicating that their functions during phagocytosis of apoptotic corpses mainly rely on autophagy. Finally, we show that LGG-1 is involved in the exposure of the ‘eat-me signal’ phosphatidylserine at the surface of the apoptotic cell to allow its recognition by the phagocytic cell, whereas LGG-2 is involved in later steps of phagocytosis to allow efficient cell corpse clearance by mediating the maturation/degradation of the phagosome.
DOI: 10.6084/m9.figshare.7029146.v1
title: Drivers of China's anthropogenic emissions trends 2010-2017

description: Drivers of China's anthropogenic emissions trends 2010-2017 estimated using the approach of Index Decomposition Analysis.<br>
DOI: 10.6084/m9.figshare.7029146.v2
title: Drivers of China's anthropogenic emissions trends 2010-2017

description: Drivers of China's anthropogenic emissions trends 2010-2017 estimated using the approach of Index Decomposition Analysis.<br>
DOI: 10.6084/m9.figshare.7029041
title: China’s anthropogenic emissions trends 2010-2017

description: China's atmospheric anthropogenic emissions by sector for the period of 2010-2017
DOI: 10.6084/m9.figshare.7029035
title: 2-phase simulation time extension

description: 2-phase simulation time extension
DOI: 10.6084/m9.figshare.7029041.v1
title: China’s anthropogenic emissions trends 2010-2017

description: China's atmospheric anthropogenic emissions by sector for the period of 2010-2017
DOI: 10.6084/m9.figshare.7029035.v1
title: 2-phase simulation time extension

description: 2-phase simulation time extension
DOI: 10.6084/m9.figshare.7029020
title: Giant stem rosettes have strong facilitation effects on alpine plant communities in the tropical Andes

description: <b>Background</b>: Giant rosettes constitute one of the most distinctive growth-forms in tropical alpine ecosystems. However, their interactions with other plant species remain unexplored in high Andean páramos. <b>Aims</b>: Quantify the effect of a dominant rosette (<i>Coespeletia timotensis</i>) on soil and microclimatic conditions and relate the impacts to plant community structure. <b>Methods</b>: We analysed topsoil temperatures, soil organic matter (SOM) and plant species cover in areas adjacent to <i>C. timotensis</i> and paired areas outside, at three sites (4250–4360 m a.s.l.) in La Culata National Park, Venezuela. Species richness, total vegetation cover and percent cover of each species near and away from the rosettes were compared. <b>Results</b>: Topsoil temperature amplitudes were lower and SOM greater near <i>C. timotensis</i> stems, compared to areas away from them. <i>C. timotensis</i> had a consistent positive effect on species richness, vegetation cover and the cover of many abundant species (including cushions and herbs). <b>Conclusions</b>: The facilitation effects of <i>C. timotensis</i> on abiotic conditions and community structure indicate they play a key role as nurse plants, pointing to giant rosettes as foundation species for the maintenance of plant diversity in the alpine tropics.
DOI: 10.6084/m9.figshare.7029029
title: 2-Phase ODT transition investigation (set 5)

description: 2-Phase ODT transition investigation (set 5)
DOI: 10.6084/m9.figshare.7029029.v1
title: 2-Phase ODT transition investigation (set 5)

description: 2-Phase ODT transition investigation (set 5)
DOI: 10.6084/m9.figshare.7029017
title: Inheritance of fertility restoration of male-sterility conferred by cytotype Y and identification of instability of male fertility phenotypes in onion (<i>Allium cepa</i> L.)

description: A novel onion (<i>Allium cepa</i> L.) cytoplasm, cytotype Y, was found in a previous study. Cytotype Y contained unique stoichiometry of <i>coxI</i> and <i>orf725</i>, a candidate gene responsible for male-sterility induction in onions. A S<sub>1</sub> segregating population was produced from a single plant selected from PI273626. Although male-fertility segregated in this population, the ratio significantly deviated from single-gene inheritance. However, genotypes of RF31446 marker perfectly linked to <i>Ms</i> locus-controlling fertility restoration completely matched with male-fertility phenotypes, indicating that male-fertility restoration of male-sterility conferred by cytotype Y might be determined by the <i>Ms</i> locus. One plant derived from the S<sub>1</sub> population showed discrepancy between male-fertility phenotype and RF31446 genotype. Although the RF31446 genotype was homozygous recessive, reduced amount of pollen grains were observed in anthers. Many pollen grains of the unstable male-sterile plant were deformed. Analysis of 13 molecular markers flanking the <i>Ms</i> locus showed no crossover between the <i>Ms</i> locus and the RF31446 marker. Ten more unstable male-sterile plants were identified from open-pollinated progenies of the unstable male-sterile plant. Viable seeds were successfully produced from unstable male-sterile plants, indicating that pollen grains of the unstable male-sterile plants were partially viable. In addition, an umbel containing unstable male-fertile flowers was identified from one of maintainer lines, although both male and female organs might be sterile in these flowers.
DOI: 10.6084/m9.figshare.7029020.v1
title: Giant stem rosettes have strong facilitation effects on alpine plant communities in the tropical Andes

