cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.6046922.v1
title: Iron overdose epidemiology, clinical features and iron concentration-effect relationships: the UK experience 2008–2017

description: <b>Background:</b> Iron poisoning is potentially serious, but mortality has fallen worldwide since implementation of pack size and packaging restrictions, and changes in iron use during pregnancy. The management of individual cases of overdose remains problematic due to uncertainty about indications for antidote. We examine the epidemiology of iron overdose in hospital cases referred to the UK National Poisons Information Service (NPIS) and evaluate the toxicokinetics of iron in patients ingesting only iron preparations. <b>Methods:</b> Anonymized hospital referral patient data from the NPIS database were collated for the period 1 January 2008 to 31 July 2017. Information was extracted, where recorded, on type of ingestion [iron alone (single), or combined with other agents (mixed)], reported dose, iron salt, timed iron concentrations and symptoms. In single-agent ingestions, the relationships between reported elemental iron dose, early concentrations (4–6 h), and symptoms were evaluated in teenagers and adults (≥13 years) and children (≤12 years) using standard statistical techniques (correlation and unpaired nonparametric comparisons). In those patients with sufficient sample points (three or more), a simple kinetic analysis was conducted. <b>Results:</b> Of 2708 patients with iron overdoses referred by UK hospitals for advice during the 9.7 years study period, 1839 were single-agent ingestions. There were two peaks in age incidence in single-agent exposures; 539/1839 (28.4%) were &lt;6 years (54.1% males) while 675/1839 (36.7%) were between 13 and 20 years (91% females), the latter a substantial excess over the proportion in the totality of hospital referrals to the NPIS in the same period (13–20 years: 23,776/144,268 16.5%; 67.5% female) (<i>p</i> p <b>Conclusion:</b> Single-agent iron exposures reported from UK hospitals were most common in children &lt;5 years and young people aged 13–20 years. Poisoning with organ failure was not identified and there were no fatalities. No correlations were observed between reported iron doses and early concentrations, or between iron concentrations and symptoms in this cohort of mild-to-moderate poisoning.
DOI: 10.6084/m9.figshare.6046919
title: A Review on the Phylogeography of Potentially Chemoautotrophic Bacteria from Major Vent and Seep Fauna and Their Contribution to Primary Production

description: Though geochemically and microbially well-defined, the phylogeographic data of microbial symbionts in these highly productive vent and seep systems require a closer examination and synthesis. QIIME analysis of 16S rDNA of bacterial associates of major fauna from 1995 to 2015 was thus undertaken to examine phylogeography of their microbial symbionts along with host specificity. While phylotypes were generally unrelated, bivalve <i>Calyptogena</i> exhibited vertical transmission sharing similar symbionts in geographically separated geosystems. Different species of tubeworms possessed identical symbionts through horizontal acquisition at geographically distinct Guaymas basin vent and the Arctic seep. Vents were more versatile with both mobile and sessile fauna hosting ecto- and endo-symbionts. Comparatively, seeps were more specialized with sessile animal hosts with endosymbionts. C-fixation rate measurements are still scanty for sediments, bedrocks and serpentine systems; vent, seep, anoxic and oxic basins were shown to fix up to 22, 325, 96, and 37,400 g C m<sup>−3</sup> y<sup>−1</sup>, respectively. Estimation of chemosynthetic primary production rates in chemoautotrophic ecosystems could endeavor to improve existing biogeographic models by coupling volcanism and plate-tectonics to global climate and phylogeography.
DOI: 10.6084/m9.figshare.6046919.v1
title: A Review on the Phylogeography of Potentially Chemoautotrophic Bacteria from Major Vent and Seep Fauna and Their Contribution to Primary Production

