cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.4588384.v4
title: Raw data.pdf

description: spindle length and migration in oocytes.
DOI: 10.6084/m9.figshare.4588357.v4
title: Czteroletni wykaz czasopism (wersja xlsx)

description: Wszystkie artykuły opublikowane w latach 2013–2016 będą punktowane według tego wykazu. Wcześniejsze wykazy przestają obowiązywać w kategoryzacji jednostek naukowych prowadzonej w tym roku.
DOI: 10.6084/m9.figshare.4588384.v3
title: Raw data of spindle length and migration in oocytes.pdf

description: spindle length and migration in oocytes.
DOI: 10.6084/m9.figshare.4588357.v3
title: Czteroletni wykaz czasopism (wersja xlsx)

description: Wszystkie artykuły opublikowane w latach 2013–2016 będą punktowane według tego wykazu. Wcześniejsze wykazy przestają obowiązywać w kategoryzacji jednostek naukowych prowadzonej w tym roku.
DOI: 10.6084/m9.figshare.4588276
title: CERN@school: Radiation Profiles sample dataset

description: This dataset contains copies of the original data used in the radiation profiles experiment reported in "<em>CERN@school: demonstrating physics with the Timepix detector</em>" [1]. Please refer to this paper for more information.<br>[1] T. Whyntie et al. "<em>CERN@school: demonstrating physics with the Timepix detector</em>", Contemporary Physics, DOI: 10.1080/00107514.2015.1045193 (2015)<i>CERN@school was supported by the UK Science and Technology Facilities Council (STFC) via grant numbers ST/J000256/1 and ST/N00101X/1, as well as a Special Award from the Royal Commission for the Exhibition of 1851.</i><br>
DOI: 10.6084/m9.figshare.4588270
title: EducationFundingB.xlsx

description: Two spreadsheets that were used in a controlled experiment to determine the effect of formula location on the maintainability of spreadsheets.
DOI: 10.6084/m9.figshare.4588270.v1
title: EducationFundingB.xlsx

description: Two spreadsheets that were used in a controlled experiment to determine the effect of formula location on the maintainability of spreadsheets.
DOI: 10.6084/m9.figshare.4588276.v1
title: CERN@school:

description: This dataset contains copies of the original data used in the radiation profiles experiment reported in "<em>CERN@school: demonstrating physics with the Timepix detector</em>" [1]. Please refer to this paper for more information.<br>[1] T. Whyntie et al. "<em>CERN@school: demonstrating physics with the Timepix detector</em>", Contemporary Physics, DOI: 10.1080/00107514.2015.1045193 (2015)<i>CERN@school was supported by the UK Science and Technology Facilities Council (STFC) via grant numbers ST/J000256/1 and ST/N00101X/1, as well as a Special Award from the Royal Commission for the Exhibition of 1851.</i><br>
DOI: 10.6084/m9.figshare.4587517
title: Exotic weeds and fluctuating microclimate can constrain native plant regeneration in urban forest restoration

description: We studied two indicators of ecological restoration success in temperate rainforests: native tree regeneration and epiphyte colonization. Our analyses, including structural equation modeling using R, identified the biotic and abiotic conditions that constrain colonization by these late successional plant groups.<br>
DOI: 10.6084/m9.figshare.4587517.v1
title: Exotic weeds and fluctuating microclimate can constrain native plant regeneration in urban forest restoration

description: We studied two indicators of ecological restoration success in temperate rainforests: native tree regeneration and epiphyte colonization. Our analyses, including structural equation modeling using R, identified the biotic and abiotic conditions that constrain colonization by these late successional plant groups.<br>
DOI: 10.6084/m9.figshare.4587394
title: Shorebird chick gut microbiota OTU table and metadata

description: Sequences, OTU table and metadata of bacterial communities in fecal samples collected from Dunlin and Red Phalarope chicks in Barrow, AK, in 2013.
DOI: 10.6084/m9.figshare.4587412
title: Dataset for: Testosterone-induced neuroendocrine changes in the medial preoptic area precede song activation and plasticity in song control nuclei of female canaries

