cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.6005111.v1
title: Dataset for: Regulation of Inflammatory Mediator Expression in Bovine Endometrial Cells: Effects of Lipopolysaccharide, Interleukin 1 beta, and Tumor Necrosis Factor alpha

description: An abnormal uterine environment can influence maternal-fetal communication, conception rate and disrupt normal embryo development, thereby affecting fertility and the reproductive performance of dairy cows. Animal variability means that development of endometrial cell lines with appropriate characteristic are required. We evaluated the effect of an infectious agent (i.e. bacterial lipopolysaccharide; LPS) and pro-inflammatory mediators (i.e. Interleukin 1 beta; IL-1β, and tumor necrosis factor alpha; TNFα) on inflammatory mediator gene expression and production by bovine endometrial epithelial (bEEL) and stromal (bCSC) cell lines. Expression of CXCL8/IL8, IL-1α, IL-1β, and IL6 cytokine genes was significantly upregulated in both epithelial and stromal cells when treated with LPS and IL-1β. LPS treatment of epithelial cells (compared with treatment by IL-1β and TNFα) exhibited greater CXCL8/IL8, IL-1α, IL-1β, and IL6 cytokine gene expression. Whereas, in stromal cells, IL-1β treatment (compared with LPS and TNFα) exhibited greater CXCL8/IL8, IL-1α, IL-1β, and IL6 cytokine gene expression. Interestingly, bEEL and bCSC cells treated with IL-1β increased IL-1β gene expression, suggesting that IL-1β may act unusually in an autocrine positive feedback loop. Cytokine production was stimulated by these agents in both cell types. We suggest that the characteristics of these two cell lines make them excellent tools for the study of intrauterine environment.
DOI: 10.6084/m9.figshare.6004949
title: marker DNA

description: protein marker
DOI: 10.6084/m9.figshare.6004871
title: Duchenne_BMD_LVEF.xls

description: Data used for a retrospective cohort study of boys with Duchenne Muscular Dystrophy. Looked to see if low bone mineral density predicted the development of cardiovascular dysfunction as measured by LVEF. <br><br>The Relationship between Bone Mineral Density and Cardiovascular Function in Duchenne Muscular Dystrophy: A Retrospective Cohort Study
DOI: 10.6084/m9.figshare.6004871.v1
title: Duchenne_BMD_LVEF.xls

description: Data used for a retrospective cohort study of boys with Duchenne Muscular Dystrophy. Looked to see if low bone mineral density predicted the development of cardiovascular dysfunction as measured by LVEF. <br><br>The Relationship between Bone Mineral Density and Cardiovascular Function in Duchenne Muscular Dystrophy: A Retrospective Cohort Study
DOI: 10.6084/m9.figshare.6004844
title: Protein intrinsic disorder in the acetylome of intracellular and extracellular Toxoplasma gondii

description: Acetylome analysis of extracellular tachyzoites of the protozoan parasite Toxoplasma gondii<br>
DOI: 10.6084/m9.figshare.6004844.v1
title: Protein intrinsic disorder in the acetylome of intracellular and extracellular Toxoplasma gondii

description: Acetylome analysis of extracellular tachyzoites of the protozoan parasite Toxoplasma gondii<br>
DOI: 10.6084/m9.figshare.6004769
title: Scotland study area.shp

description: Shape files (see also Scotland study area.dbf) for the mapping the intermediate zones for Scotland.Shape files (see also Scotland study area.shp) for the mapping the intermediate zones for Scotland.
DOI: 10.6084/m9.figshare.6004763
title: Scotland study area.dbf

description: Shape files (see also Scotland study area.shp) for the mapping the intermediate zones for Scotland.
DOI: 10.6084/m9.figshare.6004757
title: GlasgowIZ.csv

description: Intermediate zone codes for areal units comprising the Greater Glasgow & Clyde region of Scotland.
DOI: 10.6084/m9.figshare.6004757.v1
title: GlasgowIZ.csv