description: Though geochemically and microbially well-defined, the phylogeographic data of microbial symbionts in these highly productive vent and seep systems require a closer examination and synthesis. QIIME analysis of 16S rDNA of bacterial associates of major fauna from 1995 to 2015 was thus undertaken to examine phylogeography of their microbial symbionts along with host specificity. While phylotypes were generally unrelated, bivalve <i>Calyptogena</i> exhibited vertical transmission sharing similar symbionts in geographically separated geosystems. Different species of tubeworms possessed identical symbionts through horizontal acquisition at geographically distinct Guaymas basin vent and the Arctic seep. Vents were more versatile with both mobile and sessile fauna hosting ecto- and endo-symbionts. Comparatively, seeps were more specialized with sessile animal hosts with endosymbionts. C-fixation rate measurements are still scanty for sediments, bedrocks and serpentine systems; vent, seep, anoxic and oxic basins were shown to fix up to 22, 325, 96, and 37,400 g C m<sup>−3</sup> y<sup>−1</sup>, respectively. Estimation of chemosynthetic primary production rates in chemoautotrophic ecosystems could endeavor to improve existing biogeographic models by coupling volcanism and plate-tectonics to global climate and phylogeography.
DOI: 10.6084/m9.figshare.6046895
title: Malmqvist_ObservationData_ESM from The bat–bird–bug battle: daily flight activity of insects and their predators over a rice field revealed by high-resolution Scheimpflug Lidar

description: Observated size of all observations used in the papper.
DOI: 10.6084/m9.figshare.6046895.v1
title: Malmqvist_ObservationData_ESM from The bat–bird–bug battle: daily flight activity of insects and their predators over a rice field revealed by high-resolution Scheimpflug Lidar

description: Observated size of all observations used in the papper.
DOI: 10.6084/m9.figshare.6046679
title: MOESM7 of Quantitative profiling of BATF family proteins/JUNB/IRF hetero-trimers using Spec-seq

description: Additional file 7. Oligos used. Oligos used for PCR and sequencing.
DOI: 10.6084/m9.figshare.6046679.v1
title: MOESM7 of Quantitative profiling of BATF family proteins/JUNB/IRF hetero-trimers using Spec-seq

description: Additional file 7. Oligos used. Oligos used for PCR and sequencing.
DOI: 10.6084/m9.figshare.6046670
title: Additional file 7: of Genome-wide transcriptional analyses in Anopheles mosquitoes reveal an unexpected association between salivary gland gene expression and insecticide resistance

description: Sequences of primers used in qPCR analyses and dsRNA synthesis. (XLSX 11Â kb)
DOI: 10.6084/m9.figshare.6046670.v1
title: Additional file 7: of Genome-wide transcriptional analyses in Anopheles mosquitoes reveal an unexpected association between salivary gland gene expression and insecticide resistance

description: Sequences of primers used in qPCR analyses and dsRNA synthesis. (XLSX 11Â kb)
DOI: 10.6084/m9.figshare.6046667
title: MOESM5 of Quantitative profiling of BATF family proteins/JUNB/IRF hetero-trimers using Spec-seq

description: Additional file 5. Normalized binding energy for BATFx-JUNB-IRFx for IRF sites. Normalized binding energy for BATFx-JUNB-IRFx for IRF binding sites are shown. Energy value were taken from averaging the energy of all oligos single variant to the wild type binding site (GAAA for 0sp and TTTC for 4sp), then normalized by setting the 0-sp for each TF combination to 0.
DOI: 10.6084/m9.figshare.6046667.v1
title: MOESM5 of Quantitative profiling of BATF family proteins/JUNB/IRF hetero-trimers using Spec-seq

description: Additional file 5. Normalized binding energy for BATFx-JUNB-IRFx for IRF sites. Normalized binding energy for BATFx-JUNB-IRFx for IRF binding sites are shown. Energy value were taken from averaging the energy of all oligos single variant to the wild type binding site (GAAA for 0sp and TTTC for 4sp), then normalized by setting the 0-sp for each TF combination to 0.
DOI: 10.6084/m9.figshare.6046661
title: Additional file 6: of Genome-wide transcriptional analyses in Anopheles mosquitoes reveal an unexpected association between salivary gland gene expression and insecticide resistance

