cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.12073278.v5
title: A satellite-derived database for stand-replacing windthrow events in boreal forests of the European Russia in 1986–2017

description: The GIS database contains the data of stand-replacing windthrow areas in the forest zone of the European Russia (ER) for the 1986–2017 period, and the ArcGIS 10.1/10.2 and Qgis 3* projects to view and analyze the data. The database contains three shapefiles (.shp), corresponding to three hierarchical levels of the data: • “Elementary damaged area”, that is a single-part polygon of wind-damaged forest; • “Windthrow”, that represent a group of closely spaced forest disturbances, i.e., a multipart polygon, associated with one storm event; • “Storm event track”, that is a cluster of windthrow areas with identical direction and having the same date (or date range) of occurrence, which was most likely induced by one convective or non-convective storm. The key fields ID and storm_ID associates each damaged area with the features in the datasets of windthrows and storm event tracks respectively using one-to-many relation. A single value “‒9999” was used for storing NoData in all fields of the attribute table. All data and projects have WGS 1984 coordinate system (without projection). Delineation of windthrow areas was based on the full archive of Landsat images and two Landsat-derived products on forest cover change, namely the Global Forest Change and the Eastern’ Europe Forest Cover Change. Subsequent verification and analysis of each windthrow was carried out to determine a type of storm events with a degree of event certainty, dates (date ranges) and time (time ranges) of an event, windthrow geometrical characteristics. The database contains 102,747 elementary areas of damaged forest that were combined into 700 windthrow areas caused by 486 convective or non-convective storm events. The database includes stand-replacing windthrow only, which an area &gt; 5 ha or &gt; 25 ha for events caused by tornadoes or other storms, respectively. Additional information contained weather station reports and event description from media sources is also provided.. The compiled database provides a valuable source of spatial and temporal information on windthrows in the ER and can be successfully used both in forestry and severe storm studies.
DOI: 10.6084/m9.figshare.12023868
title: Additional file 4 of Estimating relative biomasses of organisms in microbiota using “phylopeptidomics”

description: Additional file 4: Supplementary Table SI. Proteomic results for the 27 S. flexneri/S. bongori samples.
DOI: 10.6084/m9.figshare.12023868.v1
title: Additional file 4 of Estimating relative biomasses of organisms in microbiota using “phylopeptidomics”

description: Additional file 4: Supplementary Table SI. Proteomic results for the 27 S. flexneri/S. bongori samples.
DOI: 10.6084/m9.figshare.12023871
title: Additional file 5 of Estimating relative biomasses of organisms in microbiota using “phylopeptidomics”

description: Additional file 5: Supplementary Table SII. Relative quantification of S. flexneri and S. bongori results for the 27 S. flexneri/S. bongori samples.
DOI: 10.6084/m9.figshare.12023871.v1
title: Additional file 5 of Estimating relative biomasses of organisms in microbiota using “phylopeptidomics”

description: Additional file 5: Supplementary Table SII. Relative quantification of S. flexneri and S. bongori results for the 27 S. flexneri/S. bongori samples.
DOI: 10.6084/m9.figshare.12023823
title: Additional file 1 of Self-reinoculation with fecal flora changes microbiota density and composition leading to an altered bile-acid profile in the mouse small intestine

description: Additional file 1: Figure S1. Tail cup design and experimental setup for preventing coprophagy. Figure S2. Mounting of functional tail cups onto mice. Figure S3. Body weight changes across all groups of mice in relation to food intake over the course of the study. Figure S4. Quantification of the culturable microbial load and microbiota profile along the entire GIT of mice fitted with functional tail cups (TC-F) and control mice (CTRL). Figure S5. Bile acid profiles in gallbladder bile and in lumenal contents along the entire GIT. Table S1. Primer oligonucleotide sequences used in the study. Table S2. Thermocycling parameters for the quantitative PCR (qPCR) assay for 16S rRNA gene DNA copy quantification. Table S3. Thermocycling parameters for the digital PCR (dPCR) assay for absolute 16S rRNA gene DNA copy quantification. Table S4. Thermocycling parameters for the 16S rRNA gene DNA amplicon barcoding PCR reaction for next generation sequencing (NGS). Table S5. Thermocycling parameters for the digital PCR (dPCR) assay for barcoded amplicon and Illumina NGS library quantification. Table S6. Reagents and chemical standards used in the bile acid metabolomics assay. Table S7. Bile acid concentrations in gallbladder bile and in lumenal contents along the entire GIT.
DOI: 10.6084/m9.figshare.12023823.v1
title: Additional file 1 of Self-reinoculation with fecal flora changes microbiota density and composition leading to an altered bile-acid profile in the mouse small intestine

