cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.4793413
title: “Come Together”: Dialogue and (Dis)Connection in the Beatles’ Lyrics

description: The article analyzes the Beatles’ 183 original recorded lyrics as a body of work, highlighting the lyrics’ thematic diversification and increasing narrative complexity as of 1965–66. Dialogical elements characterizing many Beatles lyrics extended to audiences the sense of collective intimacy that formed the core of the band’s identity and appeal. Group vocal arrangements on <i>Sergeant Pepper’s Lonely Hearts Club Band</i> permitted “heteroglossic dialog” through which the writers expressed and sought to reconcile the cultural and social tensions they perceived in their own lives and in the wider world. Lyrical innovations enabled the authors to respond to social and cultural currents—particularly how electronic media, drugs, and spiritual practices could bridge social, political, and interpersonal divisions and distances, yet also foster isolation and self-absorption. Lyrics on <i>Pepper</i> articulate this dialectic of connection and atomization.
DOI: 10.6084/m9.figshare.4793488.v2
title: Dataset Godoy et al. 2014 Ecology Letters

description: This dataset contains information of the 18 different species included in the following publication<br>Godoy, O., Kraft, N. J., & Levine, J. M. (2014). Phylogenetic relatedness and the determinants of competitive outcomes. <i>Ecology Letters</i>, <i>17</i>(7), 836-844.<br><br>These are a matrix containing competitive coefficients (alpha_estimates_row_is_a_target.csv), and a matrix containing information of species' vital rates (species vital rates.csv).
DOI: 10.6084/m9.figshare.4793428.v2
title: Carbon nanopowder acts as a Trojan-horse for benzo(α)pyrene in <i>Danio rerio</i> embryos

description: Carbon-based nanoparticles (CBNs) are largely distributed worldwide due to fossil fuel combustion and their presence in many consumer products. In addition to their proven toxicological effects in several biological models, attention in recent years has focussed on the role played by CBNs as Trojan-horse carriers for adsorbed environmental pollutants. This role has not been conclusively determined to date because CBNs can decrease the bioavailability of contaminants or represent an additional source of intake. Herein, we evaluated the intake, transport and distribution of one of the carbon-based powders, the so-called carbon nanopowder (CNPW), and benzo(α)pyrene, when administered alone and in co-exposure to <i>Danio rerio</i> embryos. Data obtained by means of advanced microscopic techniques illustrated that the “particle-specific” effect induced a modification in the accumulation of benzo(α)pyrene, which is forced to follow the distribution of the physical pollutant instead of its natural bioaccumulation. The combined results from functional proteomics and gene transcription analysis highlighted the different biochemical pathways involved in the action of the two different contaminants administered alone and when bound together. In particular, we observed a clear change in several proteins involved in the homeostatic response to hypoxia only after exposure to the CNPW or co-exposure to the mixture, whereas exposure to benzo(α)pyrene alone mainly modified structural proteins. The entire dataset suggested a Trojan-horse mechanism involved in the biological impacts on <i>Danio rerio</i> embryos especially due to different bioaccumulation pathways and cellular targets.
DOI: 10.6084/m9.figshare.4793413.v1
title: “Come Together”: Dialogue and (Dis)Connection in the Beatles’ Lyrics

description: The article analyzes the Beatles’ 183 original recorded lyrics as a body of work, highlighting the lyrics’ thematic diversification and increasing narrative complexity as of 1965–66. Dialogical elements characterizing many Beatles lyrics extended to audiences the sense of collective intimacy that formed the core of the band’s identity and appeal. Group vocal arrangements on <i>Sergeant Pepper’s Lonely Hearts Club Band</i> permitted “heteroglossic dialog” through which the writers expressed and sought to reconcile the cultural and social tensions they perceived in their own lives and in the wider world. Lyrical innovations enabled the authors to respond to social and cultural currents—particularly how electronic media, drugs, and spiritual practices could bridge social, political, and interpersonal divisions and distances, yet also foster isolation and self-absorption. Lyrics on <i>Pepper</i> articulate this dialectic of connection and atomization.
DOI: 10.6084/m9.figshare.4793404
title: coexpression network for cerebellum BRAINEAC

