cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.21628481.v1
title: Supplementary Material for: Structured Pre-Consultation Interview at the First Call of Caregiver Regarding Memory Consultation: Effects on Caregiver Burden, Expectations, and Quality of Life

description: <b><i>Introduction:</i></b> Case managers can guide caregivers during their search for care for relatives with neurocognitive disorders. The present study aimed to evaluate the effects of this procedure on caregiver burden and quality of life. <b><i>Methods:</i></b> Family caregivers searching for care at a memory clinic before the first consultation were provided written information and they provided verbal consent to participate in this pre-post intervention study. Intervention was a structured pre-consultation phone call interview given by the case manager to inform and organize individualize pathway of care. The mini-Zarit Burden Interview and the EuroQol five-dimensional questionnaire quality of life scores were recorded by an independent assessor before the intervention and 1 month thereafter. An expectation questionnaire was also completed during the assessments. The pre and post scores were compared using the Wilcoxon signed-rank test. <b><i>Results:</i></b> In total, 45 participants were enrolled and 35 were assessed twice. There was no significant change in the total mini-Zarit Burden Interview score; however, the levels of stress due to caring and meeting familial responsibilities (<i>p</i> = 0.025), and the fear of what the future holds for the participants’ relative (<i>p</i> = 0.01) was lower at 1 month. The need for information about the pathways of care decreased, but no change in support satisfaction was observed. Quality of life was good and did not change. <b><i>Conclusions:</i></b> During the pre-consultation intervention, the case manager may fulfill several needs of caregivers, particularly to obtain personalized information, which should be implemented in memory clinics.
DOI: 10.5281/zenodo.6808913
title: Mingming Ma-2022

description: Data for the paper "Deccan Traps volcanism implicated in the extinction of non-avian dinosaurs in southeastern China".
DOI: 10.5281/zenodo.6808912
title: Mingming Ma-2022

description: Data for the paper "Deccan Traps volcanism implicated in the extinction of non-avian dinosaurs in southeastern China".
DOI: 10.5281/zenodo.7361093
title: Pseudomonas veronii Tn-seq analysis of soil and liquid growth conditions

description: Readme file content The files stored here contain the following material as supplementary and source data for the manuscript in submission Fitness-conditional genes for soil adaptation in the bioaugmentation agent Pseudomonas veronii 1YdBTEX2 Marian Morales, Vladimir Sentchilo, Nicolas Carraro, Senka Causevic, Dominique Vuarambon & Jan R. van der Meer Department of Fundamental Microbiology, University of Lausanne, 1015 Lausanne, Switzerland <br> %%%%%%%<br> Folder Tn-seq<br> %%%%%% This folder has the scripts, procedures, raw and intermediate data of the Pseudomonas veronii tn-seq libraries Lib1 and Lib2, at time 0 and incubated in liquid, sand or silt microcosms for up to 51 generations of growth. Subfolders are organized to the steps in the analysis, from the initial experimental design, to the sequence mapping, read cleaning, normalization procedures, essentiality analysis, paired (liq-soil) analysis, gene group plots and the COG-KEGG category analysis. Scripts are text-readable for MATLAB, vs 2021b; or BASH-UNIX slurm command line tools. Data files are either .mat (MATLAB readable) or .xlsx (for the major summary steps). Individual procedures and steps are described in Word documents, which then point to scripts in the script folder, output and the data formats. %%%%%%%<br> Community diversity data<br> %%%%%% This folder has the raw fastq- files of the sample reads of the T1 incubated sand or silt-Tn5 library replicates. Four replicates in total, two sequencing data sets which were combined. Folder also has the meta data as to the sample descriptions, and the OTU-taxa output file from Qiime2 analysis.
DOI: 10.6084/m9.figshare.21628591
title: Additional file 2 of Detection of potential functional variants based on systems-biology: the case of feed efficiency in beef cattle

description: Additional file 2: Table. Biological pathways enriched from potential functional variants associated with feed efficiency by tissue.
DOI: 10.6084/m9.figshare.21628591.v1
title: Additional file 2 of Detection of potential functional variants based on systems-biology: the case of feed efficiency in beef cattle

