cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.7546592.v8
title: Supplementary Material for: Nomograms of Fetal Cardiac Dimensions at 18–41 Weeks of Gestation

description: <b><i>Objective:</i></b> There is a need for standardized reference values for cardiac dimensions in prenatal life. The objective of the present study was to construct nomograms for fetal cardiac dimensions using a well-defined echocardiographic methodology in a low-risk population. <b><i>Methods:</i></b> This is a prospective cohort study including 602 low-risk singleton pregnancies undergoing a standardized fetal echocardiography to accurately assess fetal cardiac, ventricular, and atrial dimensions. Parametric regressions were tested to model each measurement against gestational age from 18 to 41 weeks of gestation. <b><i>Results:</i></b> Nomograms were constructed for fetal cardiac dimensions (transverse and longitudinal diameters and areas) of the whole heart, atria, and ventricles, as well as myocardial wall thicknesses. All dimensions showed a progressive increase with gestational age. The best model for most parameters was a second-degree linear polynomial. Fetal cardiac, ventricular, and atrial diameters and areas were successfully obtained in 98.6% of the fetuses, while myocardial wall thicknesses could be obtained in 96.5% of the population. The results showed excellent interobserver and intraobserver reproducibility (intraclass correlation coefficient, ICC &gt; 0.811 and ICC &gt; 0.957, respectively). <b><i>Conclusions:</i></b> We provide standardized and comprehensively evaluated reference values for fetal cardiac morphometric parameters across gestation in a low-risk population. These no mograms would enable the early identification of different patterns of fetal cardiac remodeling.
DOI: 10.7284/108928
title: CTD (Conductivity, Temperature, Depth) data collected during research cruise HRS120711EN using a Sea-Bird SBE-911+ instrument system onboard the platform RV Hugh R. Sharp

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7546541.v1
title: Supplementary Material for: Early-Life Environmental Factors, IFN-γ Methylation Patterns, and Childhood Allergic Rhinitis

description: <b><i>Background:</i></b> While early-life risk factors are known to influence the risk of allergies, the biological mechanisms underlying this observation are unclear. The aim of this study was to examine whether DNA methylation in childhood could underlie the association between early-life risk factors and allergic rhinitis (AR). <b><i>Methods:</i></b> In total, 234 patients, aged 6 years, were recruited, i.e., 114 were patients with AR (AR group) and 120 healthy children without AR (NAR group). The DNA methylation patterns of the <i>IFN-γ</i> promoter regions in CD4+ cells were analyzed using bisulfite sequencing. The percentage of Th1 was investigated by flow cytometry. The relationship among DNA methylation, early-life environment, and AR was examined. <b><i>Results:</i></b> After adjusting for several likely confounders, there was a higher likelihood of AR in children who had mothers with allergies than in children who had nonallergic mothers (OR = 5.19; 95% CI 1.18–29.41), in children who were born in autumn or winter than in children who were born in the summer or spring (OR = 2.69; 95% CI 1.34–5.40), and in children who lived with indoor carpet or wallpaper than in children who lived without indoor carpet or wallpaper (OR = 4.14; 95% CI 2.05–8.30). Compared to the NAR group, the AR group had higher mean methylation levels of the promoter region in <i>IFN-γY</i>, and lower numbers of IFN-γ+CD4+ cells were associated with autumn-winter birthdates. The season of birth had an indirect effect on AR at 6 years, which was mediated by the mean <i>IFN-γ</i> promoter methylation level. <b><i>Conclusions:</i></b> This study suggests that early-life environments affect AR, and this is supported by the finding of <i>IFN-γY</i> methylation as a mediator of the effect of an individual’s season of birth on AR.
DOI: 10.7284/107872
title: Multiplexed data collected during research cruise HRS120717JK using a UDel SMS instrument system onboard the platform RV Hugh R. Sharp