description: Testosterone plays a key role in the control of seasonal changes in singing behavior and its underlying neural circuitry. After administration of exogenous testosterone, song quality and song control nuclei volumes change over the course of weeks, but song rate increases within days. The medial preoptic nucleus (POM) controls sexual motivation and testosterone action in POM increases sexually motivated singing. Here, we investigated the time course of testosterone action in the song control nuclei and POM, at the gross anatomical and cellular level. Photosensitive female canaries were injected with BrdU to label newborn neurons. One day later they were transferred to a long day photoperiod and implanted with testosterone-filled or empty implants. Brains and blood were collected 1, 2, 9 or 21 days later. Testosterone increased POM volume within one day, whereas the volume of song control nuclei increased significantly only on day 21 even if a trend was already observed for HVC on day 9. The density of newborn neurons in HVC, labeled by Bromodeoxyuridine (BrdU) and doublecortin, was increased by testosterone on days 9 and 21 although a trend was already detectable on day 2. In POM testosterone increased the number and size of aromatase-immunoreactive neurons already after one day. This rapid action of testosterone in POM supports its proposed role in controlling singing motivation. Although testosterone increased the number of newborn neurons in HVC rapidly (9, possibly 2 days), it is unlikely that these new neurons affect singing behavior before they mature and integrate into functional circuits.
DOI: 10.6084/m9.figshare.4587379
title: Shorebird embryo gut microbiota OTU table and metadata

description: Sequences and OTU table and meta data of bacterial 16S rRNA collected from gut samples of Semipalmated Sandpiper and Dunlin embryos.
DOI: 10.6084/m9.figshare.4587394.v1
title: Shorebird chick gut microbiota OTU table and metadata

description: Sequences, OTU table and metadata of bacterial communities in fecal samples collected from Dunlin and Red Phalarope chicks in Barrow, AK, in 2013.
DOI: 10.6084/m9.figshare.4587412.v1
title: Dataset for: Testosterone-induced neuroendocrine changes in the medial preoptic area precede song activation and plasticity in song control nuclei of female canaries

description: Testosterone plays a key role in the control of seasonal changes in singing behavior and its underlying neural circuitry. After administration of exogenous testosterone, song quality and song control nuclei volumes change over the course of weeks, but song rate increases within days. The medial preoptic nucleus (POM) controls sexual motivation and testosterone action in POM increases sexually motivated singing. Here, we investigated the time course of testosterone action in the song control nuclei and POM, at the gross anatomical and cellular level. Photosensitive female canaries were injected with BrdU to label newborn neurons. One day later they were transferred to a long day photoperiod and implanted with testosterone-filled or empty implants. Brains and blood were collected 1, 2, 9 or 21 days later. Testosterone increased POM volume within one day, whereas the volume of song control nuclei increased significantly only on day 21 even if a trend was already observed for HVC on day 9. The density of newborn neurons in HVC, labeled by Bromodeoxyuridine (BrdU) and doublecortin, was increased by testosterone on days 9 and 21 although a trend was already detectable on day 2. In POM testosterone increased the number and size of aromatase-immunoreactive neurons already after one day. This rapid action of testosterone in POM supports its proposed role in controlling singing motivation. Although testosterone increased the number of newborn neurons in HVC rapidly (9, possibly 2 days), it is unlikely that these new neurons affect singing behavior before they mature and integrate into functional circuits.
DOI: 10.6084/m9.figshare.4587379.v1
title: Shorebird embryo gut microbiota OTU table and metadata

description: Sequences and OTU table and meta data of bacterial 16S rRNA collected from gut samples of Semipalmated Sandpiper and Dunlin embryos.
DOI: 10.6084/m9.figshare.4587358
title: Analyses of the Centrarchidae fishes dataset

description: .log, .mcmc, and .rds files produced by the function 'ratematrixMCMC' from the package 'ratematrix' (https://github.com/Caetanods/ratematrix).
DOI: 10.6084/m9.figshare.4587352
title: ATP-driven and AMPK-independent autophagy in an early branching eukaryotic parasite

description: Autophagy is a catabolic cellular process required to maintain protein synthesis, energy production and other essential activities in starved cells. While the exact nutrient sensor(s) is yet to be identified, deprivation of amino acids, glucose, growth factor and other nutrients can serve as metabolic stimuli to initiate autophagy in higher eukaryotes. In the early-branching unicellular parasite <i>Trypanosoma brucei</i>, which can proliferate as procyclic form (PCF) in the tsetse fly or as bloodstream form (BSF) in animal hosts, autophagy is robustly triggered by amino acid deficiency but not by glucose depletion. Taking advantage of the clearly defined adenosine triphosphate (ATP) production pathways in <i>T. brucei</i>, we have shown that autophagic activity depends on the levels of cellular ATP production, using either glucose or proline as a carbon source. While autophagosome formation positively correlates with cellular ATP levels; perturbation of ATP production by removing carbon sources or genetic silencing of enzymes involved in ATP generation pathways, also inhibited autophagy. This obligate energy dependence and the lack of glucose starvation-induced autophagy in <i>T. brucei</i> may reflect an adaptation to its specialized, parasitic life style.
DOI: 10.6084/m9.figshare.4587358.v1
title: Analyses of the Centrarchidae fishes dataset