description: Additional file 2: Table. Biological pathways enriched from potential functional variants associated with feed efficiency by tissue.
DOI: 10.6084/m9.figshare.21628596
title: Additional file 1 of Host genetic control on rumen microbiota and its impact on dairy traits in sheep

description: Additional file 1: Table S1. Operational taxonomic unit (OTU) sequences with corresponding taxonomy affiliation. Consensus sequences of the OTU with corresponding affiliation from Kingdom to species.
DOI: 10.6084/m9.figshare.21628599
title: Additional file 2 of Host genetic control on rumen microbiota and its impact on dairy traits in sheep

description: Additional file 2: Table S2. Heritability ( $${h}^{2}$$ h 2 ) and genetic correlations (rg) between lactation somatic cell score (LSCS), coefficient of variation in milk production (CV Milk), and operational taxonomic units (OTU). Heritability and genetic correlations for all 2059 OTU abundances with lactation somatic cell score and the coefficient of variation in milk production.
DOI: 10.6084/m9.figshare.21628602
title: Additional file 3 of Host genetic control on rumen microbiota and its impact on dairy traits in sheep

description: Additional file 3: Table S3. Genetic correlations between fat content (FC), milk fatty acids and operational taxonomic units (OTU). Genetic correlations between OTU abundances, fat content and milk fatty acids, such as butyric acid (C4:0), caproic acid (C6:0), caprylic acid (C8:0), capric acid (C10:0), lauric acid (C12:0), and palmitic acid (C16:0), oleic acid (cis-9 C18:1), rumenic acid (cis-9 trans-11 C18:2) and alpha-linolenic acid (C18:3n-3).
DOI: 10.6084/m9.figshare.21628602.v1
title: Additional file 3 of Host genetic control on rumen microbiota and its impact on dairy traits in sheep

description: Additional file 3: Table S3. Genetic correlations between fat content (FC), milk fatty acids and operational taxonomic units (OTU). Genetic correlations between OTU abundances, fat content and milk fatty acids, such as butyric acid (C4:0), caproic acid (C6:0), caprylic acid (C8:0), capric acid (C10:0), lauric acid (C12:0), and palmitic acid (C16:0), oleic acid (cis-9 C18:1), rumenic acid (cis-9 trans-11 C18:2) and alpha-linolenic acid (C18:3n-3).
DOI: 10.6084/m9.figshare.21628605
title: Additional file 4 of Host genetic control on rumen microbiota and its impact on dairy traits in sheep

description: Additional file 4: Table S4. Genetic correlations between protein content (PC), milk proteins and operational taxonomic units (OTU). Genetic correlations between OTU abundances, protein content and milk proteins, such as alpha-S1-casein, alpha-S2-casein, beta-casein, kappa-casein, alpha-lactalbumin and beta-lactoglobulin.
DOI: 10.6084/m9.figshare.21628605.v1
title: Additional file 4 of Host genetic control on rumen microbiota and its impact on dairy traits in sheep

description: Additional file 4: Table S4. Genetic correlations between protein content (PC), milk proteins and operational taxonomic units (OTU). Genetic correlations between OTU abundances, protein content and milk proteins, such as alpha-S1-casein, alpha-S2-casein, beta-casein, kappa-casein, alpha-lactalbumin and beta-lactoglobulin.
DOI: 10.6084/m9.figshare.21628608
title: Additional file 5 of Host genetic control on rumen microbiota and its impact on dairy traits in sheep

description: Additional file 5: Table S5. Significant SNPs from GWAS of operational taxonomic units (OTU). Significant SNPs from GWAS of operational taxonomic units with candidate genes detected for each SNP.
DOI: 10.6084/m9.figshare.21628608.v1
title: Additional file 5 of Host genetic control on rumen microbiota and its impact on dairy traits in sheep

description: Additional file 5: Table S5. Significant SNPs from GWAS of operational taxonomic units (OTU). Significant SNPs from GWAS of operational taxonomic units with candidate genes detected for each SNP.
DOI: 10.6084/m9.figshare.21628611
title: Additional file 6 of Host genetic control on rumen microbiota and its impact on dairy traits in sheep

