cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.6741494
title: Supplementary Dataset 4

description: Contains three 600sec MEA recordings in mcd format (MC_Rack, MultichannelSystems). <br>A- glucose control<br>B- galactose<br>C- glucose replenishment<br>
DOI: 10.6084/m9.figshare.6741494.v1
title: Supplementary Dataset 4

description: Contains three 600sec MEA recordings in mcd format (MC_Rack, MultichannelSystems). <br>A- glucose control<br>B- galactose<br>C- glucose replenishment<br>
DOI: 10.6084/m9.figshare.6741491
title: Metabolite BridgeDb ID Mapping Database (20180705)

description: BridgeDb ID mapping database for metabolites, using HMDB 4.0 (Release of 18 June 2018), ChEBI 165, and Wikidata (07 July 2018) as data sources. <br>Two major changes:- 120% more mappings to LIPID MAPS IDs (from Wikidata).- Change in mapping between old(secondary) and new (primary) HMDB IDs.<br><i>This work was funded by ELIXIR, the research infrastructure for life-science data.</i><br>
DOI: 10.6084/m9.figshare.6741485
title: Supplementary Dataset 3

description: Contains four 600sec MEA recordings in mcd format (MC_Rack, MultichannelSystems). <br>A- d-glucose control<br>B- l-glucose 10min<br>C- l-glucose 20min<br>D- d-glucose replenishment<br>
DOI: 10.6084/m9.figshare.6741482
title: Supplementary Material for: Concern about Falling and Complexity of Free-Living Physical Activity Patterns in Well-Functioning Older Adults

description: <b><i>Background:</i></b> Fall-related psychological concerns are common among older adults, potentially contributing to functional decline as well as to restriction of activities and social participation. To effectively prevent such negative consequences, it is important to understand how even very low concern about falling could affect physical activity behavior in everyday life. We hypothesized that concern about falling is associated with a reduction in diversity, dynamics, and performance of daily activities, and that these features can be comprehensively quantified in terms of complexity of physical activity patterns. <b><i>Methods:</i></b> A sample of 40 community-dwelling older adults were assessed for concern about falling using the Falls Efficacy Scale-International (FES-I). Free-living physical activity was assessed using a set of metrics derived from data recorded with a chest-worn tri-axial accelerometer. The devised metrics characterized physical activity behavior in terms of endurance (total locomotion time, longest locomotion period, usual walking cadence), performance (cadence of longest locomotion period, locomotion periods with at least 30 steps and 100 steps/min), and complexity<b><i></i></b> of physical activity patterns. Complexity was quantified according to variations in type, intensity, and duration of activities, and was considered as an adaptive response to environmental exigencies over the course of the day. <b><i>Results:</i></b> Based on FES-I score, participants were classified into two groups: not concerned at all/fully confident (<i>n</i> = 25) and concerned/less confident (<i>n</i> = 15). Demographic and health-related variables did not differ significantly between groups. Comparison of physical activity behavior indicated no significant differences for endurance-related metrics. In contrast, performance and complexity metrics were significantly lower in the less confident group compared to the fully confident group. Among all metrics, complexity of physical activity patterns appeared as the most discriminative feature between fully confident and less confident participants (<i>p</i> = 0.001, non-parametric Cliff’s delta effect size = 0.63). <b><i>Conclusions:</i></b> These results extend our understanding of the interplay between low concern about falling and physical activity behavior of community-dwelling older persons in their everyday life context. This information could serve to better design and evaluate personalized intervention programs in future prospective studies.
DOI: 10.6084/m9.figshare.6741479
title: Supplementary Dataset 2

description: Contains four 600sec MEA recordings in mcd format (MC_Rack, MultichannelSystems). <br>A- glucose and pyruvate<br>B- no substrate 10min<br>C- no substrate 20min<br>D- glucose alone<br>
DOI: 10.6084/m9.figshare.6741485.v1
title: Supplementary Dataset 3

description: Contains four 600sec MEA recordings in mcd format (MC_Rack, MultichannelSystems). <br>A- d-glucose control<br>B- l-glucose 10min<br>C- l-glucose 20min<br>D- d-glucose replenishment<br>
DOI: 10.6084/m9.figshare.6741479.v1
title: Supplementary Dataset 2