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7546532
title: Carabus RAD matrix

description: A RAD sequence matrix in phylip format of 17 Carabus species (89 individual samples), assembled with pyRAD. pyRAD parameters: sequence similarity=70% and minimum number of taxa=45.
DOI: 10.6084/m9.figshare.7546592.v9
title: Supplementary Material for: Nomograms of Fetal Cardiac Dimensions at 18–41 Weeks of Gestation

description: <b><i>Objective:</i></b> There is a need for standardized reference values for cardiac dimensions in prenatal life. The objective of the present study was to construct nomograms for fetal cardiac dimensions using a well-defined echocardiographic methodology in a low-risk population. <b><i>Methods:</i></b> This is a prospective cohort study including 602 low-risk singleton pregnancies undergoing a standardized fetal echocardiography to accurately assess fetal cardiac, ventricular, and atrial dimensions. Parametric regressions were tested to model each measurement against gestational age from 18 to 41 weeks of gestation. <b><i>Results:</i></b> Nomograms were constructed for fetal cardiac dimensions (transverse and longitudinal diameters and areas) of the whole heart, atria, and ventricles, as well as myocardial wall thicknesses. All dimensions showed a progressive increase with gestational age. The best model for most parameters was a second-degree linear polynomial. Fetal cardiac, ventricular, and atrial diameters and areas were successfully obtained in 98.6% of the fetuses, while myocardial wall thicknesses could be obtained in 96.5% of the population. The results showed excellent interobserver and intraobserver reproducibility (intraclass correlation coefficient, ICC &gt; 0.811 and ICC &gt; 0.957, respectively). <b><i>Conclusions:</i></b> We provide standardized and comprehensively evaluated reference values for fetal cardiac morphometric parameters across gestation in a low-risk population. These no mograms would enable the early identification of different patterns of fetal cardiac remodeling.
DOI: 10.7284/108931
title: ADCP (Acoustic Doppler Current Profiler) data collected during research cruise HRS120717JK using a RDI VmDas instrument system onboard the platform RV Hugh R. Sharp

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7546481
title: ExperimentData_1

description: Experiment_1_data,
DOI: 10.6084/m9.figshare.7546529
title: Carabus RAD tree

description: A newick formatted phylogenetic tree of 17 Carabus species, inferred from a RAD matrix with RAxML.
DOI: 10.6084/m9.figshare.7546529.v1
title: Carabus RAD tree

description: A newick formatted phylogenetic tree of 17 Carabus species, inferred from a RAD matrix with RAxML.
DOI: 10.6084/m9.figshare.7546532.v1
title: Carabus RAD matrix

description: A RAD sequence matrix in phylip format of 17 Carabus species (89 individual samples), assembled with pyRAD. pyRAD parameters: sequence similarity=70% and minimum number of taxa=45.
DOI: 10.6084/m9.figshare.7546481.v1
title: ExperimentData_1

description: Experiment_1_data,
DOI: 10.7284/108930
title: CTD (Conductivity, Temperature, Depth) data collected during research cruise HRS120717JK using a Sea-Bird SBE-911+ instrument system onboard the platform RV Hugh R. Sharp

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/107873
title: Multiplexed data collected during research cruise HRS120801EC using a UDel SMS instrument system onboard the platform RV Hugh R. Sharp

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/108933
title: ADCP (Acoustic Doppler Current Profiler) data collected during research cruise HRS120801EC using a RDI VmDas instrument system onboard the platform RV Hugh R. Sharp

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/108932
title: CTD (Conductivity, Temperature, Depth) data collected during research cruise HRS120801EC using a Sea-Bird SBE-911+ instrument system onboard the platform RV Hugh R. Sharp

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7546430
title: Additional file 2: of The Network of Cancer Genes (NCG): a comprehensive catalogue of known and candidate cancer genes from cancer sequencing screens

description: Table S1. Systems-level properties of cancer genes. Table S2 List of 273 publications describing cancer sequencing screens in NCG. Table S3 Enrichment and depletion of cancer genes in protein functional categories. Table S4 Comparison of systems-level properties between known and candidate cancer genes. (XLSX 122 kb)
DOI: 10.6084/m9.figshare.7546433
title: Additional file 3: of The Network of Cancer Genes (NCG): a comprehensive catalogue of known and candidate cancer genes from cancer sequencing screens

description: Lists of all cancer genes, known cancer genes, and candidate cancer genes. (XLSX 840 kb)
DOI: 10.7284/107874
title: Multiplexed data collected during research cruise HRS120809DK using a UDel SMS instrument system onboard the platform RV Hugh R. Sharp