description: Data used in <br><br>http://biorxiv.org/content/early/2017/04/18/125450
DOI: 10.6084/m9.figshare.4793404.v1
title: coexpression network for cerebellum BRAINEAC

description: Data used in <br><br>http://biorxiv.org/content/early/2017/04/18/125450
DOI: 10.15131/shef.data.4793386
title: APCs purchased by the University of Sheffield from COAF/Wellcome open access grant during 2015/2016

description: Open access charges paid for by the University of Sheffield for Wellcome/COAF funded research between 1st of October 2015 and 30th of September 2016. Spreadsheet is in CSV format.
DOI: 10.15131/shef.data.4793386.v2
title: APCs purchased by the University of Sheffield from COAF/Wellcome open access grant during 2015/2016

description: Open access charges paid for by the University of Sheffield for Wellcome/COAF funded research between 1st of October 2015 and 30th of September 2016. Spreadsheet is in CSV format.
DOI: 10.15131/shef.data.4793386.v1
title: APCs purchased by the University of Sheffield for COAF/Wellcome funded research 2015/2016

description: Open access charges paid for by the University of Sheffield for Wellcome/COAF funded research between 1st of October 2015 and 30th of September 2016. Spreadsheet is in CSV format.
DOI: 10.6084/m9.figshare.4793365
title: coexpression network for putamen in GTEX

description: Dataset used in Manuscript<br><br>http://biorxiv.org/content/early/2017/04/18/125450 <br><br><br>
DOI: 10.6084/m9.figshare.4793368
title: coexpression network for Hippocampus in GTEX

description: Data used in <br><br>http://biorxiv.org/content/early/2017/04/18/125450
DOI: 10.6084/m9.figshare.4793368.v1
title: coexpression network for Hippocampus in GTEX

description: Manuscript can be found in Biorxiv at <br><br>http://biorxiv.org/content/early/2017/04/18/125450
DOI: 10.6084/m9.figshare.4793365.v1
title: coexpression network for putamen in GTEX

description: Dataset used in Manuscript<br><br>http://biorxiv.org/content/early/2017/04/18/125450 <br><br><br>
DOI: 10.6084/m9.figshare.4793374
title: Systematic revision of the genus <i>Reinboldiella</i> (Ceramiaceae, Rhodophyta) from Taiwan based on comparative morphology and <i>rbc</i>L sequence analyses, including two new species of <i>Reinboldiella</i>

description: The genus <i>Reinboldiella</i> essentially consists of tiny, membranous blades, epiphytic on benthic red algae, with a wide distribution in the north-western Pacific Ocean (Taiwan, Korea and Japan). In this study, we re-examined the generitype <i>R. schmitziana</i> from Taiwan and neighbouring islands. Two new species of <i>Reinboldiella, R. orientalis</i> sp. nov. and <i>R. taiwanensis</i> sp. nov. are recognized from Taiwan based on comparative morphological studies and molecular analyses of RuBisCO large subunit (<i>rbc</i>L) gene sequences. <i>Reinboldiella</i> <i>orientalis</i> is characterized by its rosette-like appearance, with both erect and prostrate, membranous flat blades whereas <i>R. taiwanensis</i> is distinguishable by mainly consisting of erect, membranous blades with few, short prostrate blades in basal parts of the thalli. Thalli of <i>R. schmitziana</i> also have a rosette-like appearance, but their erect flat blades have cylindrical bases or stipes. The <i>rbc</i>L phylogenetic analyses also support the separation of <i>R.</i>‘<i>schmitziana</i>’ from Taiwan and <i>R. schmitziana</i> from Japan and Korea.
DOI: 10.6084/m9.figshare.4793374.v1
title: Systematic revision of the genus <i>Reinboldiella</i> (Ceramiaceae, Rhodophyta) from Taiwan based on comparative morphology and <i>rbc</i>L sequence analyses, including two new species of <i>Reinboldiella</i>