description: Contains four 600sec MEA recordings in mcd format (MC_Rack, MultichannelSystems). <br>A- glucose and pyruvate<br>B- no substrate 10min<br>C- no substrate 20min<br>D- glucose alone<br>
DOI: 10.6084/m9.figshare.6741482.v1
title: Supplementary Material for: Concern about Falling and Complexity of Free-Living Physical Activity Patterns in Well-Functioning Older Adults

description: <b><i>Background:</i></b> Fall-related psychological concerns are common among older adults, potentially contributing to functional decline as well as to restriction of activities and social participation. To effectively prevent such negative consequences, it is important to understand how even very low concern about falling could affect physical activity behavior in everyday life. We hypothesized that concern about falling is associated with a reduction in diversity, dynamics, and performance of daily activities, and that these features can be comprehensively quantified in terms of complexity of physical activity patterns. <b><i>Methods:</i></b> A sample of 40 community-dwelling older adults were assessed for concern about falling using the Falls Efficacy Scale-International (FES-I). Free-living physical activity was assessed using a set of metrics derived from data recorded with a chest-worn tri-axial accelerometer. The devised metrics characterized physical activity behavior in terms of endurance (total locomotion time, longest locomotion period, usual walking cadence), performance (cadence of longest locomotion period, locomotion periods with at least 30 steps and 100 steps/min), and complexity<b><i></i></b> of physical activity patterns. Complexity was quantified according to variations in type, intensity, and duration of activities, and was considered as an adaptive response to environmental exigencies over the course of the day. <b><i>Results:</i></b> Based on FES-I score, participants were classified into two groups: not concerned at all/fully confident (<i>n</i> = 25) and concerned/less confident (<i>n</i> = 15). Demographic and health-related variables did not differ significantly between groups. Comparison of physical activity behavior indicated no significant differences for endurance-related metrics. In contrast, performance and complexity metrics were significantly lower in the less confident group compared to the fully confident group. Among all metrics, complexity of physical activity patterns appeared as the most discriminative feature between fully confident and less confident participants (<i>p</i> = 0.001, non-parametric Cliff’s delta effect size = 0.63). <b><i>Conclusions:</i></b> These results extend our understanding of the interplay between low concern about falling and physical activity behavior of community-dwelling older persons in their everyday life context. This information could serve to better design and evaluate personalized intervention programs in future prospective studies.
DOI: 10.6084/m9.figshare.6741476
title: Metatranscriptomic insights into microbial consortia driving methane metabolism in paddy soils

description: Flooded paddy soils are global sources of the greenhouse gas methane. Net methane fluxes from paddy fields reflect the sum of methane generation in the anoxic zone and methane consumption in the oxic zone, which are driven by methanogenic archaea and methanotrophic bacteria, respectively. Furthermore, methanogenic archaea produce methane utilizing hydrogen or acetate generated by hydrogen-producing bacteria or acetogenic bacteria, respectively. Therefore, methane emissions are regulated and orchestrated by hydrogen production, acetogenesis, methanogenesis, and methane oxidation. However, a comprehensive understanding of the microbial consortia that regulate methane emissions has yet to be achieved owing to the lack of simultaneous assessments of microbial drivers involved in these four processes, especially the production of hydrogen and acetate, which are primary substrates for methanogenesis. In this study, the transcriptional profiles of genes encoding the enzymes that catalyze each process were comprehensively investigated by shotgun RNA sequencing analysis (metatranscriptomics). Seasonal and spatial transitions in soil redox potentials and the transcriptional activities of methanogens indicated active methane metabolism in paddy soils 5 weeks after waterlogging, when the soil redox conditions of the surface (0–1 cm depth; S layer) and subsurface (5–7 cm depth; D layer) were the most divergent. Deep metatranscriptomics focusing on such soils suggested that: (1) in the anoxic D layer, rather than in the oxic S layer, <i>Deltaproteobacteria, Acidobacteria</i>, and <i>Planctomycetes</i> actively generate hydrogen; (2) <i>Deltaproteobacteria, Betaproteobacteria, Acidobacteria</i>, and <i>Alphaproteobacteria</i> generate acetate; (3) utilizing these products as substrates for methanogenesis, the archaea <i>Methanocella, Methanoregula</i>, and <i>Methanosaeta</i> actively produce methane; (4) concurrently, in the oxic S layer, methanotrophs related to <i>Methylocystis</i> and <i>Methylogaea</i> oxidize methane. The present study represents the first comprehensive report of the community structure and dynamics of the microbial consortia underpinning the methane emissions from paddy fields.
DOI: 10.6084/m9.figshare.6741476.v1
title: Metatranscriptomic insights into microbial consortia driving methane metabolism in paddy soils