description: .log, .mcmc, and .rds files produced by the function 'ratematrixMCMC' from the package 'ratematrix' (https://github.com/Caetanods/ratematrix).
DOI: 10.6084/m9.figshare.4587352.v2
title: ATP-driven and AMPK-independent autophagy in an early branching eukaryotic parasite

description: Autophagy is a catabolic cellular process required to maintain protein synthesis, energy production and other essential activities in starved cells. While the exact nutrient sensor(s) is yet to be identified, deprivation of amino acids, glucose, growth factor and other nutrients can serve as metabolic stimuli to initiate autophagy in higher eukaryotes. In the early-branching unicellular parasite <i>Trypanosoma brucei</i>, which can proliferate as procyclic form (PCF) in the tsetse fly or as bloodstream form (BSF) in animal hosts, autophagy is robustly triggered by amino acid deficiency but not by glucose depletion. Taking advantage of the clearly defined adenosine triphosphate (ATP) production pathways in <i>T. brucei</i>, we have shown that autophagic activity depends on the levels of cellular ATP production, using either glucose or proline as a carbon source. While autophagosome formation positively correlates with cellular ATP levels; perturbation of ATP production by removing carbon sources or genetic silencing of enzymes involved in ATP generation pathways, also inhibited autophagy. This obligate energy dependence and the lack of glucose starvation-induced autophagy in <i>T. brucei</i> may reflect an adaptation to its specialized, parasitic life style.
DOI: 10.6084/m9.figshare.4587352.v1
title: ATP-driven and AMPK-independent autophagy in an early-branching eukaryotic parasite

description: Autophagy is a catabolic cellular process required to maintain protein synthesis, energy production and other essential activities in starved cells. While the exact nutrient sensor(s) is yet to be identified, deprivation of amino acids, glucose, growth factor and other nutrients can serve as metabolic stimuli to initiate autophagy in higher eukaryotes. In the early-branching unicellular parasite <i>Trypanosoma brucei</i>, which can proliferate as procyclic form (PCF) in the tsetse fly or as bloodstream form (BSF) in animal hosts, autophagy is robustly triggered by amino acid deficiency but not by glucose depletion. Taking advantage of the clearly defined adenosine triphosphate (ATP) production pathways in <i>T. brucei</i>, we have shown that autophagic activity depends on the levels of cellular ATP production, using either glucose or proline as a carbon source. While autophagosome formation positively correlates with cellular ATP levels; perturbation of ATP production by removing carbon sources or genetic silencing of enzymes involved in ATP generation pathways, also inhibited autophagy. This obligate energy dependence and the lack of glucose starvation-induced autophagy in <i>T. brucei</i> may reflect an adaptation to its specialized, parasitic life style.
DOI: 10.6084/m9.figshare.4587319
title: REDC_RESEARCH_DATA_2014

description: <b>Online additional material of the article</b>:<br>Echeverria, M.; Stuart, D.; Cordón-García, J.A. (2017). The influence of the online posting date of scientific articles on bibliometric indicators. <i>Revista Española de Documentación Científica.<br><br></i>Dataset of articles published in 2014 in 61 journals of<i> Urology and Nephrology, </i>and indexed in JCR.<i><br><br></i>
DOI: 10.6084/m9.figshare.4587319.v1
title: REDC_RESEARCH_DATA_2014

description: <b>Online additional material of the article</b>:<br>Echeverria, M.; Stuart, D.; Cordón-García, J.A. (2017). The influence of the online posting date of scientific articles on bibliometric indicators. <i>Revista Española de Documentación Científica.<br><br></i>Dataset of articles published in 2014 in 61 journals of<i> Urology and Nephrology, </i>and indexed in JCR.<i><br><br></i>
DOI: 10.6084/m9.figshare.4587271
title: REDC_RESEARCH_DATA_2013.xlsx