description: Additional file 1: Figure S1. Tail cup design and experimental setup for preventing coprophagy. Figure S2. Mounting of functional tail cups onto mice. Figure S3. Body weight changes across all groups of mice in relation to food intake over the course of the study. Figure S4. Quantification of the culturable microbial load and microbiota profile along the entire GIT of mice fitted with functional tail cups (TC-F) and control mice (CTRL). Figure S5. Bile acid profiles in gallbladder bile and in lumenal contents along the entire GIT. Table S1. Primer oligonucleotide sequences used in the study. Table S2. Thermocycling parameters for the quantitative PCR (qPCR) assay for 16S rRNA gene DNA copy quantification. Table S3. Thermocycling parameters for the digital PCR (dPCR) assay for absolute 16S rRNA gene DNA copy quantification. Table S4. Thermocycling parameters for the 16S rRNA gene DNA amplicon barcoding PCR reaction for next generation sequencing (NGS). Table S5. Thermocycling parameters for the digital PCR (dPCR) assay for barcoded amplicon and Illumina NGS library quantification. Table S6. Reagents and chemical standards used in the bile acid metabolomics assay. Table S7. Bile acid concentrations in gallbladder bile and in lumenal contents along the entire GIT.
DOI: 10.6084/m9.figshare.12023751
title: Additional file 28 of A pipeline for targeted metagenomics of environmental bacteria

description: Additional file 28:. List of contigs of the Vis6 affiliated bins that have been binned with Metabat2.
DOI: 10.6084/m9.figshare.12023751.v1
title: Additional file 28 of A pipeline for targeted metagenomics of environmental bacteria

description: Additional file 28:. List of contigs of the Vis6 affiliated bins that have been binned with Metabat2.
DOI: 10.6084/m9.figshare.12023748
title: Additional file 27 of A pipeline for targeted metagenomics of environmental bacteria

description: Additional file 27. Lists of contigs of the Vis6 affiliated bins that have been binned with Anvi’o.
DOI: 10.6084/m9.figshare.12023748.v1
title: Additional file 27 of A pipeline for targeted metagenomics of environmental bacteria

description: Additional file 27. Lists of contigs of the Vis6 affiliated bins that have been binned with Anvi’o.
DOI: 10.6084/m9.figshare.12023733
title: Additional file 22 of A pipeline for targeted metagenomics of environmental bacteria

description: Additional file 22: Table S8. The annotated Vis6 MAGs from sorted samples were analysed by text-based search for transporters using the key words transport, transporter, influx, efflux, export, import, secretion, channel, SusC, SusD, TonB, ExbB, ExbD and ABC. Additionally proteins involved in the respiratory chain were searched for. Given are the numbers found in all sorted Vis6 MAGs (10) and the number per MAG.
DOI: 10.6084/m9.figshare.12023736
title: Additional file 23 of A pipeline for targeted metagenomics of environmental bacteria

description: Additional file 23: Table S9. Presence absence of ortholog groups (og) of the 10 Vis6 MAGs from the sorts (B-K), the Vis6 MAG from the bulk metagenome (L) and five reference strains with IMG accession number (M-Q). Column R is the sum of the sorted MAGs (B-K).
DOI: 10.6084/m9.figshare.12023736.v1
title: Additional file 23 of A pipeline for targeted metagenomics of environmental bacteria

description: Additional file 23: Table S9. Presence absence of ortholog groups (og) of the 10 Vis6 MAGs from the sorts (B-K), the Vis6 MAG from the bulk metagenome (L) and five reference strains with IMG accession number (M-Q). Column R is the sum of the sorted MAGs (B-K).
DOI: 10.6084/m9.figshare.12023733.v1
title: Additional file 22 of A pipeline for targeted metagenomics of environmental bacteria

description: Additional file 22: Table S8. The annotated Vis6 MAGs from sorted samples were analysed by text-based search for transporters using the key words transport, transporter, influx, efflux, export, import, secretion, channel, SusC, SusD, TonB, ExbB, ExbD and ABC. Additionally proteins involved in the respiratory chain were searched for. Given are the numbers found in all sorted Vis6 MAGs (10) and the number per MAG.
DOI: 10.6084/m9.figshare.12023727
title: Additional file 2 of Clinical, cytogenetic, and molecular findings in a patient with ring chromosome 4: case report and literature review

description: Additional file 2. Comparison of cytogenetic results between the proposita and the reported cases with ring chromosome 4.
DOI: 10.6084/m9.figshare.12023730
title: Additional file 21 of A pipeline for targeted metagenomics of environmental bacteria