description: The genus <i>Reinboldiella</i> essentially consists of tiny, membranous blades, epiphytic on benthic red algae, with a wide distribution in the north-western Pacific Ocean (Taiwan, Korea and Japan). In this study, we re-examined the generitype <i>R. schmitziana</i> from Taiwan and neighbouring islands. Two new species of <i>Reinboldiella, R. orientalis</i> sp. nov. and <i>R. taiwanensis</i> sp. nov. are recognized from Taiwan based on comparative morphological studies and molecular analyses of RuBisCO large subunit (<i>rbc</i>L) gene sequences. <i>Reinboldiella</i> <i>orientalis</i> is characterized by its rosette-like appearance, with both erect and prostrate, membranous flat blades whereas <i>R. taiwanensis</i> is distinguishable by mainly consisting of erect, membranous blades with few, short prostrate blades in basal parts of the thalli. Thalli of <i>R. schmitziana</i> also have a rosette-like appearance, but their erect flat blades have cylindrical bases or stipes. The <i>rbc</i>L phylogenetic analyses also support the separation of <i>R.</i>‘<i>schmitziana</i>’ from Taiwan and <i>R. schmitziana</i> from Japan and Korea.
DOI: 10.6084/m9.figshare.4793350
title: coexpression network for Frontal Cortex in GTEX

description: Data used in <br><br>http://biorxiv.org/content/early/2017/04/18/125450
DOI: 10.6084/m9.figshare.4793344
title: coexpression network for cerebellum in GTEX

description: Data used in <br><br>http://biorxiv.org/content/early/2017/04/18/125450
DOI: 10.6084/m9.figshare.4793329
title: Placebo prescription and empathy of the physician: A cross-sectional study

description: <b>Background:</b> Empathy in the patient–physician relationship is a major component in an effective placebo treatment, as in every medical treatment. Understanding the role of empathy of the physician in the placebo effect may help dissect some of the context variables responsible for the effectiveness of the placebo. <b>Objectives:</b> To determine the frequency of placebo prescription, doctors’ beliefs, motivation, and attitudes to placebos in general practice in northern Portugal and to test the association between placebo prescription and physician empathy. <b>Methods:</b> A cross-sectional study was conducted between November 2014 and January 2015 among general practice specialists and interns from 14 health centres in a northern Portuguese health region. The self-report questionnaire included the Portuguese version of the Jefferson scale of physician empathy (JSPE) and a questionnaire about placebo prescription. Associations between demographic variables, JSPE score, prescription of placebo, and the attitudes to placebo score were tested with the chi-squared statistic, student <i>t</i>-tests for independent samples, and Pearson correlation. <b>Results:</b> The study included 93 general practitioners (GP) (response rate: 74%). Placebos were prescribed by 73% (<i>n</i> = 68) of the respondents. GPs who prescribe placebo are significantly younger (mean age = 38.4 years; SD = 11.1; <i>t</i> (90) = 2.98, <i>P</i> P <b>Conclusion:</b> Placebo prescription is frequent and associated with empathy from the prescriber, especially among younger GPs.
DOI: 10.6084/m9.figshare.4793344.v1
title: coexpression network for cerebellum in GTEX

description: Data used in <br><br>http://biorxiv.org/content/early/2017/04/18/125450
DOI: 10.6084/m9.figshare.4793320
title: Placental TLR/NLR expression signatures are altered with gestational age and inflammation