description: Flooded paddy soils are global sources of the greenhouse gas methane. Net methane fluxes from paddy fields reflect the sum of methane generation in the anoxic zone and methane consumption in the oxic zone, which are driven by methanogenic archaea and methanotrophic bacteria, respectively. Furthermore, methanogenic archaea produce methane utilizing hydrogen or acetate generated by hydrogen-producing bacteria or acetogenic bacteria, respectively. Therefore, methane emissions are regulated and orchestrated by hydrogen production, acetogenesis, methanogenesis, and methane oxidation. However, a comprehensive understanding of the microbial consortia that regulate methane emissions has yet to be achieved owing to the lack of simultaneous assessments of microbial drivers involved in these four processes, especially the production of hydrogen and acetate, which are primary substrates for methanogenesis. In this study, the transcriptional profiles of genes encoding the enzymes that catalyze each process were comprehensively investigated by shotgun RNA sequencing analysis (metatranscriptomics). Seasonal and spatial transitions in soil redox potentials and the transcriptional activities of methanogens indicated active methane metabolism in paddy soils 5 weeks after waterlogging, when the soil redox conditions of the surface (0–1 cm depth; S layer) and subsurface (5–7 cm depth; D layer) were the most divergent. Deep metatranscriptomics focusing on such soils suggested that: (1) in the anoxic D layer, rather than in the oxic S layer, <i>Deltaproteobacteria, Acidobacteria</i>, and <i>Planctomycetes</i> actively generate hydrogen; (2) <i>Deltaproteobacteria, Betaproteobacteria, Acidobacteria</i>, and <i>Alphaproteobacteria</i> generate acetate; (3) utilizing these products as substrates for methanogenesis, the archaea <i>Methanocella, Methanoregula</i>, and <i>Methanosaeta</i> actively produce methane; (4) concurrently, in the oxic S layer, methanotrophs related to <i>Methylocystis</i> and <i>Methylogaea</i> oxidize methane. The present study represents the first comprehensive report of the community structure and dynamics of the microbial consortia underpinning the methane emissions from paddy fields.
DOI: 10.6084/m9.figshare.6741464
title: Supplementary Dataset 1

description: Contains four 600sec MEA recordings in mcd format (MC_Rack, MultichannelSystems): <br>A- control<br>B- cnqx<br>C- wash<br>D- ttx<br><br>
DOI: 10.6084/m9.figshare.6741470
title: Comparative characterization of aluminum responsive transcriptome in Arabidopsis roots: comparison with other rhizotoxic ions at different stress intensities

description: Under abiotic stress conditions, plants actively modify the transcriptome either for activation of stress tolerance mechanisms or adjustment of biological processes for adaptation to the stress. Comparative analysis of transcriptome data under different stressors and stress intensities is useful to understand how plants balance growth and survival under stress conditions. In this study, the transcriptome of Arabidopsis roots was investigated in response to four rhizotoxic stressors, namely aluminum (Al<sup>3+</sup>), cadmium (Cd<sup>2+</sup>), and copper (Cu<sup>2+</sup>) ions and sodium chloride (NaCl), under mild stress (50% inhibition of root elongation compared with the control) and severe stress (&gt;90% inhibition of root elongation). Only Al treatment showed similar transcriptome responses between the stress intensities. The shared Al-specific up-regulated genes included known Al-tolerance genes and downstream genes of <i>SENSITIVE TO PROTON1</i> (<i>STOP1</i>) such as <i>ALUMINUM ACTIVATED MALATE TRANSPORTER1</i> and malic enzymes, suggesting that Al-defense mechanisms regulated by STOP1 might be activated over a broader range of Al stress intensities. The sulfur metabolism pathway was activated only under severe Al stress, suggesting that rapid activation of sulfur metabolism is crucial for survival of root cells in the early stage of severe Al stress. A large number of genes associated with the response mechanism to reactive oxygen species production were up-regulated by Cd and Cu treatment under both severe and mild stress, but the members of the genes sets differed between the stress severities. The results indicated that Cd and Cu stress trigger common transcriptional responses, but the responses are likely associated with the stress severity. The transcriptional response to mild NaCl stress was relatively smaller compared with those to the other stressors, suggesting that in Arabidopsis different mechanisms other than rapid transcriptomic responses are involved in the response to NaCl stress. Comparison between Al and the other stressors indicated that the STOP1 regulation system and central metabolic pathways contribute to the similarity of the transcriptional response to different intensities of Al stress. The results suggest that robustness of transcriptionally regulated Al tolerance systems to different stress intensities is important for both of growth and survival in plant roots under Al stress.
DOI: 10.6084/m9.figshare.6741464.v1
title: Supplementary Dataset 1