description: Additional file 21: Table S7. The KEGG mapper was used to check for presence of metabolic pathways in the sorted Vis6 MAGs. For each pathway it is indicated whether it was found completely or not.
DOI: 10.6084/m9.figshare.12023730.v1
title: Additional file 21 of A pipeline for targeted metagenomics of environmental bacteria

description: Additional file 21: Table S7. The KEGG mapper was used to check for presence of metabolic pathways in the sorted Vis6 MAGs. For each pathway it is indicated whether it was found completely or not.
DOI: 10.6084/m9.figshare.12023721
title: Additional file 1 of Clinical, cytogenetic, and molecular findings in a patient with ring chromosome 4: case report and literature review

description: Additional file 1. Comparison of clinical characteristics between the proposita and the reported cases with ring chromosome 4.
DOI: 10.6084/m9.figshare.12023724
title: Additional file 20 of A pipeline for targeted metagenomics of environmental bacteria

description: Additional file 20: Table S6. 16S rRNA gene sequences from the whole community shotgun metagenome, retrieved with ssu_finder (checkM), with SILVA classification. Three sequences in bold are assigned to the Vis6 cluster.
DOI: 10.6084/m9.figshare.12023727.v1
title: Additional file 2 of Clinical, cytogenetic, and molecular findings in a patient with ring chromosome 4: case report and literature review

description: Additional file 2. Comparison of cytogenetic results between the proposita and the reported cases with ring chromosome 4.
DOI: 10.6084/m9.figshare.12023721.v1
title: Additional file 1 of Clinical, cytogenetic, and molecular findings in a patient with ring chromosome 4: case report and literature review

description: Additional file 1. Comparison of clinical characteristics between the proposita and the reported cases with ring chromosome 4.
DOI: 10.6084/m9.figshare.12023724.v1
title: Additional file 20 of A pipeline for targeted metagenomics of environmental bacteria

description: Additional file 20: Table S6. 16S rRNA gene sequences from the whole community shotgun metagenome, retrieved with ssu_finder (checkM), with SILVA classification. Three sequences in bold are assigned to the Vis6 cluster.
DOI: 10.6084/m9.figshare.12023709
title: Additional file 18 of A pipeline for targeted metagenomics of environmental bacteria

description: Additional file 18: Table S5. 16S rRNA gene sequences of sorted Vis6 assemblies, binned with Anvi'o and retrieved with ssu_finder (checkM). The closest relative in the 16S rRNA tree was analysed by adding the sequences into the Vis6 consensus tree.
DOI: 10.6084/m9.figshare.12023709.v1
title: Additional file 18 of A pipeline for targeted metagenomics of environmental bacteria

description: Additional file 18: Table S5. 16S rRNA gene sequences of sorted Vis6 assemblies, binned with Anvi'o and retrieved with ssu_finder (checkM). The closest relative in the 16S rRNA tree was analysed by adding the sequences into the Vis6 consensus tree.
DOI: 10.6084/m9.figshare.12023700
title: Additional file 17 of A pipeline for targeted metagenomics of environmental bacteria

description: Additional file 17: Table S4. Draft genomes of Vis6 from Vis6-targeted sorts and from bulk metagenome.
DOI: 10.6084/m9.figshare.12023700.v1
title: Additional file 17 of A pipeline for targeted metagenomics of environmental bacteria

description: Additional file 17: Table S4. Draft genomes of Vis6 from Vis6-targeted sorts and from bulk metagenome.
DOI: 10.6084/m9.figshare.12023694
title: Additional file 16 of A pipeline for targeted metagenomics of environmental bacteria

description: Additional file 16: Table S3. Comparison of Anvi’o and MetaBAT binning methods on the assemblies of sorted Vis6. Completeness, contamination and strain heterogeneity were assessed with checkM; GC content and bin size were assessed with stats.sh (Bbmap). The genome size is calculated from the bin size and the completeness values. All bins classified as Vis6 are shown, including low quality ones.
DOI: 10.6084/m9.figshare.12023694.v1
title: Additional file 16 of A pipeline for targeted metagenomics of environmental bacteria

description: Additional file 16: Table S3. Comparison of Anvi’o and MetaBAT binning methods on the assemblies of sorted Vis6. Completeness, contamination and strain heterogeneity were assessed with checkM; GC content and bin size were assessed with stats.sh (Bbmap). The genome size is calculated from the bin size and the completeness values. All bins classified as Vis6 are shown, including low quality ones.
DOI: 10.6084/m9.figshare.12023679
title: Additional file 14 of A pipeline for targeted metagenomics of environmental bacteria