description: Intermediate zone codes for areal units comprising the Greater Glasgow & Clyde region of Scotland.
DOI: 10.6084/m9.figshare.6004748
title: respiratory admissions expected counts.csv

description: Contains the expected counts for the respiratory hospital admissions data in Greater Glasgow & Clyde between 2002 and 2011.
DOI: 10.6084/m9.figshare.6004736
title: Lysine Acetylation Is Widespread on Proteins of Diverse Function and Localization in the Protozoan Parasite Toxoplasma gondii

description: Global acetylome analysis of intracellular Toxoplasma gondii tachyzoites<br>
DOI: 10.6084/m9.figshare.6004736.v1
title: Lysine Acetylation Is Widespread on Proteins of Diverse Function and Localization in the Protozoan Parasite Toxoplasma gondii

description: Global acetylome analysis of intracellular Toxoplasma gondii tachyzoites<br>
DOI: 10.6084/m9.figshare.6004733
title: respiratory admissions.csv

description: Contains the respiratory hospital admissions data in Greater Glasgow & Clyde between 2002 and 2011.
DOI: 10.6084/m9.figshare.6004733.v1
title: respiratory admissions.csv

description: Contains the respiratory hospital admissions data in Greater Glasgow & Clyde between 2002 and 2011.
DOI: 10.6084/m9.figshare.6004679
title: Environmental determinants of biocrust carbon fluxes across Europe: possibilities for a functional type approach

description: The data set provided allows identification of drivers for metabolic activity in different biocrusts ecosystems across Europe. This data set is obtained through one year of monitorization of microclimate at the sample level together with chlorophyll fluorescence to identify metabolic activty. At the same time, we provide a data set of gas exchange in the laboratory of lichen- and moss dominated biocrusts through four environmentally different locations in Europe. The gas exchange data sets include C fluxes under controlled environmental conditions, light use related, and water use related parameters.<br>
DOI: 10.6084/m9.figshare.6004679.v1
title: Environmental determinants of biocrust carbon fluxes across Europe: possibilities for a functional type approach

description: The data set provided allows identification of drivers for metabolic activity in different biocrusts ecosystems across Europe. This data set is obtained through one year of monitorization of microclimate at the sample level together with chlorophyll fluorescence to identify metabolic activty. At the same time, we provide a data set of gas exchange in the laboratory of lichen- and moss dominated biocrusts through four environmentally different locations in Europe. The gas exchange data sets include C fluxes under controlled environmental conditions, light use related, and water use related parameters.<br>
DOI: 10.6084/m9.figshare.6004655
title: Supplementary Material for: Mechanical Thrombectomy in Elderly Stroke Patients with Mild-to-Moderate Baseline Disability

description: <b><i>Background:</i></b> The number of elderly patients suffering from ischemic stroke is rising. Randomized trials of mechanical thrombectomy (MT) generally exclude patients over the age of 80 years with baseline disability. The aim of this study was to understand the efficacy and safety of MT in elderly patients, many of whom may have baseline impairment. <b><i>Methods:</i></b> Between January 2015 and April 2017, 96 patients ≥80 years old who underwent MT for stroke were selected for a chart review. The data included baseline characteristics, time to treatment, the rate of revascularization, procedural complications, mortality, and 90-day good outcome defined as a modified Rankin Scale (mRS) score of 0–2 or return to baseline. <b><i>Results:</i></b> Of the 96 patients, 50 had mild baseline disability (mRS score 0–1) and 46 had moderate disability (mRS score 2–4). Recanalization was achieved in 84% of the patients, and the rate of symptomatic hemorrhage was 6%. At 90 days, 34% of the patients had a good outcome. There were no significant differences in good outcome between those with mild and those with moderate baseline disability (43 vs. 24%, <i>p</i> = 0.08), between those aged ≤85 and those aged &gt; 85 years (40.8 vs. 26.1%, <i>p</i> = 0.19), and between those treated within and those treated beyond 8 h (39 vs. 20%, <i>p</i> = 0.1). The mortality rate was 38.5% at 90 days. The Alberta Stroke Program Early CT Score (ASPECTS) and the National Institutes of Health Stroke Scale (NIHSS) predicted good outcome regardless of baseline disability (<i>p</i> &lt; 0.001 and <i>p</i> = 0.009, respectively). <b><i>Conclusion:</i></b> Advanced age, baseline disability, and delayed treatment are associated with sub­optimal outcomes after MT. However, redefining good outcome to include return to baseline functioning demonstrates that one-third of this patient population benefits from MT, suggesting the real-life utility of this treatment.
DOI: 10.6084/m9.figshare.6004655.v1
title: Supplementary Material for: Mechanical Thrombectomy in Elderly Stroke Patients with Mild-to-Moderate Baseline Disability