description: Contains four 600sec MEA recordings in mcd format (MC_Rack, MultichannelSystems): <br>A- control<br>B- cnqx<br>C- wash<br>D- ttx<br><br>
DOI: 10.6084/m9.figshare.6741470.v1
title: Comparative characterization of aluminum responsive transcriptome in Arabidopsis roots: comparison with other rhizotoxic ions at different stress intensities

description: Under abiotic stress conditions, plants actively modify the transcriptome either for activation of stress tolerance mechanisms or adjustment of biological processes for adaptation to the stress. Comparative analysis of transcriptome data under different stressors and stress intensities is useful to understand how plants balance growth and survival under stress conditions. In this study, the transcriptome of Arabidopsis roots was investigated in response to four rhizotoxic stressors, namely aluminum (Al<sup>3+</sup>), cadmium (Cd<sup>2+</sup>), and copper (Cu<sup>2+</sup>) ions and sodium chloride (NaCl), under mild stress (50% inhibition of root elongation compared with the control) and severe stress (&gt;90% inhibition of root elongation). Only Al treatment showed similar transcriptome responses between the stress intensities. The shared Al-specific up-regulated genes included known Al-tolerance genes and downstream genes of <i>SENSITIVE TO PROTON1</i> (<i>STOP1</i>) such as <i>ALUMINUM ACTIVATED MALATE TRANSPORTER1</i> and malic enzymes, suggesting that Al-defense mechanisms regulated by STOP1 might be activated over a broader range of Al stress intensities. The sulfur metabolism pathway was activated only under severe Al stress, suggesting that rapid activation of sulfur metabolism is crucial for survival of root cells in the early stage of severe Al stress. A large number of genes associated with the response mechanism to reactive oxygen species production were up-regulated by Cd and Cu treatment under both severe and mild stress, but the members of the genes sets differed between the stress severities. The results indicated that Cd and Cu stress trigger common transcriptional responses, but the responses are likely associated with the stress severity. The transcriptional response to mild NaCl stress was relatively smaller compared with those to the other stressors, suggesting that in Arabidopsis different mechanisms other than rapid transcriptomic responses are involved in the response to NaCl stress. Comparison between Al and the other stressors indicated that the STOP1 regulation system and central metabolic pathways contribute to the similarity of the transcriptional response to different intensities of Al stress. The results suggest that robustness of transcriptionally regulated Al tolerance systems to different stress intensities is important for both of growth and survival in plant roots under Al stress.
DOI: 10.6084/m9.figshare.6741443
title: Dataset: Experimental observation of increased apparent dispersion and mixing in a beach aquifer due to wave forcing

description: This dataset is analysed and reported in the paper:<br><br>Rau, G C; Andersen, M S; Turner, I L (under review) Experimental observation of increased apparent dispersion and mixing in a beach aquifer due to wave forcing, Advances in Water Resources.
DOI: 10.6084/m9.figshare.6741443.v1
title: Experimental observation of increased apparent dispersion and mixing in a beach aquifer due to wave forcing

description: This dataset is analysed and reported in the paper:<br><br>Rau, G C; Andersen, M S; Turner, I L (under review) Experimental observation of increased apparent dispersion and mixing in a beach aquifer due to wave forcing, Advances in Water Resources.
DOI: 10.6084/m9.figshare.6741446.v3
title: COCI N-Triples dataset of the provenance information of all the citation data