description: Complete microarray results. (XLSX 7082Â kb)
DOI: 10.6084/m9.figshare.6046661.v1
title: Additional file 6: of Genome-wide transcriptional analyses in Anopheles mosquitoes reveal an unexpected association between salivary gland gene expression and insecticide resistance

description: Complete microarray results. (XLSX 7082Â kb)
DOI: 10.6084/m9.figshare.6046658
title: MOESM4 of Quantitative profiling of BATF family proteins/JUNB/IRF hetero-trimers using Spec-seq

description: Additional file 4. Normalized binding energy for BATFx-JUNB-IRFx for TRE/CRE sites. Normalized binding energy for BATFx-JUNB-IRFx for binding sites TRE-0sp, TRE-1sp and CRE are shown. Energy value were taken from TGAGTCAT for TRE-0SP, ATGAGTCA for TRE-1sp, and TGACGTCA for CRE and normalized by setting the energy value of TGAGTCAT of each TF combination to 0 (Fig.Â 3).
DOI: 10.6084/m9.figshare.6046658.v1
title: MOESM4 of Quantitative profiling of BATF family proteins/JUNB/IRF hetero-trimers using Spec-seq

description: Additional file 4. Normalized binding energy for BATFx-JUNB-IRFx for TRE/CRE sites. Normalized binding energy for BATFx-JUNB-IRFx for binding sites TRE-0sp, TRE-1sp and CRE are shown. Energy value were taken from TGAGTCAT for TRE-0SP, ATGAGTCA for TRE-1sp, and TGACGTCA for CRE and normalized by setting the energy value of TGAGTCAT of each TF combination to 0 (Fig.Â 3).
DOI: 10.6084/m9.figshare.6046625
title: MOESM2 of Quantitative profiling of BATF family proteins/JUNB/IRF hetero-trimers using Spec-seq

description: Additional file 2. Spec-seq results for BATFx-JUNB. Spec-seq results for BATF-JUNB (sheet1), BATF2-JUNB (sheet2), and BATF3-JUNB (sheet3). Each sheet contains a CRE part and TRE part. Only the single variants from the wild type target (TGACGTCA for CRE and TGAC/GTCA for TRE) were included in the tables. The number of counts in the bound and unbound bands are provided. The ration of bound/unbound are proportional to the relative binding affinities. Energy = −ln(ratio); energy units are kT (k = Boltzmann constant, T in degrees Kelvin).
DOI: 10.6084/m9.figshare.6046625.v1
title: MOESM2 of Quantitative profiling of BATF family proteins/JUNB/IRF hetero-trimers using Spec-seq

description: Additional file 2. Spec-seq results for BATFx-JUNB. Spec-seq results for BATF-JUNB (sheet1), BATF2-JUNB (sheet2), and BATF3-JUNB (sheet3). Each sheet contains a CRE part and TRE part. Only the single variants from the wild type target (TGACGTCA for CRE and TGAC/GTCA for TRE) were included in the tables. The number of counts in the bound and unbound bands are provided. The ration of bound/unbound are proportional to the relative binding affinities. Energy = −ln(ratio); energy units are kT (k = Boltzmann constant, T in degrees Kelvin).
DOI: 10.6084/m9.figshare.6046613
title: Additional file 1: of HLA and proteasome expression body map

description: Table S1. List of tissues and cell types. Table S2. Median HLA expression values of the GTEx and HPA samples (for Fig. 1, Additional file 2: Figure S1). Table S3. Correlation analysis of HLA expression and APM components (normalized according to RPKM). Table S4. Correlation analysis of HLA expression and APM components (normalized according to TPM). Table S5. Median HLA expression of immune cell populations. Table S6. Median HLA expression in stem and progenitor cells. Table S7. Differential expression analysis of brain samples (high HLA vs. Low HLA expression) for Additional file 2: Figure S2. Table S8. Median TAP1 and TAP2 expression values of the GTEx and HPA samples (for Additional file 2: Figure S8) (XLSX 2820Â kb)
DOI: 10.6084/m9.figshare.6046613.v1
title: Additional file 1: of HLA and proteasome expression body map