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7546430.v1
title: Additional file 2: of The Network of Cancer Genes (NCG): a comprehensive catalogue of known and candidate cancer genes from cancer sequencing screens

description: Table S1. Systems-level properties of cancer genes. Table S2 List of 273 publications describing cancer sequencing screens in NCG. Table S3 Enrichment and depletion of cancer genes in protein functional categories. Table S4 Comparison of systems-level properties between known and candidate cancer genes. (XLSX 122 kb)
DOI: 10.6084/m9.figshare.7546433.v1
title: Additional file 3: of The Network of Cancer Genes (NCG): a comprehensive catalogue of known and candidate cancer genes from cancer sequencing screens

description: Lists of all cancer genes, known cancer genes, and candidate cancer genes. (XLSX 840 kb)
DOI: 10.7284/108935
title: ADCP (Acoustic Doppler Current Profiler) data collected during research cruise HRS120809DK using a RDI VmDas instrument system onboard the platform RV Hugh R. Sharp

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7546418
title: Additional file 3: of Metagenomic insights into effects of thiamine supplementation on ruminal non-methanogen archaea in high-concentrate diets feeding dairy cows

description: Taxonomy results of ruminal non-methanogen archaea of each samples. Taxonomy results in the level of phylum, class, order, family, genus and species of non-methanogen archaea of each cows are shown in this file. (XLSX 125 kb)
DOI: 10.7284/108934
title: CTD (Conductivity, Temperature, Depth) data collected during research cruise HRS120809DK using a Sea-Bird SBE-911+ instrument system onboard the platform RV Hugh R. Sharp

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7546418.v1
title: Additional file 3: of Metagenomic insights into effects of thiamine supplementation on ruminal non-methanogen archaea in high-concentrate diets feeding dairy cows

description: Taxonomy results of ruminal non-methanogen archaea of each samples. Taxonomy results in the level of phylum, class, order, family, genus and species of non-methanogen archaea of each cows are shown in this file. (XLSX 125 kb)
DOI: 10.7284/107875
title: Multiplexed data collected during research cruise HRS120815GL using a UDel SMS instrument system onboard the platform RV Hugh R. Sharp

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/108937
title: ADCP (Acoustic Doppler Current Profiler) data collected during research cruise HRS120815GL using a RDI VmDas instrument system onboard the platform RV Hugh R. Sharp

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/108936
title: CTD (Conductivity, Temperature, Depth) data collected during research cruise HRS120815GL using a Sea-Bird SBE-911+ instrument system onboard the platform RV Hugh R. Sharp

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/107876
title: Multiplexed data collected during research cruise HRS120824AT using a Delaware SMS instrument system onboard the platform RV Hugh R. Sharp
DOI: 10.6084/m9.figshare.7546355
title: Additional file 3: of High diversity in species, reproductive modes and distribution within the Paramacrobiotus richtersi complex (Eutardigrada, Macrobiotidae)

description: Table S2. Genetic distances (p-distance) computed among species of different eutardigrade genera which sequences are available in GenBank. (XLSX 11 kb)
DOI: 10.7284/107878
title: Multiplexed data collected during research cruise HRS120912BB using a Delaware SMS instrument system onboard the platform RV Hugh R. Sharp
DOI: 10.6084/m9.figshare.7546355.v1
title: Additional file 3: of High diversity in species, reproductive modes and distribution within the Paramacrobiotus richtersi complex (Eutardigrada, Macrobiotidae)

description: Table S2. Genetic distances (p-distance) computed among species of different eutardigrade genera which sequences are available in GenBank. (XLSX 11 kb)
DOI: 10.7284/107879
title: Multiplexed data collected during research cruise HRS120913GL using a UDel SMS instrument system onboard the platform RV Hugh R. Sharp

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7546346
title: Additional file 2: of High diversity in species, reproductive modes and distribution within the Paramacrobiotus richtersi complex (Eutardigrada, Macrobiotidae)

description: Table S1. Genetic distances (p-distance) computed among and within populations. All new haplotypes and those available in GenBank have been considered in the analysis, which was carried out on a 606â bp dataset. (XLSX 19 kb)
DOI: 10.7284/108944
title: ADCP (Acoustic Doppler Current Profiler) data collected during research cruise HRS120913GL using a RDI VmDas instrument system onboard the platform RV Hugh R. Sharp