description: This dataset contains the provenance information (in N-Triples format) of all the citation data included in COCI, released on the 12th of November 2018. In particular, any citation in the dataset includes the following provenance information:<b>[citation IRI]</b> the Open Citation Identifier (OCI) for the citation, defined in the final part of the URL identifying the citation (https://w3id.org/oc/index/coci/ci/[OCI]);;<b>[property "prov:wasAttributedTo"]</b> the IRI of the agent that have created the citation data;<b>[property "prov:hadPrimarySource"]</b> the IRI of the source dataset from where the citation data have been extracted;<b>[property "prov:generatedAtTime"]</b> the creation time of the citation data.The size of the zipped archive is 11 GB, while the size of the unzipped N-Triples file is 292 GB.<br>Additional information about COCI can be retrieved in the official webpage and in the introductory blog post in the OpenCitations blog.
DOI: 10.6084/m9.figshare.6741446.v4
title: COCI N-Triples dataset of the provenance information of all the citation data

description: This dataset contains the provenance information (in N-Triples format) of all the citation data included in COCI, released on the 21st of January 2020. In particular, any citation in the dataset includes the following provenance information:<b>[citation IRI]</b> the Open Citation Identifier (OCI) for the citation, defined in the final part of the URL identifying the citation (https://w3id.org/oc/index/coci/ci/[OCI]);;<b>[property "prov:wasAttributedTo"]</b> the IRI of the agent that have created the citation data;<b>[property "prov:hadPrimarySource"]</b> the IRI of the source dataset from where the citation data have been extracted;<b>[property "prov:generatedAtTime"]</b> the creation time of the citation data.The size of the zipped archive is 32.3 GB, while the size of the unzipped N-Triples file is 1.37 TB.<br>Additional information about COCI can be retrieved in the official webpage.
DOI: 10.6084/m9.figshare.6741446.v5
title: COCI N-Triples dataset of the provenance information of all the citation data

description: This dataset contains the provenance information (in N-Triples format) of all the citation data included in COCI, released on the 23rd of March 2020. In particular, any citation in the dataset includes the following provenance information:<b>[citation IRI]</b> the Open Citation Identifier (OCI) for the citation, defined in the final part of the URL identifying the citation (https://w3id.org/oc/index/coci/ci/[OCI]);;<b>[property "prov:wasAttributedTo"]</b> the IRI of the agent that have created the citation data;<b>[property "prov:hadPrimarySource"]</b> the IRI of the source dataset from where the citation data have been extracted;<b>[property "prov:generatedAtTime"]</b> the creation time of the citation data.The size of the zipped archive is 34.6 GB, while the size of the unzipped N-Triples file is 1.44 TB.<br>Additional information about COCI can be retrieved in the official webpage.
DOI: 10.6084/m9.figshare.6741431.v3
title: COCI CSV dataset of the provenance information of all the citation data

description: This dataset contains the provenance information (in CSV format) of all the citation data included in COCI, released on the 12th of November 2018. In particular, each line of the CSV file defines a citation, and includes the following information:<b>[field "oci"]</b> the Open Citation Identifier (OCI) for the citation;<b>[field "agent"]</b> the name of the agent that have created the citation data;<b>[field "source"]</b> the URL of the source dataset from where the citation data have been extracted;<b>[field "datetime"]</b> the creation time of the citation data.The size of the zipped archive is 5.3 GB, while the size of the unzipped CSV file is 77 GB.<br>Additional information about COCI can be retrieved in the official webpage and in the introductory blog post in the OpenCitations blog.
DOI: 10.6084/m9.figshare.6741446.v6
title: COCI N-Triples dataset of the provenance information of all the citation data

description: This dataset contains the provenance information (in N-Triples format) of all the citation data included in COCI, released on the 12 May 2020. In particular, any citation in the dataset includes the following provenance information:<b>[citation IRI]</b> the Open Citation Identifier (OCI) for the citation, defined in the final part of the URL identifying the citation (https://w3id.org/oc/index/coci/ci/[OCI]);;<b>[property "prov:wasAttributedTo"]</b> the IRI of the agent that have created the citation data;<b>[property "prov:hadPrimarySource"]</b> the IRI of the source dataset from where the citation data have been extracted;<b>[property "prov:generatedAtTime"]</b> the creation time of the citation data.The size of the zipped archive is 37.1 GB, while the size of the unzipped N-Triples file is 1.54 TB.<br>Additional information about COCI can be retrieved in the official webpage.