description: Table S1. List of tissues and cell types. Table S2. Median HLA expression values of the GTEx and HPA samples (for Fig. 1, Additional file 2: Figure S1). Table S3. Correlation analysis of HLA expression and APM components (normalized according to RPKM). Table S4. Correlation analysis of HLA expression and APM components (normalized according to TPM). Table S5. Median HLA expression of immune cell populations. Table S6. Median HLA expression in stem and progenitor cells. Table S7. Differential expression analysis of brain samples (high HLA vs. Low HLA expression) for Additional file 2: Figure S2. Table S8. Median TAP1 and TAP2 expression values of the GTEx and HPA samples (for Additional file 2: Figure S8) (XLSX 2820Â kb)
DOI: 10.6084/m9.figshare.6046502
title: Additional file 4: of Occurrence and distribution of Giardia species in wild rodents in Germany

description: Table S2. Accession numbers of nucleic acid sequences generated in the present study. (XLSX 26 kb)
DOI: 10.6084/m9.figshare.6046502.v1
title: Additional file 4: of Occurrence and distribution of Giardia species in wild rodents in Germany

description: Table S2. Accession numbers of nucleic acid sequences generated in the present study. (XLSX 26 kb)
DOI: 10.6084/m9.figshare.6046481
title: Additional file 1: of Community analysis of the abundance and diversity of biting midge species (Diptera: Ceratopogonidae) in three European countries at different latitudes

description: Table S1. A list of the species per country found in this study. References to previous research of Culicoides fauna in the same countries are made, as well as remarks on the distribution of the species as described in the IIKC. (XLSX 14 kb)
DOI: 10.6084/m9.figshare.6046481.v1
title: Additional file 1: of Community analysis of the abundance and diversity of biting midge species (Diptera: Ceratopogonidae) in three European countries at different latitudes

description: Table S1. A list of the species per country found in this study. References to previous research of Culicoides fauna in the same countries are made, as well as remarks on the distribution of the species as described in the IIKC. (XLSX 14 kb)
DOI: 10.6084/m9.figshare.6046475
title: Additional file 1: of Investigation of temperature conditions in Swiss urban and suburban microhabitats for the overwintering suitability of diapausing Aedes albopictus eggs

description: Table S1. Recorded temperature series for January 2017. Details and names of study sites are reported in Table 1 and Fig. 2. (XLSX 616 kb)
DOI: 10.6084/m9.figshare.6046475.v1
title: Additional file 1: of Investigation of temperature conditions in Swiss urban and suburban microhabitats for the overwintering suitability of diapausing Aedes albopictus eggs

description: Table S1. Recorded temperature series for January 2017. Details and names of study sites are reported in Table 1 and Fig. 2. (XLSX 616 kb)
DOI: 10.6084/m9.figshare.6046460
title: Additional file 4: of Diverse laboratory colonies of Aedes aegypti harbor the same adult midgut bacterial microbiome

description: Table S1. Identification of bacterial genera that are differentially abundant in pairwise comparisons of colonies. P-values were obtained with a Wald test are corrected for multiple testing. The lack of a comparison between two colonies indicates that no bacterial genera were significantly different between them. (XLSX 15 kb)
DOI: 10.6084/m9.figshare.6046460.v1
title: Additional file 4: of Diverse laboratory colonies of Aedes aegypti harbor the same adult midgut bacterial microbiome

description: Table S1. Identification of bacterial genera that are differentially abundant in pairwise comparisons of colonies. P-values were obtained with a Wald test are corrected for multiple testing. The lack of a comparison between two colonies indicates that no bacterial genera were significantly different between them. (XLSX 15 kb)
DOI: 10.6084/m9.figshare.6046334
title: Additional file 6 of Notos - a galaxy tool to analyze CpN observed expected ratios for inferring DNA methylation types