description: <b>Online additional material of the article</b>: Echeverria, M.; Stuart, D; Cordón-García, J.A. (2017).The influence of the online posting date of scientific articles on bibliometric indicators<i>. Revista Española de Documentación Científica.</i><br>Dataset of articles published in 2013 in 61 journals of <i>Urology and Nephrology</i> and indexed in JCR.
DOI: 10.6084/m9.figshare.4587259
title: Analyses of the Anolis dataset

description: .log, .mcmc, and .rds files produced by the function 'ratematrixMCMC' from the package 'ratematrix' (https://github.com/Caetanods/ratematrix).<br>
DOI: 10.6084/m9.figshare.4587271.v1
title: REDC_RESEARCH_DATA_2013.xlsx

description: <b>Online additional material of the article</b>: Echeverria, M.; Stuart, D; Cordón-García, J.A. (2017).The influence of the online posting date of scientific articles on bibliometric indicators<i>. Revista Española de Documentación Científica.</i><br>Dataset of articles published in 2013 in 61 journals of <i>Urology and Nephrology</i> and indexed in JCR.
DOI: 10.6084/m9.figshare.4587073
title: Drivers of species synchrony in grasslands

description: Code and data necessary to reproduce the results in Tredennick et al. (in press), forthcoming in <i>Ecology</i>.
DOI: 10.6084/m9.figshare.4587073.v1
title: Drivers of species synchrony in grasslands

description: Code and data necessary to reproduce the results in Tredennick et al. (in press), forthcoming in <i>Ecology</i>.
DOI: 10.6084/m9.figshare.4587043
title: Reviewing wood biomass potentials for energy in Europe: the role of forests and fast growing plantations

description: Wood biomass for energy is largely produced in Europe from forest land resulting from silvicultural and management practices or from agricultural land in the form of fast growing plantations. The present paper reviews and compares the estimated current potentials for wood biomass production in 25 countries in Europe. The potentials are divided attending to these sources to identify the most suitable method of wood biomass production on a country level, based on its current forest and agriculture levels of production. Data has been collected and compiled from previous models and estimations. The total aggregated available potential in Europe is 76 Mm<sup>3</sup> of wood biomass from the forests, with an additional 90 Mm<sup>3</sup> from increasing the utilization of forest lands, and 98 Mm<sup>3</sup> from fast growing plantations (dedicating 5% of current agricultural land). Germany and France showed high potentials both from agriculture and forest; Finland and Sweden had most of its potential from forest sources; and Spain, Poland, and UK from fast-growing plantations. When considered together, Europe presents a large potential for wood biomass production for energy, and each country should develop different policy strategies of promotion attending to the most available source to realize this potential efficiently.
DOI: 10.6084/m9.figshare.4587043.v1
title: Reviewing wood biomass potentials for energy in Europe: the role of forests and fast growing plantations

description: Wood biomass for energy is largely produced in Europe from forest land resulting from silvicultural and management practices or from agricultural land in the form of fast growing plantations. The present paper reviews and compares the estimated current potentials for wood biomass production in 25 countries in Europe. The potentials are divided attending to these sources to identify the most suitable method of wood biomass production on a country level, based on its current forest and agriculture levels of production. Data has been collected and compiled from previous models and estimations. The total aggregated available potential in Europe is 76 Mm<sup>3</sup> of wood biomass from the forests, with an additional 90 Mm<sup>3</sup> from increasing the utilization of forest lands, and 98 Mm<sup>3</sup> from fast growing plantations (dedicating 5% of current agricultural land). Germany and France showed high potentials both from agriculture and forest; Finland and Sweden had most of its potential from forest sources; and Spain, Poland, and UK from fast-growing plantations. When considered together, Europe presents a large potential for wood biomass production for energy, and each country should develop different policy strategies of promotion attending to the most available source to realize this potential efficiently.
DOI: 10.6084/m9.figshare.4585447
title: RNAseq data - Capsaspora owczarzaki

description: FPKMs of Capsaspora owczarzaki<br>Sebé-Pedrós, A., Irimia, M., del Campo, J., Parra-Acero, H., Russ, C., Nusbaum, C., … Ruiz-Trillo, I. (2013). Regulated aggregative multicellularity in a close unicellular relative of metazoa. <i>eLife</i>, <i>2</i>, e01287. http://doi.org/10.7554/eLife.01287<br><br>www.multicellgenome.com
DOI: 10.6084/m9.figshare.4585447.v1
title: RNAseq data - Sebé-Pedrós et al. (2013)