description: Additional file 14: Table S1. Statistics of all bins created with MetaBAT from the whole community shotgun metagenome, the CF319a sorts and Vis6-814/871 sorts. Marked in bold are those bins classified as Vis6.
DOI: 10.6084/m9.figshare.12023685
title: Additional file 15 of A pipeline for targeted metagenomics of environmental bacteria

description: Additional file 15: Table S2. Sample description and statistics of Anvi'o binned assemblies from sorted Vis6 samples. Marker_lineage, completeness, contamination and strain heterogeneity were assessed with checkM.
DOI: 10.6084/m9.figshare.12023679.v1
title: Additional file 14 of A pipeline for targeted metagenomics of environmental bacteria

description: Additional file 14: Table S1. Statistics of all bins created with MetaBAT from the whole community shotgun metagenome, the CF319a sorts and Vis6-814/871 sorts. Marked in bold are those bins classified as Vis6.
DOI: 10.6084/m9.figshare.12023685.v1
title: Additional file 15 of A pipeline for targeted metagenomics of environmental bacteria

description: Additional file 15: Table S2. Sample description and statistics of Anvi'o binned assemblies from sorted Vis6 samples. Marker_lineage, completeness, contamination and strain heterogeneity were assessed with checkM.
DOI: 10.25810/fq7x-q521.6
title: Middle Eastern Newspaper Coverage of Climate Change or Global Warming, 2004-2020 - June 2020

description:         The Media and Climate Change Observatory Data monitors 117 sources (across newspapers, radio and TV) in 53 countries in seven different regions around the world. Data is assembled by accessing archives through the Lexis Nexis, Proquest and Factiva databases via the University of Colorado libraries. More information may be found at: http://mecco.colorado.edu.
DOI: 10.6084/m9.figshare.12023622
title: Additional file 2 of Hellinger distance-based stable sparse feature selection for high-dimensional class-imbalanced data

description: Additional file 2 Five datasets used in this study are given as a.txt file.
DOI: 10.6084/m9.figshare.12023625
title: Additional file 3 of Hellinger distance-based stable sparse feature selection for high-dimensional class-imbalanced data

description: Additional file 3 The R code for implementing the sssHD algorithm and related calculations is available.
DOI: 10.6084/m9.figshare.12023625.v1
title: Additional file 3 of Hellinger distance-based stable sparse feature selection for high-dimensional class-imbalanced data

description: Additional file 3 The R code for implementing the sssHD algorithm and related calculations is available.
DOI: 10.6084/m9.figshare.12023622.v1
title: Additional file 2 of Hellinger distance-based stable sparse feature selection for high-dimensional class-imbalanced data

description: Additional file 2 Five datasets used in this study are given as a.txt file.
DOI: 10.6084/m9.figshare.12023610
title: Additional file 1 of Core Rehabilitation Outcome Set for Single Sided Deafness (CROSSSD) study: protocol for an international consensus on outcome measures for single sided deafness interventions using a modified Delphi survey

description: Additional file 1. Table of domain categories, SSD intervention-related outcome domains, and concept definitions for all 44 outcome domains co-produced with collaborators with lived experience of SSD at the pre-Delphi stage.
DOI: 10.6084/m9.figshare.12023610.v1
title: Additional file 1 of Core Rehabilitation Outcome Set for Single Sided Deafness (CROSSSD) study: protocol for an international consensus on outcome measures for single sided deafness interventions using a modified Delphi survey

description: Additional file 1. Table of domain categories, SSD intervention-related outcome domains, and concept definitions for all 44 outcome domains co-produced with collaborators with lived experience of SSD at the pre-Delphi stage.
DOI: 10.6084/m9.figshare.12023583
title: Additional file 6 of Membrane and synaptic defects leading to neurodegeneration in Adar mutant Drosophila are rescued by increased autophagy

description: Additional file 6. Excel sheet containing source data file for Figure 1A ,1B ,1C.1D ,4A,4D,4E,6A,6F,6G,6H and 6I.
DOI: 10.6084/m9.figshare.12023583.v1
title: Additional file 6 of Membrane and synaptic defects leading to neurodegeneration in Adar mutant Drosophila are rescued by increased autophagy

description: Additional file 6. Excel sheet containing source data file for Figure 1A ,1B ,1C.1D ,4A,4D,4E,6A,6F,6G,6H and 6I.
DOI: 10.6084/m9.figshare.12023556
title: Additional file 7 of Exploring the success of Brazilian endemic clone Pseudomonas aeruginosa ST277 and its association with the CRISPR-Cas system type I-C