description: CpG o/e ratios from dbEST analyzed by Notos: mode detection output - bootstrap statistics. The optional bootstrap procedure of the density estimation step of Notos carried out for 603 species from dbEST provides the tab-separated file ‘modes_bootstrap.csv’. In the following we provide brief explanation on the content of the columns of this file. Future improvements of Notos may lead to changes, thus consult the the readme section of the galaxy interface. • Name: name of the file analyzed • Number of modes (NM): number of modes detected for the original sample • % of samples with same NM: proportion of bootstrap samples with the same number of modes (0 - 100) • % of samples with more NM: proportion of bootstrap samples a higher number of modes (0 - 100) • % of samples with less NM: proportion of bootstrap samples a lower number of modes (0 - 100) • no. of samples with same NM: number of bootstrap samples with the same number of modes • % BS samples excluded by prob. mass crit.: proportion of bootstrap samples excluded due to strong deviations from the probability masses determined for the original sample (0 - 100) (CSV 29.8 kb)
DOI: 10.6084/m9.figshare.6046334.v1
title: Additional file 6 of Notos - a galaxy tool to analyze CpN observed expected ratios for inferring DNA methylation types

description: CpG o/e ratios from dbEST analyzed by Notos: mode detection output - bootstrap statistics. The optional bootstrap procedure of the density estimation step of Notos carried out for 603 species from dbEST provides the tab-separated file ‘modes_bootstrap.csv’. In the following we provide brief explanation on the content of the columns of this file. Future improvements of Notos may lead to changes, thus consult the the readme section of the galaxy interface. • Name: name of the file analyzed • Number of modes (NM): number of modes detected for the original sample • % of samples with same NM: proportion of bootstrap samples with the same number of modes (0 - 100) • % of samples with more NM: proportion of bootstrap samples a higher number of modes (0 - 100) • % of samples with less NM: proportion of bootstrap samples a lower number of modes (0 - 100) • no. of samples with same NM: number of bootstrap samples with the same number of modes • % BS samples excluded by prob. mass crit.: proportion of bootstrap samples excluded due to strong deviations from the probability masses determined for the original sample (0 - 100) (CSV 29.8 kb)
DOI: 10.6084/m9.figshare.6046319
title: Additional file 5 of Notos - a galaxy tool to analyze CpN observed expected ratios for inferring DNA methylation types

description: CpG o/e ratios from dbEST analyzed by Notos: mode detection output - basic statistics. The density estimation step of Notos carried out for 603 species from dbEST provides the tab-separated file ‘modes_basic_stats.csv’. In the following we provide brief explanation on the content of the columns of this file. We are hereby using the following notation: σ – standard deviation, μ – mean, ν – median, Mo – mode, Q i – the i-th quartile, q s – the s % quantile. Future improvements of Notos may lead to changes, therefore consult the the readme section of the galaxy interface. • Name: name of the file analyzed • Number of modes: number of modes without applying any exclusion criterion • Number of modes (5% excluded): number of modes after exclusion of those with less then 5% probability mass • Number of modes (10% excluded): number of modes after exclusion of those with less then 10% probability mass • Skewness: Pearson’s moment coefficient of skewness E X − μ σ 3 $E\left [\left (\frac {X-\mu }{\sigma }\right)^{3}\right ]$ • Mode skewness: Pearson’s first skewness coefficient μ − Mo σ $\frac {\mu - Mo}{\sigma }$ • Nonparametric skew: μ − ν σ $\frac {\mu - \nu }{\sigma }$ • Q50 skewness: Bowley’s measure of skewness / Yule’s coefficient Q 3 + Q 1 − 2 Q 2 Q 3 − Q 1 $\frac {Q_{3} + Q_{1} - 2Q_{2}}{Q_{3} - Q_{1}}$ • Absolute Q50 mode skewness: (Q3+Q1)/2−Mo • Absolute Q80 mode skewness: (q90+q10)/2−Mo • Peak i, i=1,...,10: location of peak i • Probability Mass i, i=1,...,10: probability mass assigned to peak i • Warning close modes: flag indicating that modes lie too close. The default threshold is 0.2 • Number close modes: number of modes lying too close, given the threshold • Modes (close modes excluded): number of modes after exclusion of modes that are too close • SD: sample standard deviation σ • IQR 80: 80% distance between the 90% and 10% quantile • IQR 90: 90% distance between the 95% and 5% quantile • Total number of sequences: total number of sequences / CpG o/e ratios used for this analysis step (CSV 186 kb)
DOI: 10.6084/m9.figshare.6046319.v1
title: Additional file 5 of Notos - a galaxy tool to analyze CpN observed expected ratios for inferring DNA methylation types