description: Additional file 6: Table S6. Functional annotation for gene IDs recovered from detected SNPs for microbiome GWAS. Description of the functional annotations for genes recovered from Ensembl platform and metabolic processes and KEGG pathways from DAVID platform.
DOI: 10.6084/m9.figshare.21628611.v1
title: Additional file 6 of Host genetic control on rumen microbiota and its impact on dairy traits in sheep

description: Additional file 6: Table S6. Functional annotation for gene IDs recovered from detected SNPs for microbiome GWAS. Description of the functional annotations for genes recovered from Ensembl platform and metabolic processes and KEGG pathways from DAVID platform.
DOI: 10.6084/m9.figshare.21628596.v1
title: Additional file 1 of Host genetic control on rumen microbiota and its impact on dairy traits in sheep

description: Additional file 1: Table S1. Operational taxonomic unit (OTU) sequences with corresponding taxonomy affiliation. Consensus sequences of the OTU with corresponding affiliation from Kingdom to species.
DOI: 10.6084/m9.figshare.21628599.v1
title: Additional file 2 of Host genetic control on rumen microbiota and its impact on dairy traits in sheep

description: Additional file 2: Table S2. Heritability ( $${h}^{2}$$ h 2 ) and genetic correlations (rg) between lactation somatic cell score (LSCS), coefficient of variation in milk production (CV Milk), and operational taxonomic units (OTU). Heritability and genetic correlations for all 2059 OTU abundances with lactation somatic cell score and the coefficient of variation in milk production.
DOI: 10.6084/m9.figshare.21628656
title: Additional file 2 of A novel method of lateral closing wedge osteotomy for cubitus varus deformity in children

description: Additional file 2: Clinical data: patients’ demographic characteristics, evaluation details.
DOI: 10.6084/m9.figshare.21628656.v1
title: Additional file 2 of A novel method of lateral closing wedge osteotomy for cubitus varus deformity in children

description: Additional file 2: Clinical data: patients’ demographic characteristics, evaluation details.
DOI: 10.6084/m9.figshare.21628717
title: Additional file 2 of A longitudinal census of the bacterial community in raw milk correlated with Staphylococcus aureus clinical mastitis infections in dairy cattle

description: Additional file 2: Table S1. Metadata of all milk samples (n = 583) collected from the cows diagnosed with S. aureus clinical mastitis
DOI: 10.6084/m9.figshare.21628717.v1
title: Additional file 2 of A longitudinal census of the bacterial community in raw milk correlated with Staphylococcus aureus clinical mastitis infections in dairy cattle

description: Additional file 2: Table S1. Metadata of all milk samples (n = 583) collected from the cows diagnosed with S. aureus clinical mastitis
DOI: 10.6084/m9.figshare.21628720
title: Additional file 3 of A longitudinal census of the bacterial community in raw milk correlated with Staphylococcus aureus clinical mastitis infections in dairy cattle

description: Additional file 3: Table S2. Microbial changes before, during, and after S. aureus clinical mastitis in Group I and Group II
DOI: 10.6084/m9.figshare.21628720.v1
title: Additional file 3 of A longitudinal census of the bacterial community in raw milk correlated with Staphylococcus aureus clinical mastitis infections in dairy cattle

description: Additional file 3: Table S2. Microbial changes before, during, and after S. aureus clinical mastitis in Group I and Group II
DOI: 10.6084/m9.figshare.21628723
title: Additional file 4 of A longitudinal census of the bacterial community in raw milk correlated with Staphylococcus aureus clinical mastitis infections in dairy cattle

description: Additional file 4: Table S3. Etiological agents isolated from clinical mastitic milk samples
DOI: 10.6084/m9.figshare.21628723.v1
title: Additional file 4 of A longitudinal census of the bacterial community in raw milk correlated with Staphylococcus aureus clinical mastitis infections in dairy cattle

description: Additional file 4: Table S3. Etiological agents isolated from clinical mastitic milk samples
DOI: 10.6084/m9.figshare.21628726
title: Additional file 5 of A longitudinal census of the bacterial community in raw milk correlated with Staphylococcus aureus clinical mastitis infections in dairy cattle