description: <b>Objective:</b> To quantify changes in placental expression of Toll-like receptors (TLRs) and nuclear oligomerization domain (NOD)-like receptors (NLRs) gene with (1) advancing gestational age (GA) and (2) exposure to chorioamnionitis (CA) and preterm premature rupture of membrane (PPROM). <b>Methods:</b> Placental tissue was collected at the time of birth from 83 subjects with live birth pregnancies from 24- to 40-week gestation between 2009 and 2013. Real-time RT-PCR analysis of 13 TLR/NLR genes involved in bacterial sensing was performed using specific probes. <b>Results:</b> Of 83 patients enrolled, 61 were preterm (&lt;37 weeks). 23 (27%) had evidence of CA; and 33 (39.8%) had PPROM. 15 (18%) had both CA and PPROM (CP). 42 (50%) had neither CA nor PPROM (C/P). Only RIPK2 (<i>p</i> = 0.0025) and TLR4 (<i>p</i> = 0.0005) were found to increase progressively with GA. We found significant changes in TLR5 (<i>p</i> = 0.01) with CA, NFKBIA (<i>p</i> = 0.016) with PPROM, NKKBIA (<i>p</i> = 0.003), and NFKB1 (<i>p</i> = 0.009) with CA and PPROM. <b>Conclusion:</b> RIPK2 (mediator of NOD-dependent NF-kB signaling) and TLR4 progressively increased with GA. We speculate this upregulation may be involved in initiating labor and delivery at term. Increase in NFKBIA seen in PPROM and CA might represent a counter regulatory mechanism to decrease inflammation in these conditions. This study provides new information on relationships between GA, CA/PPROM, and TLR/NLR signaling in the placenta.
DOI: 10.6084/m9.figshare.4793326
title: Plant Species

description: A dataset of plant species in Glenelg Shire, Australia.
DOI: 10.6084/m9.figshare.4793320.v1
title: Placental TLR/NLR expression signatures are altered with gestational age and inflammation

description: <b>Objective:</b> To quantify changes in placental expression of Toll-like receptors (TLRs) and nuclear oligomerization domain (NOD)-like receptors (NLRs) gene with (1) advancing gestational age (GA) and (2) exposure to chorioamnionitis (CA) and preterm premature rupture of membrane (PPROM). <b>Methods:</b> Placental tissue was collected at the time of birth from 83 subjects with live birth pregnancies from 24- to 40-week gestation between 2009 and 2013. Real-time RT-PCR analysis of 13 TLR/NLR genes involved in bacterial sensing was performed using specific probes. <b>Results:</b> Of 83 patients enrolled, 61 were preterm (&lt;37 weeks). 23 (27%) had evidence of CA; and 33 (39.8%) had PPROM. 15 (18%) had both CA and PPROM (CP). 42 (50%) had neither CA nor PPROM (C/P). Only RIPK2 (<i>p</i> = 0.0025) and TLR4 (<i>p</i> = 0.0005) were found to increase progressively with GA. We found significant changes in TLR5 (<i>p</i> = 0.01) with CA, NFKBIA (<i>p</i> = 0.016) with PPROM, NKKBIA (<i>p</i> = 0.003), and NFKB1 (<i>p</i> = 0.009) with CA and PPROM. <b>Conclusion:</b> RIPK2 (mediator of NOD-dependent NF-kB signaling) and TLR4 progressively increased with GA. We speculate this upregulation may be involved in initiating labor and delivery at term. Increase in NFKBIA seen in PPROM and CA might represent a counter regulatory mechanism to decrease inflammation in these conditions. This study provides new information on relationships between GA, CA/PPROM, and TLR/NLR signaling in the placenta.
DOI: 10.6084/m9.figshare.4793329.v1
title: Placebo prescription and empathy of the physician: A cross-sectional study