description: <b><i>Background:</i></b> The number of elderly patients suffering from ischemic stroke is rising. Randomized trials of mechanical thrombectomy (MT) generally exclude patients over the age of 80 years with baseline disability. The aim of this study was to understand the efficacy and safety of MT in elderly patients, many of whom may have baseline impairment. <b><i>Methods:</i></b> Between January 2015 and April 2017, 96 patients ≥80 years old who underwent MT for stroke were selected for a chart review. The data included baseline characteristics, time to treatment, the rate of revascularization, procedural complications, mortality, and 90-day good outcome defined as a modified Rankin Scale (mRS) score of 0–2 or return to baseline. <b><i>Results:</i></b> Of the 96 patients, 50 had mild baseline disability (mRS score 0–1) and 46 had moderate disability (mRS score 2–4). Recanalization was achieved in 84% of the patients, and the rate of symptomatic hemorrhage was 6%. At 90 days, 34% of the patients had a good outcome. There were no significant differences in good outcome between those with mild and those with moderate baseline disability (43 vs. 24%, <i>p</i> = 0.08), between those aged ≤85 and those aged &gt; 85 years (40.8 vs. 26.1%, <i>p</i> = 0.19), and between those treated within and those treated beyond 8 h (39 vs. 20%, <i>p</i> = 0.1). The mortality rate was 38.5% at 90 days. The Alberta Stroke Program Early CT Score (ASPECTS) and the National Institutes of Health Stroke Scale (NIHSS) predicted good outcome regardless of baseline disability (<i>p</i> &lt; 0.001 and <i>p</i> = 0.009, respectively). <b><i>Conclusion:</i></b> Advanced age, baseline disability, and delayed treatment are associated with sub­optimal outcomes after MT. However, redefining good outcome to include return to baseline functioning demonstrates that one-third of this patient population benefits from MT, suggesting the real-life utility of this treatment.
DOI: 10.6084/m9.figshare.6004622
title: Topiramate mitigates weight gain in antipsychotic-treated patients with schizophrenia: meta-analysis of randomised controlled trials

description: <b>Objective: </b>Weight gain is one of the most challenging issues in patients with schizophrenia treated with antipsychotics. Several meta-analyses have been conducted to review the efficacy of topiramate in reducing weight, however, several issues regarding the methodology had arisen of which make the results remain ambiguous. <b>Methods:</b> We conducted a meta-analysis of randomised controlled trials about the use of topiramate in patients with schizophrenia for weight reduction. Ten double-blinded randomised placebo-controlled trials and seven open-label randomised controlled trials included 905 patients. <b>Results:</b> Patients treated with topiramate experienced a greater reduction in body weight and BMI. Patients in countries of the lower overweight population showed more significant BMI reduction. Besides, studies from the Middle East and South Asia showed the greatest effect in body weight change, followed by East Asia, then Europe/America. Topiramate group was outperformed control group with significant psychopathology improvement. No difference between two groups regarding the overall side effects. <b>Conclusions:</b> Topiramate was significantly superior to control group in mitigating weight gain and psychopathology in antipsychotic-treated patients with schizophrenia. The effects of topiramate augmentation need further investigations in larger definitive studies using methodological rigor and thorough assessments.
DOI: 10.6084/m9.figshare.6004622.v1
title: Topiramate mitigates weight gain in antipsychotic-treated patients with schizophrenia: meta-analysis of randomised controlled trials