description: <b>Background</b>: Giant rosettes constitute one of the most distinctive growth-forms in tropical alpine ecosystems. However, their interactions with other plant species remain unexplored in high Andean páramos. <b>Aims</b>: Quantify the effect of a dominant rosette (<i>Coespeletia timotensis</i>) on soil and microclimatic conditions and relate the impacts to plant community structure. <b>Methods</b>: We analysed topsoil temperatures, soil organic matter (SOM) and plant species cover in areas adjacent to <i>C. timotensis</i> and paired areas outside, at three sites (4250–4360 m a.s.l.) in La Culata National Park, Venezuela. Species richness, total vegetation cover and percent cover of each species near and away from the rosettes were compared. <b>Results</b>: Topsoil temperature amplitudes were lower and SOM greater near <i>C. timotensis</i> stems, compared to areas away from them. <i>C. timotensis</i> had a consistent positive effect on species richness, vegetation cover and the cover of many abundant species (including cushions and herbs). <b>Conclusions</b>: The facilitation effects of <i>C. timotensis</i> on abiotic conditions and community structure indicate they play a key role as nurse plants, pointing to giant rosettes as foundation species for the maintenance of plant diversity in the alpine tropics.
DOI: 10.6084/m9.figshare.7029017.v1
title: Inheritance of fertility restoration of male-sterility conferred by cytotype Y and identification of instability of male fertility phenotypes in onion (<i>Allium cepa</i> L.)

description: A novel onion (<i>Allium cepa</i> L.) cytoplasm, cytotype Y, was found in a previous study. Cytotype Y contained unique stoichiometry of <i>coxI</i> and <i>orf725</i>, a candidate gene responsible for male-sterility induction in onions. A S<sub>1</sub> segregating population was produced from a single plant selected from PI273626. Although male-fertility segregated in this population, the ratio significantly deviated from single-gene inheritance. However, genotypes of RF31446 marker perfectly linked to <i>Ms</i> locus-controlling fertility restoration completely matched with male-fertility phenotypes, indicating that male-fertility restoration of male-sterility conferred by cytotype Y might be determined by the <i>Ms</i> locus. One plant derived from the S<sub>1</sub> population showed discrepancy between male-fertility phenotype and RF31446 genotype. Although the RF31446 genotype was homozygous recessive, reduced amount of pollen grains were observed in anthers. Many pollen grains of the unstable male-sterile plant were deformed. Analysis of 13 molecular markers flanking the <i>Ms</i> locus showed no crossover between the <i>Ms</i> locus and the RF31446 marker. Ten more unstable male-sterile plants were identified from open-pollinated progenies of the unstable male-sterile plant. Viable seeds were successfully produced from unstable male-sterile plants, indicating that pollen grains of the unstable male-sterile plants were partially viable. In addition, an umbel containing unstable male-fertile flowers was identified from one of maintainer lines, although both male and female organs might be sterile in these flowers.
DOI: 10.6084/m9.figshare.7029002
title: 2-Phase ODT transition investigation (set 3)

description: 2-Phase ODT transition investigation (set 3)
DOI: 10.6084/m9.figshare.7029008
title: 2-Phase ODT transition investigation (set 4)

description: 2-Phase ODT transition investigation (set 4)
DOI: 10.6084/m9.figshare.7029002.v1
title: 2-Phase ODT transition investigation (set 3)

description: 2-Phase ODT transition investigation (set 3)
DOI: 10.6084/m9.figshare.7029008.v1
title: 2-Phase ODT transition investigation (set 4)

description: 2-Phase ODT transition investigation (set 4)
DOI: 10.6084/m9.figshare.7028996
title: Supplemental Files.zip

description: Supplemental files associated with the article entitled "Using Diagnostic Classification Models to Validate Attribute Hierarchies and Evaluate Model Fit in Bayesian Networks"<br>
DOI: 10.6084/m9.figshare.7028996.v1
title: Supplemental Files.zip

description: Supplemental files associated with the article entitled "Using Diagnostic Classification Models to Validate Attribute Hierarchies and Evaluate Model Fit in Bayesian Networks"<br>
DOI: 10.6084/m9.figshare.7028996.v2
title: Supplemental Files.zip

description: Supplemental files associated with the article entitled "Using Diagnostic Classification Models to Validate Attribute Hierarchies and Evaluate Model Fit in Bayesian Networks"<br>
DOI: 10.6084/m9.figshare.7028984
title: 2-Phase ODT transition investigation (set 2)

description: 2-Phase ODT transition investigation (set 2)
DOI: 10.6084/m9.figshare.7028969
title: 2-Phase pulse-shift gradient flow experiments

description: A set of 2-phase pulse-shift gradient flow experiments
DOI: 10.6084/m9.figshare.7028984.v2
title: 2-Phase ODT transition investigation (set 2)

description: 2-Phase ODT transition investigation (set 2)
DOI: 10.6084/m9.figshare.7028984.v1
title: 2-Phase ODT transition investigation

description: 2-Phase ODT transition investigation
DOI: 10.6084/m9.figshare.7028969.v2
title: 2-Phase pulse-shift gradient flow experiments

description: A set of 2-phase pulse-shift gradient flow experiments