description: FPKMs of Capsaspora owczarzaki<br>Sebé-Pedrós, A., Irimia, M., del Campo, J., Parra-Acero, H., Russ, C., Nusbaum, C., … Ruiz-Trillo, I. (2013). Regulated aggregative multicellularity in a close unicellular relative of metazoa. <i>eLife</i>, <i>2</i>, e01287. http://doi.org/10.7554/eLife.01287<br><br>www.multicellgenome.com
DOI: 10.6084/m9.figshare.4585339
title: Involvement of lysosomal dysfunction in autophagosome accumulation and early pathologies in adipose tissue of obese mice

description: Whether obesity accelerates or suppresses autophagy in adipose tissue is still debatable. To clarify dysregulation of autophagy and its role in pathologies of obese adipose tissue, we focused on lysosomal function, protease maturation and activity, both in vivo and in vitro. First, we showed that autophagosome formation was accelerated, but autophagic clearance was impaired in obese adipose tissue. We also found protein and activity levels of CTSL (cathepsin L) were suppressed in obese adipose tissue, while the activity of CTSB (cathepsin B) was significantly enhanced. Moreover, cellular senescence and inflammasomes were activated in obese adipose tissue. In 3T3L1 adipocytes, downregulation of CTSL deteriorated autophagic clearance, upregulated expression of CTSB, promoted cellular senescence and activated inflammasomes. Upregulation of CTSB promoted additional activation of inflammasomes. Therefore, we suggest lysosomal dysfunction observed in obese adipose tissue leads to lower autophagic clearance, resulting in autophagosome accumulation. Simultaneously, lysosomal abnormalities, including deteriorated CTSL function and compensatory activation of CTSB, caused cellular senescence and inflammasome activation. Our findings strongly suggest lysosomal dysfunction is involved in early pathologies of obese adipose tissue.
DOI: 10.6084/m9.figshare.4585351
title: S1_File.xlsx

description: Raw data. Comparison of standard metabolic rate in three species of crocodilians.
DOI: 10.6084/m9.figshare.4585351.v1
title: supplemental data.xlsx

description: Raw data. Comparison of standard metabolic rate in three species of crocodilians.
DOI: 10.6084/m9.figshare.4585276
title: TGA raw data from Fabrication and characterization of electrospun poly(e-caprolactone) fibrous membrane with antibacterial functionality

description: This research study is mainly targeted on fabrication and characterization of antibacterial poly(e-caprolactone) (PCL) based fibrous membrane containing silver chloride particles. Micro/nano fibres were produced by electrospinning and characterized with TGA, DSC, SEM and mechanical analysis. It was found that addition of silver particles slightly reduced onset of thermal degradation and increased crystallization temperature of neat PCL. Silver-loaded samples exhibited higher tensile stress and lower strain revealing that the particles behaved as reinforcing agent. Moreover, addition of silver chloride resulted in beaded surface texture and formation of finer fibres as opposed to the neat. Antibacterial properties were tested against Gram-negative and Gram-positive bacteria and remarkable biocidal functionalities were obtained with about six logs reduction of <i>Staphylococcus aureus</i> and <i>Escherichia coli</i> O157:H7.
DOI: 10.6084/m9.figshare.4585339.v2
title: Involvement of lysosomal dysfunction in autophagosome accumulation and early pathologies in adipose tissue of obese mice

description: Whether obesity accelerates or suppresses autophagy in adipose tissue is still debatable. To clarify dysregulation of autophagy and its role in pathologies of obese adipose tissue, we focused on lysosomal function, protease maturation and activity, both in vivo and in vitro. First, we showed that autophagosome formation was accelerated, but autophagic clearance was impaired in obese adipose tissue. We also found protein and activity levels of CTSL (cathepsin L) were suppressed in obese adipose tissue, while the activity of CTSB (cathepsin B) was significantly enhanced. Moreover, cellular senescence and inflammasomes were activated in obese adipose tissue. In 3T3L1 adipocytes, downregulation of CTSL deteriorated autophagic clearance, upregulated expression of CTSB, promoted cellular senescence and activated inflammasomes. Upregulation of CTSB promoted additional activation of inflammasomes. Therefore, we suggest lysosomal dysfunction observed in obese adipose tissue leads to lower autophagic clearance, resulting in autophagosome accumulation. Simultaneously, lysosomal abnormalities, including deteriorated CTSL function and compensatory activation of CTSB, caused cellular senescence and inflammasome activation. Our findings strongly suggest lysosomal dysfunction is involved in early pathologies of obese adipose tissue.