description: <b>Objective: </b>Weight gain is one of the most challenging issues in patients with schizophrenia treated with antipsychotics. Several meta-analyses have been conducted to review the efficacy of topiramate in reducing weight, however, several issues regarding the methodology had arisen of which make the results remain ambiguous. <b>Methods:</b> We conducted a meta-analysis of randomised controlled trials about the use of topiramate in patients with schizophrenia for weight reduction. Ten double-blinded randomised placebo-controlled trials and seven open-label randomised controlled trials included 905 patients. <b>Results:</b> Patients treated with topiramate experienced a greater reduction in body weight and BMI. Patients in countries of the lower overweight population showed more significant BMI reduction. Besides, studies from the Middle East and South Asia showed the greatest effect in body weight change, followed by East Asia, then Europe/America. Topiramate group was outperformed control group with significant psychopathology improvement. No difference between two groups regarding the overall side effects. <b>Conclusions:</b> Topiramate was significantly superior to control group in mitigating weight gain and psychopathology in antipsychotic-treated patients with schizophrenia. The effects of topiramate augmentation need further investigations in larger definitive studies using methodological rigor and thorough assessments.
DOI: 10.6084/m9.figshare.6004619
title: Genetic variations of DNA barcoding region of bumble bees (Hymenoptera: Apidae) from South Korea

description: We reassessed species diversity and genetic structure in Korean bumble bees using DNA barcode analyses of 484 cytochrome c oxidase subunit I (<i>COI</i>) sequences from 24 morphospecies. Based on <i>COI</i>, all of the Korean species formed distinct clades in the phylogenetic trees, except for <i>Bombus</i> (<i>Megabombus</i>) <i>koreanus</i> in the maximum likelihood tree. Five species exhibited low interspecific genetic distances (range: 1.2–2.7%), indicating that they are recently diverged species. <i>COI</i> data could not be used to identify bumble bees at the subspecies level. For the dominant species, most local populations in Korea were panmictic and were more closely related to continental populations than to allopatric populations. Furthermore, sympatric haplotypes within Korea could be distinguished. We detected <i>B</i>. (<i>Megabombus</i>) <i>diversus</i> in South Korea for the first time. Our results demonstrate that DNA barcoding is a useful technique for species recognition and for allopatric and sympatric haplotype detection in bumble bees.
DOI: 10.6084/m9.figshare.6004619.v2
title: Genetic variations of DNA barcoding region of bumble bees (Hymenoptera: Apidae) from South Korea

description: We reassessed species diversity and genetic structure in Korean bumble bees using DNA barcode analyses of 484 cytochrome c oxidase subunit I (<i>COI</i>) sequences from 24 morphospecies. Based on <i>COI</i>, all of the Korean species formed distinct clades in the phylogenetic trees, except for <i>Bombus</i> (<i>Megabombus</i>) <i>koreanus</i> in the maximum likelihood tree. Five species exhibited low interspecific genetic distances (range: 1.2–2.7%), indicating that they are recently diverged species. <i>COI</i> data could not be used to identify bumble bees at the subspecies level. For the dominant species, most local populations in Korea were panmictic and were more closely related to continental populations than to allopatric populations. Furthermore, sympatric haplotypes within Korea could be distinguished. We detected <i>B</i>. (<i>Megabombus</i>) <i>diversus</i> in South Korea for the first time. Our results demonstrate that DNA barcoding is a useful technique for species recognition and for allopatric and sympatric haplotype detection in bumble bees.
DOI: 10.6084/m9.figshare.6004619.v1
title: Genetic variations of DNA barcoding region of bumble bees (Hymenoptera: Apidae) from South Korea