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7546346.v1
title: Additional file 2: of High diversity in species, reproductive modes and distribution within the Paramacrobiotus richtersi complex (Eutardigrada, Macrobiotidae)

description: Table S1. Genetic distances (p-distance) computed among and within populations. All new haplotypes and those available in GenBank have been considered in the analysis, which was carried out on a 606â bp dataset. (XLSX 19 kb)
DOI: 10.6084/m9.figshare.7546337
title: Additional file 1: of High diversity in species, reproductive modes and distribution within the Paramacrobiotus richtersi complex (Eutardigrada, Macrobiotidae)

description: Table S3. Morphometric data of the specimens of the Paramacrobiotus populations. (XLSX 32 kb)
DOI: 10.7284/108943
title: CTD (Conductivity, Temperature, Depth) data collected during research cruise HRS120913GL using a Sea-Bird SBE-911+ instrument system onboard the platform RV Hugh R. Sharp

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7546337.v1
title: Additional file 1: of High diversity in species, reproductive modes and distribution within the Paramacrobiotus richtersi complex (Eutardigrada, Macrobiotidae)

description: Table S3. Morphometric data of the specimens of the Paramacrobiotus populations. (XLSX 32 kb)
DOI: 10.7284/107880
title: Multiplexed data collected during research cruise HRS120929JC using a UDel SMS instrument system onboard the platform RV Hugh R. Sharp

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/108945
title: ADCP (Acoustic Doppler Current Profiler) data collected during research cruise HRS120929JC using a RDI VmDas instrument system onboard the platform RV Hugh R. Sharp

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/107881
title: Multiplexed data collected during research cruise HRS121011GJ using a Delaware SMS instrument system onboard the platform RV Hugh R. Sharp
DOI: 10.7284/107882
title: Multiplexed data collected during research cruise HRS121022GL using a UDel SMS instrument system onboard the platform RV Hugh R. Sharp

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/108948
title: ADCP (Acoustic Doppler Current Profiler) data collected during research cruise HRS121022GL using a RDI VmDas instrument system onboard the platform RV Hugh R. Sharp

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/108947
title: CTD (Conductivity, Temperature, Depth) data collected during research cruise HRS121022GL using a Sea-Bird SBE-911+ instrument system onboard the platform RV Hugh R. Sharp

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/107883
title: Multiplexed data collected during research cruise HRS121023AT using a UDel SMS instrument system onboard the platform RV Hugh R. Sharp

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/108949
title: CTD (Conductivity, Temperature, Depth) data collected during research cruise HRS121023AT using a Sea-Bird SBE-911+ instrument system onboard the platform RV Hugh R. Sharp

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/111135
title: Multiplexed data collected during research cruise HRS1301 using a Delaware SMS instrument system onboard the platform RV Hugh R. Sharp
DOI: 10.7284/111137
title: Multiplexed data collected during research cruise HRS1303 using a UDel SMS instrument system onboard the platform RV Hugh R. Sharp

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/111139
title: CTD (Conductivity, Temperature, Depth) data collected during research cruise HRS1303 using a Sea-Bird SBE-911+ instrument system onboard the platform RV Hugh R. Sharp

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/111140
title: Multiplexed data collected during research cruise HRS1307 using a UDel SMS instrument system onboard the platform RV Hugh R. Sharp

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/111141
title: ADCP (Acoustic Doppler Current Profiler) data collected during research cruise HRS1307 using a RDI VmDas instrument system onboard the platform RV Hugh R. Sharp

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7546214
title: Additional file 5: of Pseudomonas fluorescens increases mycorrhization and modulates expression of antifungal defense response genes in roots of aspen seedlings

description: Bayesian Network for Gene Cluster interactions. The initial Bayesian Belief Network used to construct the Boolean circuit for gene regulation interaction in Fig. 5 is presented as a list of target-parents. Note that the Bayesian network was trimmed as described in Methods prior to development of Boolean circuit. (TXT 367 bytes)
DOI: 10.7284/111143
title: CTD (Conductivity, Temperature, Depth) data collected during research cruise HRS1307 using a Sea-Bird SBE-911+ instrument system onboard the platform RV Hugh R. Sharp