description: CpG o/e ratios from dbEST analyzed by Notos: mode detection output - basic statistics. The density estimation step of Notos carried out for 603 species from dbEST provides the tab-separated file ‘modes_basic_stats.csv’. In the following we provide brief explanation on the content of the columns of this file. We are hereby using the following notation: σ – standard deviation, μ – mean, ν – median, Mo – mode, Q i – the i-th quartile, q s – the s % quantile. Future improvements of Notos may lead to changes, therefore consult the the readme section of the galaxy interface. • Name: name of the file analyzed • Number of modes: number of modes without applying any exclusion criterion • Number of modes (5% excluded): number of modes after exclusion of those with less then 5% probability mass • Number of modes (10% excluded): number of modes after exclusion of those with less then 10% probability mass • Skewness: Pearson’s moment coefficient of skewness E X − μ σ 3 $E\left [\left (\frac {X-\mu }{\sigma }\right)^{3}\right ]$ • Mode skewness: Pearson’s first skewness coefficient μ − Mo σ $\frac {\mu - Mo}{\sigma }$ • Nonparametric skew: μ − ν σ $\frac {\mu - \nu }{\sigma }$ • Q50 skewness: Bowley’s measure of skewness / Yule’s coefficient Q 3 + Q 1 − 2 Q 2 Q 3 − Q 1 $\frac {Q_{3} + Q_{1} - 2Q_{2}}{Q_{3} - Q_{1}}$ • Absolute Q50 mode skewness: (Q3+Q1)/2−Mo • Absolute Q80 mode skewness: (q90+q10)/2−Mo • Peak i, i=1,...,10: location of peak i • Probability Mass i, i=1,...,10: probability mass assigned to peak i • Warning close modes: flag indicating that modes lie too close. The default threshold is 0.2 • Number close modes: number of modes lying too close, given the threshold • Modes (close modes excluded): number of modes after exclusion of modes that are too close • SD: sample standard deviation σ • IQR 80: 80% distance between the 90% and 10% quantile • IQR 90: 90% distance between the 95% and 5% quantile • Total number of sequences: total number of sequences / CpG o/e ratios used for this analysis step (CSV 186 kb)
DOI: 10.6084/m9.figshare.6046313
title: Additional file 9: of Efficient anchoring of alien chromosome segments introgressed into bread wheat by new Leymus racemosus genome-based markers

description: Table S9. Detailed information of Lr#N-specific markers. (XLSX 44 kb)
DOI: 10.6084/m9.figshare.6046313.v1
title: Additional file 9: of Efficient anchoring of alien chromosome segments introgressed into bread wheat by new Leymus racemosus genome-based markers

description: Table S9. Detailed information of Lr#N-specific markers. (XLSX 44 kb)
DOI: 10.6084/m9.figshare.6046298
title: Additional file 8: of Efficient anchoring of alien chromosome segments introgressed into bread wheat by new Leymus racemosus genome-based markers

description: Table S8. Detailed information of Lr#L-specific markers. (XLSX 52 kb)
DOI: 10.6084/m9.figshare.6046298.v1
title: Additional file 8: of Efficient anchoring of alien chromosome segments introgressed into bread wheat by new Leymus racemosus genome-based markers

description: Table S8. Detailed information of Lr#L-specific markers. (XLSX 52 kb)
DOI: 10.6084/m9.figshare.6046277
title: Additional file 7: of Efficient anchoring of alien chromosome segments introgressed into bread wheat by new Leymus racemosus genome-based markers

description: Table S7. Detailed information of Lr#K-specific markers. (XLSX 46 kb)