description: We reassessed species diversity and genetic structure in Korean bumble bees using DNA barcode analyses of 484 cytochrome c oxidase subunit I (<i>COI</i>) sequences from 24 morphospecies. Based on <i>COI</i>, all of the Korean species formed distinct clades in the phylogenetic trees, except for <i>Bombus</i> (<i>Megabombus</i>) <i>koreanus</i> in the maximum likelihood tree. Five species exhibited low interspecific genetic distances (range: 1.2–2.7%), indicating that they are recently diverged species. <i>COI</i> data could not be used to identify bumble bees at the subspecies level. For the dominant species, most local populations in Korea were panmictic and were more closely related to continental populations than to allopatric populations. Furthermore, sympatric haplotypes within Korea could be distinguished. We detected <i>B</i>. (<i>Megabombus</i>) <i>diversus</i> in South Korea for the first time. Our results demonstrate that DNA barcoding is a useful technique for species recognition and for allopatric and sympatric haplotype detection in bumble bees.
DOI: 10.6084/m9.figshare.6004352
title: Phylogeny of highly hybridogenous Iberian <i>Centaurea</i> L. (Asteraceae) taxa and its taxonomic implications

description: <i>Centaurea</i> is one of the richest but less investigated genera of tribe Cardueae (Asteraceae). We reconstructed an updated phylogeny of Iberian species of <i>Centaurea</i> sects. <i>Centaurea, Jacea, Lepteranthus</i> and <i>Phalolepis</i> by sampling representatives from 48 taxa (~60% of the taxonomic variation). Phylogenetic trees and haplotypic networks were based on ITS and <i>trn</i>LF sequences, and Bayesian dating analysis on ITS data. We found two main lineages within this monophyletic group: (1) a W Mediterranean <i>Centaurea</i> and <i>Phalolepis</i> plus <i>C. diffusa</i> (CP) clade; and (2) an E Mediterranean – Eurosiberian <i>Jacea</i> and <i>Lepteranthus</i> (JL) clade. Our analyses provide new reconstructions for species of <i>C.</i> sects. <i>Jacea</i> and <i>Lepteranthus</i> that support new taxonomic circumscriptions. The inferred divergence times indicated succesive splits of the CP and JL lineages during the Miocene (e.g. CP/JL, Serravalian; <i>Jacea</i>/<i>Lepteranthus</i>, Tortonian; <i>C. hyssopifolia</i>, <i>C</i>. gr. <i>janeri</i>, <i>C.</i> gr. <i>exarata</i>, Messinian) and the Pliocene (<i>C. linifolia</i>/<i>C. antennata</i>). Interspecific hybridizations and polyploidizations likely took place during the Pleistocene (1.5–0.7 Ma) interglacials, when several hybrid lineages apparently originated (e.g. <i>C. x decipiens</i>). Allopatric speciation probably played an important role in the diversification of the Iberian <i>Centaurea</i> taxa, since the origins of several endemic species occurred during mid-late Pleistocene times (2.2–1.3 Ma) in several disjunct Iberian ranges.
DOI: 10.6084/m9.figshare.6004352.v1
title: Phylogeny of highly hybridogenous Iberian <i>Centaurea</i> L. (Asteraceae) taxa and its taxonomic implications