description: Additional file 7. Acr nucleotide sequences from phages.
DOI: 10.6084/m9.figshare.12023556.v1
title: Additional file 7 of Exploring the success of Brazilian endemic clone Pseudomonas aeruginosa ST277 and its association with the CRISPR-Cas system type I-C

description: Additional file 7. Acr nucleotide sequences from phages.
DOI: 10.6084/m9.figshare.12023547
title: Additional file 6 of Exploring the success of Brazilian endemic clone Pseudomonas aeruginosa ST277 and its association with the CRISPR-Cas system type I-C

description: Additional file 6. Acr nucleotide sequences from plasmids.
DOI: 10.6084/m9.figshare.12023547.v1
title: Additional file 6 of Exploring the success of Brazilian endemic clone Pseudomonas aeruginosa ST277 and its association with the CRISPR-Cas system type I-C

description: Additional file 6. Acr nucleotide sequences from plasmids.
DOI: 10.6084/m9.figshare.12023541
title: Additional file 5 of Exploring the success of Brazilian endemic clone Pseudomonas aeruginosa ST277 and its association with the CRISPR-Cas system type I-C

description: Additional file 5. Acr putative sequences.
DOI: 10.6084/m9.figshare.12023538
title: Additional file 4 of Exploring the success of Brazilian endemic clone Pseudomonas aeruginosa ST277 and its association with the CRISPR-Cas system type I-C

description: Additional file 4. BLAT output from P. aeruginosa ST277 spacers against plasmids and phages.
DOI: 10.6084/m9.figshare.12023538.v1
title: Additional file 4 of Exploring the success of Brazilian endemic clone Pseudomonas aeruginosa ST277 and its association with the CRISPR-Cas system type I-C

description: Additional file 4. BLAT output from P. aeruginosa ST277 spacers against plasmids and phages.
DOI: 10.6084/m9.figshare.12023532
title: Additional file 3 of Exploring the success of Brazilian endemic clone Pseudomonas aeruginosa ST277 and its association with the CRISPR-Cas system type I-C

description: Additional file 3. Spacers from ST277 P. aeruginosa CRISPR-Cas system type I-C.
DOI: 10.6084/m9.figshare.12023541.v1
title: Additional file 5 of Exploring the success of Brazilian endemic clone Pseudomonas aeruginosa ST277 and its association with the CRISPR-Cas system type I-C

description: Additional file 5. Acr putative sequences.
DOI: 10.6084/m9.figshare.12023532.v1
title: Additional file 3 of Exploring the success of Brazilian endemic clone Pseudomonas aeruginosa ST277 and its association with the CRISPR-Cas system type I-C

description: Additional file 3. Spacers from ST277 P. aeruginosa CRISPR-Cas system type I-C.
DOI: 10.6084/m9.figshare.12023520
title: Additional file 1 of Exploring the success of Brazilian endemic clone Pseudomonas aeruginosa ST277 and its association with the CRISPR-Cas system type I-C

description: Additional file 1. General information about ST277 P. aeruginosa NCBI genomes.
DOI: 10.6084/m9.figshare.12023511
title: Additional file 9 of Community recovery dynamics in yellow perch microbiome after gradual and constant metallic perturbations

description: Additional file 9: Tables S3. Statistical summary of taxa divergence over time in host and water microbial communities after recovery. These tables summarise significant taxonomic changes over time in water and host-microbial communities using Kruskal-Wallis and Wilcoxon tests, and by applying Benjamini-Hochberg correction.
DOI: 10.6084/m9.figshare.12023520.v1
title: Additional file 1 of Exploring the success of Brazilian endemic clone Pseudomonas aeruginosa ST277 and its association with the CRISPR-Cas system type I-C

description: Additional file 1. General information about ST277 P. aeruginosa NCBI genomes.
DOI: 10.6084/m9.figshare.12023502
title: Additional file 7 of Community recovery dynamics in yellow perch microbiome after gradual and constant metallic perturbations

description: Additional file 7: Table S1. Alpha-diversity dynamics over time and treatments. This statistical summary reveals richness or evenness changes over time (Tables 1 and 2) and between control and treatments (Table 3) in water and host communities. The significant changes of alpha-diversity indices between treatments and control were statistically tested using Kruskal-Wallis and Wilcoxon tests by applying Benjamini-Hochberg correction. The same statistics were used to compare alpha-diversity over time.
DOI: 10.6084/m9.figshare.12023505
title: Additional file 8 of Community recovery dynamics in yellow perch microbiome after gradual and constant metallic perturbations

description: Additional file 8: Table S2. Statistical summary of taxa divergence between treatments and control after recovery. This table summarises significant taxonomic changes in water and host-microbial communities between control and treatments using the Fisher test, and by applying Benjamini-Hochberg correction.