description: <b>Background:</b> Empathy in the patient–physician relationship is a major component in an effective placebo treatment, as in every medical treatment. Understanding the role of empathy of the physician in the placebo effect may help dissect some of the context variables responsible for the effectiveness of the placebo. <b>Objectives:</b> To determine the frequency of placebo prescription, doctors’ beliefs, motivation, and attitudes to placebos in general practice in northern Portugal and to test the association between placebo prescription and physician empathy. <b>Methods:</b> A cross-sectional study was conducted between November 2014 and January 2015 among general practice specialists and interns from 14 health centres in a northern Portuguese health region. The self-report questionnaire included the Portuguese version of the Jefferson scale of physician empathy (JSPE) and a questionnaire about placebo prescription. Associations between demographic variables, JSPE score, prescription of placebo, and the attitudes to placebo score were tested with the chi-squared statistic, student <i>t</i>-tests for independent samples, and Pearson correlation. <b>Results:</b> The study included 93 general practitioners (GP) (response rate: 74%). Placebos were prescribed by 73% (<i>n</i> = 68) of the respondents. GPs who prescribe placebo are significantly younger (mean age = 38.4 years; SD = 11.1; <i>t</i> (90) = 2.98, <i>P</i> P <b>Conclusion:</b> Placebo prescription is frequent and associated with empathy from the prescriber, especially among younger GPs.
DOI: 10.6084/m9.figshare.4793296
title: Evaluation of the effectiveness of transcranial direct current stimulation (tDCS) and psychosensory stimulation through DOCS scale in a minimally conscious subject

description: The aim of our study was to assess the effectiveness of transcranial direct current stimulation (tDCS) on alertness improvement in a patient in a minimally conscious state (MCS) by means of disorders of consciousness scale combined with psycho-sensory stimulation. The effects of tDCS on muscle hypertonia through the Ashworth scale were also examined. tDCS was performed through a two-channel intra-cephalic stimulator. After stimulation, the patient followed a psychosensory stimulation training. Results pointed out an increase in DOCunit score, as well as an increase in alertness maintenance and an improvement in muscle hypertonia, although a MCS state persisted.
DOI: 10.6084/m9.figshare.4793317
title: Safety and efficacy of topiramate in neonates with hypoxic ischemic encephalopathy treated with hypothermia (NeoNATI): a feasibility study

description: <b>Purpose:</b> To investigate the feasibility of a study based on treatment with topiramate (TPM) added to moderate hypothermia in newborns with hypoxic ischemic encephalopathy (HIE). <b>Materials and methods:</b> Multicenter randomized controlled trial. Term newborns with precocious metabolic, clinical and electroencephalographic (EEG) signs of HIE were selected according to their amplified integrated EEG pattern and randomized to receive either TPM (10 mg/kg once a day for the first three days of life) plus moderate hypothermia or hypothermia alone. Safety was assessed by monitoring cardiorespiratory parameters and blood samples collected to check renal, liver, metabolic balance and TPM pharmacokinetics. Efficacy was evaluated by the combined frequency of mortality and severe neurological disability as primary outcome. Incidence of magnetic resonance injury, epilepsy, blindness, hearing loss, neurodevelopment at 18–24 months of life was assessed as secondary outcomes. <b>Results:</b> Forty-four asphyxiated newborns were enrolled in the study. Twenty one newborns (10 with moderate and 11 with severe HIE) were allocated to hypothermia plus TPM and 23 (12 moderate and 11 severe HIE) to hypothermia. No statistically or clinically significant differences were observed for safety, primary or secondary outcomes. However, a reduction in the prevalence of epilepsy was observed in newborns co-treated with TPM. <b>Conclusions:</b> Results of this pilot trial suggest that administration of TPM in newborns with HIE is safe but does not reduce the combined frequency of mortality and severe neurological disability. The role of TPM co-treatment in preventing subsequent epilepsy deserves further studies.
DOI: 10.6084/m9.figshare.4793317.v1
title: Safety and efficacy of topiramate in neonates with hypoxic ischemic encephalopathy treated with hypothermia (NeoNATI): a feasibility study