description: <i>Centaurea</i> is one of the richest but less investigated genera of tribe Cardueae (Asteraceae). We reconstructed an updated phylogeny of Iberian species of <i>Centaurea</i> sects. <i>Centaurea, Jacea, Lepteranthus</i> and <i>Phalolepis</i> by sampling representatives from 48 taxa (~60% of the taxonomic variation). Phylogenetic trees and haplotypic networks were based on ITS and <i>trn</i>LF sequences, and Bayesian dating analysis on ITS data. We found two main lineages within this monophyletic group: (1) a W Mediterranean <i>Centaurea</i> and <i>Phalolepis</i> plus <i>C. diffusa</i> (CP) clade; and (2) an E Mediterranean – Eurosiberian <i>Jacea</i> and <i>Lepteranthus</i> (JL) clade. Our analyses provide new reconstructions for species of <i>C.</i> sects. <i>Jacea</i> and <i>Lepteranthus</i> that support new taxonomic circumscriptions. The inferred divergence times indicated succesive splits of the CP and JL lineages during the Miocene (e.g. CP/JL, Serravalian; <i>Jacea</i>/<i>Lepteranthus</i>, Tortonian; <i>C. hyssopifolia</i>, <i>C</i>. gr. <i>janeri</i>, <i>C.</i> gr. <i>exarata</i>, Messinian) and the Pliocene (<i>C. linifolia</i>/<i>C. antennata</i>). Interspecific hybridizations and polyploidizations likely took place during the Pleistocene (1.5–0.7 Ma) interglacials, when several hybrid lineages apparently originated (e.g. <i>C. x decipiens</i>). Allopatric speciation probably played an important role in the diversification of the Iberian <i>Centaurea</i> taxa, since the origins of several endemic species occurred during mid-late Pleistocene times (2.2–1.3 Ma) in several disjunct Iberian ranges.
DOI: 10.6084/m9.figshare.6004343
title: Excretion patterns of <i>Campylobacter jejuni</i> by dairy cows

description: Excretion of the human bacterial pathogen <i>Campylobacter jejuni</i> by naturally infected dairy cows was investigated by monitoring 18 and 17 cows on two different commercial farms fortnightly for up to 12 months. <i>C. jejuni</i> was enumerated in the collected faeces by a most probable number technique and genotyped by enterobacterial repetitive intergenic consensus (ERIC) sequences. On both farms, <i>C. jejuni</i> excretion was highly variable among the studied cows, with excretion patterns ranging from chronic to sporadic. Chronic excretion of <i>C. jejuni</i> was associated with long-term predominance of a given genotype, co-excretion of a few genotypes, or succession over time of dominant genotypes. Sporadic excretion was with re-excretion of the same <i>C. jejuni</i> genotype when there was less than 1.5 months between <i>C. jejuni</i>-positive samples. Overall, the results showed the complexity of <i>C. jejuni</i> excretion pattern by dairy cows with an animal and farm specificity.
DOI: 10.6084/m9.figshare.6004343.v1
title: Excretion patterns of <i>Campylobacter jejuni</i> by dairy cows

description: Excretion of the human bacterial pathogen <i>Campylobacter jejuni</i> by naturally infected dairy cows was investigated by monitoring 18 and 17 cows on two different commercial farms fortnightly for up to 12 months. <i>C. jejuni</i> was enumerated in the collected faeces by a most probable number technique and genotyped by enterobacterial repetitive intergenic consensus (ERIC) sequences. On both farms, <i>C. jejuni</i> excretion was highly variable among the studied cows, with excretion patterns ranging from chronic to sporadic. Chronic excretion of <i>C. jejuni</i> was associated with long-term predominance of a given genotype, co-excretion of a few genotypes, or succession over time of dominant genotypes. Sporadic excretion was with re-excretion of the same <i>C. jejuni</i> genotype when there was less than 1.5 months between <i>C. jejuni</i>-positive samples. Overall, the results showed the complexity of <i>C. jejuni</i> excretion pattern by dairy cows with an animal and farm specificity.
DOI: 10.6084/m9.figshare.6004325
title: Regulation of the circadian rhythmic expression of <i>Sglt1</i> in the mouse small intestine through histone acetylation and the mRNA elongation factor, BRD4-P-TEFb

description: Jejunal sodium/glucose co-transporter (<i>Sglt1</i>) displays circadian expression. The jejunum was collected every 4 h from mice, and we examined histone acetylation and binding of bromodomain-containing protein-4 (BRD4) around of the gene. Histone acetylation increased in the transcribed region of <i>Sglt1</i> prior to induction of the gene. Furthermore, the binding of mRNA elongation factor around the gene showed circadian rhythm.