description: Additional file 5: Table S4. Microbial network analysis in milk samples (n = 583)
DOI: 10.6084/m9.figshare.21628726.v1
title: Additional file 5 of A longitudinal census of the bacterial community in raw milk correlated with Staphylococcus aureus clinical mastitis infections in dairy cattle

description: Additional file 5: Table S4. Microbial network analysis in milk samples (n = 583)
DOI: 10.6084/m9.figshare.21628729
title: Additional file 6 of A longitudinal census of the bacterial community in raw milk correlated with Staphylococcus aureus clinical mastitis infections in dairy cattle

description: Additional file 6: Table S5. Bacterial species/strains and their relative abundance (%) found in three milk samples from the shotgun metagenomic sequneces
DOI: 10.6084/m9.figshare.21628729.v1
title: Additional file 6 of A longitudinal census of the bacterial community in raw milk correlated with Staphylococcus aureus clinical mastitis infections in dairy cattle

description: Additional file 6: Table S5. Bacterial species/strains and their relative abundance (%) found in three milk samples from the shotgun metagenomic sequneces
DOI: 10.6084/m9.figshare.21628734
title: Additional file 1 of An investigation of codon usage pattern analysis in pancreatitis associated genes

description: Additional file 1:
DOI: 10.6084/m9.figshare.21628734.v1
title: Additional file 1 of An investigation of codon usage pattern analysis in pancreatitis associated genes

description: Additional file 1:
DOI: 10.6084/m9.figshare.21628746
title: Additional file 2 of A rare mutation (p.F149del) of the NT5C3A gene is associated with pyrimidine 5′-nucleotidase deficiency

description: Additional file 2: Detailed data on the analyzed variant NM_001166118.3: c.444_446delGTT detected WES and analyzed using Ingenuity Variant Analysis plugin (QIAGEN, CA, USA).
DOI: 10.6084/m9.figshare.21628746.v1
title: Additional file 2 of A rare mutation (p.F149del) of the NT5C3A gene is associated with pyrimidine 5′-nucleotidase deficiency

description: Additional file 2: Detailed data on the analyzed variant NM_001166118.3: c.444_446delGTT detected WES and analyzed using Ingenuity Variant Analysis plugin (QIAGEN, CA, USA).
DOI: 10.6084/m9.figshare.21628749
title: Additional file 3 of A rare mutation (p.F149del) of the NT5C3A gene is associated with pyrimidine 5′-nucleotidase deficiency

description: Additional file 3: Statistically significant differences in gene expression were detected using RNA-Seq for 9 transcripts, whose expression was decreased only for patient RK vs the healthy control (CtrlH). Statistical significance was accepted as a p-value of &lt; 0.05 used for most analyzes besides NGS analysis where the FDR corrected p-value, q-value of &lt; 0.05 was considered as significant.
DOI: 10.6084/m9.figshare.21628761
title: Additional file 1 of Genome-wide association study for resistance in bread wheat (Triticum aestivum L.) to stripe rust (Puccinia striiformis f. sp. tritici) races in Argentina

description: Additional file 1: Supplementary Table S1. Analysis of variance (ANOVA) to determine the significance of the fixed effects of genotypes for Infection type for Yr19-71 and Yr20-161 races. Supplementary Table S2. Sequential restricted maximum likelihood ratio tests to determine the significances of the random effects of genotypes and genotype by year interactions for DS and AUDPC. Supplementary Table S3. Variance component estimates (genotypic, genotype x year interaction and residual variances) and broad-sense heritability (H2) for the analyzed traits. Supplementary Table S4. Information of the reported stripe rust resistance genes or quantitative trait loci on the segments of the chromosomes containing the genomic regions identified in this study. Supplementary Table S5. Accession number, synonyms, origin, pedigrees and subpopulation for the 245 bread wheat accessions included in the GWAS. Supplementary Table S6. Wheat differential lines used for race typing of Puccinia striiformis f. sp. tritici. Supplementary Table S7. Virulence/avirulence formula of the Puccinia striiformis f. sp. tritici races used for seedling resistance screening.
DOI: 10.6084/m9.figshare.21628761.v1
title: Additional file 1 of Genome-wide association study for resistance in bread wheat (Triticum aestivum L.) to stripe rust (Puccinia striiformis f. sp. tritici) races in Argentina