description: <b>Purpose:</b> To investigate the feasibility of a study based on treatment with topiramate (TPM) added to moderate hypothermia in newborns with hypoxic ischemic encephalopathy (HIE). <b>Materials and methods:</b> Multicenter randomized controlled trial. Term newborns with precocious metabolic, clinical and electroencephalographic (EEG) signs of HIE were selected according to their amplified integrated EEG pattern and randomized to receive either TPM (10 mg/kg once a day for the first three days of life) plus moderate hypothermia or hypothermia alone. Safety was assessed by monitoring cardiorespiratory parameters and blood samples collected to check renal, liver, metabolic balance and TPM pharmacokinetics. Efficacy was evaluated by the combined frequency of mortality and severe neurological disability as primary outcome. Incidence of magnetic resonance injury, epilepsy, blindness, hearing loss, neurodevelopment at 18–24 months of life was assessed as secondary outcomes. <b>Results:</b> Forty-four asphyxiated newborns were enrolled in the study. Twenty one newborns (10 with moderate and 11 with severe HIE) were allocated to hypothermia plus TPM and 23 (12 moderate and 11 severe HIE) to hypothermia. No statistically or clinically significant differences were observed for safety, primary or secondary outcomes. However, a reduction in the prevalence of epilepsy was observed in newborns co-treated with TPM. <b>Conclusions:</b> Results of this pilot trial suggest that administration of TPM in newborns with HIE is safe but does not reduce the combined frequency of mortality and severe neurological disability. The role of TPM co-treatment in preventing subsequent epilepsy deserves further studies.
DOI: 10.6084/m9.figshare.4793296.v1
title: Evaluation of the effectiveness of transcranial direct current stimulation (tDCS) and psychosensory stimulation through DOCS scale in a minimally conscious subject

description: The aim of our study was to assess the effectiveness of transcranial direct current stimulation (tDCS) on alertness improvement in a patient in a minimally conscious state (MCS) by means of disorders of consciousness scale combined with psycho-sensory stimulation. The effects of tDCS on muscle hypertonia through the Ashworth scale were also examined. tDCS was performed through a two-channel intra-cephalic stimulator. After stimulation, the patient followed a psychosensory stimulation training. Results pointed out an increase in DOCunit score, as well as an increase in alertness maintenance and an improvement in muscle hypertonia, although a MCS state persisted.
DOI: 10.6084/m9.figshare.4793347.v4
title: Algebraic invariants of planar cubic differential systems

description: <pre>With the help of the Gurevich theorem we find a minimal system of generators of centro-affne covariants of homogeneous planar cubic differential systems with free terms. </pre>
DOI: 10.6084/m9.figshare.4792645
title: ANVIO-FMT-DONOR-MAGs-IN-HMP-METAGENOMES-FIGURES

description: This package contains figures that show the detection of 92 donor MAGs in 151 HMP gut metagenomes.
DOI: 10.6084/m9.figshare.4792645.v1
title: ANVIO-FMT-DONOR-MAGs-IN-HMP-METAGENOMES-FIGURES

description: This package contains figures that show the detection of 92 donor MAGs in 151 HMP gut metagenomes.
DOI: 10.6084/m9.figshare.4792633
title: ANVIO-FMT-D-R01-R02-QUICK-VISUALIZATION

description: Files for anvi'o manual interactive for a quick visualization of the distribution of 92 donor MAGs from Lee and Khan et al study (this is the source data for Figure 01 in the paper).
DOI: 10.6084/m9.figshare.4792633.v1
title: ANVIO-FMT-D-R01-R02-QUICK-VISUALIZATION

description: Files for anvi'o manual interactive for a quick visualization of the distribution of 92 donor MAGs from Lee and Khan et al study (this is the source data for Figure 01 in the paper).
DOI: 10.6084/m9.figshare.4792627
title: ANVIO-FMT-D-R01-R02-MAGs-SUMMARY

description: A static HTML output for the anvi'o merged profile database for the 92 donor MAGs from Lee and Khan et al study.
DOI: 10.6084/m9.figshare.4792621
title: ANVIO-FMT-D-R01-R02-MERGED-PROFILE

description: The anvi'o merged profile database for the 92 donor MAGs from Lee and Khan et al study.
DOI: 10.6084/m9.figshare.4792615
title: Medaka_Fish_3D_Polygon_Models 3ds-MAX

description: Medaka_Fish_3D_Polygon_Models.3ds-MAX files.
DOI: 10.6084/m9.figshare.4792615.v2
title: Medaka_Fish_3D_Polygon_Models 3ds-MAX

description: Medaka_Fish_3D_Polygon_Models.3ds-MAX files.