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7546208
title: Additional file 4: of Pseudomonas fluorescens increases mycorrhization and modulates expression of antifungal defense response genes in roots of aspen seedlings

description: Table of enriched GO-BP annotations by cluster. Enriched BP-GO annotations are grouped by co-expressed gene cluster. Numbers in parenthesis after each annotation term in the number of genes with that annotation in the cluster. (XLSX 9 kb)
DOI: 10.6084/m9.figshare.7546214.v1
title: Additional file 5: of Pseudomonas fluorescens increases mycorrhization and modulates expression of antifungal defense response genes in roots of aspen seedlings

description: Bayesian Network for Gene Cluster interactions. The initial Bayesian Belief Network used to construct the Boolean circuit for gene regulation interaction in Fig. 5 is presented as a list of target-parents. Note that the Bayesian network was trimmed as described in Methods prior to development of Boolean circuit. (TXT 367 bytes)
DOI: 10.7284/111144
title: Multiplexed data collected during research cruise HRS1308 using a Delaware SMS instrument system onboard the platform RV Hugh R. Sharp
DOI: 10.6084/m9.figshare.7546208.v1
title: Additional file 4: of Pseudomonas fluorescens increases mycorrhization and modulates expression of antifungal defense response genes in roots of aspen seedlings

description: Table of enriched GO-BP annotations by cluster. Enriched BP-GO annotations are grouped by co-expressed gene cluster. Numbers in parenthesis after each annotation term in the number of genes with that annotation in the cluster. (XLSX 9 kb)
DOI: 10.6084/m9.figshare.7546196
title: Additional file 3: of Pseudomonas fluorescens increases mycorrhization and modulates expression of antifungal defense response genes in roots of aspen seedlings

description: Annotated transcriptome, grouped by expression cluster. Data is presented as an Excel file with a worksheet for each cluster of co-regulated genes. In each worksheet, gene ID, gene expression (normalized RPKM), significance by ANOVA, Log2 fold change relative to aspen root only condition, and gene annotations are given. Annotation data includes links to additional gene information in ‘Phytozome’ and ‘The Arabidopsis Information Resource’. (XLSX 2256 kb)
DOI: 10.6084/m9.figshare.7546196.v1
title: Additional file 3: of Pseudomonas fluorescens increases mycorrhization and modulates expression of antifungal defense response genes in roots of aspen seedlings

description: Annotated transcriptome, grouped by expression cluster. Data is presented as an Excel file with a worksheet for each cluster of co-regulated genes. In each worksheet, gene ID, gene expression (normalized RPKM), significance by ANOVA, Log2 fold change relative to aspen root only condition, and gene annotations are given. Annotation data includes links to additional gene information in ‘Phytozome’ and ‘The Arabidopsis Information Resource’. (XLSX 2256 kb)
DOI: 10.6084/m9.figshare.7546187
title: Additional file 2: of Pseudomonas fluorescens increases mycorrhization and modulates expression of antifungal defense response genes in roots of aspen seedlings

description: RPKM scores for all samples. This file includes results from Bowstap analysis of transcriptomic data for aspen gene expression and ANOVA results. Data types are ‘Unique RPKM’ which disregards sequence fragments that align to more than one gene, ‘Ave RPKM’ which is the results including bootstrapped analysis including multiply-aligning sequences, ‘SD RPKM’ which is the standard deviation of bootstrapped alignment RPKM values, ‘Log2Norm RPKM’ which is the normalized gene expression values, ‘pVal’ which is the significance of gene expression calculated from Bowstrap analysis, and ANOVA-pVal which is the significance of analysis of variance by presence of Laccaria (LBI), presence of SBW25, and the interaction condition. (CSV 22927 kb)
DOI: 10.7284/111152
title: Multiplexed data collected during research cruise HRS1310 using a Delaware SMS instrument system onboard the platform RV Hugh R. Sharp
DOI: 10.6084/m9.figshare.7546181
title: Additional file 1: of Pseudomonas fluorescens increases mycorrhization and modulates expression of antifungal defense response genes in roots of aspen seedlings

description: Table of RNAseq alignments. Table presents total number of reads per sequencing reaction, number of reads that align to each community member, and the percent of total aligned reads that align to each community member. (XLSX 9 kb)