description: Additional file 1: Supplementary Table S1. Analysis of variance (ANOVA) to determine the significance of the fixed effects of genotypes for Infection type for Yr19-71 and Yr20-161 races. Supplementary Table S2. Sequential restricted maximum likelihood ratio tests to determine the significances of the random effects of genotypes and genotype by year interactions for DS and AUDPC. Supplementary Table S3. Variance component estimates (genotypic, genotype x year interaction and residual variances) and broad-sense heritability (H2) for the analyzed traits. Supplementary Table S4. Information of the reported stripe rust resistance genes or quantitative trait loci on the segments of the chromosomes containing the genomic regions identified in this study. Supplementary Table S5. Accession number, synonyms, origin, pedigrees and subpopulation for the 245 bread wheat accessions included in the GWAS. Supplementary Table S6. Wheat differential lines used for race typing of Puccinia striiformis f. sp. tritici. Supplementary Table S7. Virulence/avirulence formula of the Puccinia striiformis f. sp. tritici races used for seedling resistance screening.
DOI: 10.6084/m9.figshare.21628764
title: Additional file 2 of Genome-wide association study for resistance in bread wheat (Triticum aestivum L.) to stripe rust (Puccinia striiformis f. sp. tritici) races in Argentina

description: Additional file 2: Supplementary Figure S1. Structure analysis in the spring wheat association-mapping panel. a) The STRUCTURE analysis showed four hypothetical subpopulations represented by different colors. b) First two components (PC1 and PC2) of a principal component analysis of the spring wheat accessions color coded by breeding program (adapted from Zhang, et al. [45]). c) Neighbor-joining phylogenetic tree showing the subpopulations corresponding to the structure analysis. Supplementary Figure S2. Quantile-quantile (QQ) plots of the observed and the expected p values of the GWAS model. a) QQ-plot for seedling resistance (infection type -IT- for the races Yr19-71 and Yr20-161); b) QQ-plot for Adult plant resistance (Disease Severity and area under disease progress curve –AUDPC-). Supplementary Figure S3. Linkage disequilibrium (LD) decay over physical distance. The scatter plots showing pairwise SNP markers LD r2 value as a function of inter-marker physical distances (Mbp) of (a) 1B chromosome; (b) 2A chromosome; (c) 3A chromosome; (d) 3B chromosome; (e) 5B chromosome; (f) 7A chromosome. The red curve represents the model fit to LD decay. The blue dashed line represents the specific critical r2 value beyond which LD is likely due to linkage. The green dashed line represents the confidence interval for the quantitative trait loci regions in which LD r2 = critical r2 value.
DOI: 10.6084/m9.figshare.21628764.v1
title: Additional file 2 of Genome-wide association study for resistance in bread wheat (Triticum aestivum L.) to stripe rust (Puccinia striiformis f. sp. tritici) races in Argentina

description: Additional file 2: Supplementary Figure S1. Structure analysis in the spring wheat association-mapping panel. a) The STRUCTURE analysis showed four hypothetical subpopulations represented by different colors. b) First two components (PC1 and PC2) of a principal component analysis of the spring wheat accessions color coded by breeding program (adapted from Zhang, et al. [45]). c) Neighbor-joining phylogenetic tree showing the subpopulations corresponding to the structure analysis. Supplementary Figure S2. Quantile-quantile (QQ) plots of the observed and the expected p values of the GWAS model. a) QQ-plot for seedling resistance (infection type -IT- for the races Yr19-71 and Yr20-161); b) QQ-plot for Adult plant resistance (Disease Severity and area under disease progress curve –AUDPC-). Supplementary Figure S3. Linkage disequilibrium (LD) decay over physical distance. The scatter plots showing pairwise SNP markers LD r2 value as a function of inter-marker physical distances (Mbp) of (a) 1B chromosome; (b) 2A chromosome; (c) 3A chromosome; (d) 3B chromosome; (e) 5B chromosome; (f) 7A chromosome. The red curve represents the model fit to LD decay. The blue dashed line represents the specific critical r2 value beyond which LD is likely due to linkage. The green dashed line represents the confidence interval for the quantitative trait loci regions in which LD r2 = critical r2 value.