cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.c.3632648_d6.v1
title: Additional file 4: of Genomic expression program of Saccharomyces cerevisiae along a mixed-culture wine
            fermentation with Hanseniaspora guilliermondii

description: List of genes significantly affected (FDR&lt;0.05) between S. cerevisiae in single- and mixed-culture.
DOI: 10.6084/m9.figshare.c.3632672_d1.v1
title: Additional file 1: of Phylogeography reveals an ancient cryptic radiation in East-Asian tree frogs (Hyla japonica group) and complex relationships between continental and island lineages

description: Origin of the samples included in this study (XLSX 18 kb)
DOI: 10.6084/m9.figshare.c.3632642_d7.v1
title: Additional file 1: Table S1. of Insights from the genome of Ophiocordyceps polyrhachis-furcata to pathogenicity and host specificity in insect fungi

description: The number of genes for PHI genes family identified in O. polyrhachis-furcata and nineteen other fungi. (XLSX 252 kb)
DOI: 10.6084/m9.figshare.c.3632798_d2.v1
title: Additional file 8: Table S8. of Transcriptome wide analyses reveal a sustained cellular stress response in the gill tissue of Trematomus bernacchii after acclimation to multiple stressors

description: Immune system process: This table provides all differentially expressed genes exceeding the confidence threshold (FDR ≤ 0.05) that are associated with the GO Term immune system process (GO:0002376) at 7d, 28d and 56d (n = 4). The table includes the gene sequence name from the reference transcriptome, the BLAST result description, the sequence length, the number of BLAST hits to that gene sequence, the minimum e-value of the BLAST hits, the mean similarity, the # of GO terms associated with that sequence, the list of those GO terms, the Enzyme Codes associated with that sequence, InterproScan results associated with that sequence, the log2 adjusted fold change in expression, the log2 counts per million (CPM) of the reads mapped to that sequence, and the p-value and FDR reflecting the confidence in the displayed differential expression of that gene. (XLSX 23 kb)
DOI: 10.6084/m9.figshare.c.3632801_d2.v1
title: Additional file 10: Table S4. of Germ cell and tumor associated piRNAs in the medaka and Xiphophorus melanoma models

description: Primers used for quantitative PCR for piRNA and mRNA. (XLSX 11Â kb)
DOI: 10.6084/m9.figshare.c.3632798_d3.v1
title: Additional file 4: Table S4. of Transcriptome wide analyses reveal a sustained cellular stress response in the gill tissue of Trematomus bernacchii after acclimation to multiple stressors

description: Cell death: This table provides all differentially expressed genes exceeding the confidence threshold (FDR ≤ 0.05) that are associated with the GO Term cell death (GO:0008219) at 7d, 28d and 56d (n = 4). The table includes the gene sequence name from the reference transcriptome, the BLAST result description, the sequence length, the number of BLAST hits to that gene sequence, the minimum e-value of the BLAST hits, the mean similarity, the # of GO terms associated with that sequence, the list of those GO terms, the Enzyme Codes associated with that sequence, InterproScan results associated with that sequence, the log2 adjusted fold change in expression, the log2 counts per million (CPM) of the reads mapped to that sequence, and the p-value and FDR reflecting the confidence in the displayed differential expression of that gene. (XLSX 17 kb)
DOI: 10.6084/m9.figshare.c.3632798_d4.v1
title: Additional file 3: Table S3. of Transcriptome wide analyses reveal a sustained cellular stress response in the gill tissue of Trematomus bernacchii after acclimation to multiple stressors

description: Lipid metabolic process: This table provides all differentially expressed genes exceeding the confidence threshold (FDR ≤ 0.05) that are associated with the GO Term lipid metabolic process (GO:0006629) at 7d, 28d and 56d (n = 4). The table includes the gene sequence name from the reference transcriptome, the BLAST result description, the sequence length, the number of BLAST hits to that gene sequence, the minimum e-value of the BLAST hits, the mean similarity, the # of GO terms associated with that sequence, the list of those GO terms, the Enzyme Codes associated with that sequence, InterproScan results associated with that sequence, the log2 adjusted fold change in expression, the log2 counts per million (CPM) of the reads mapped to that sequence, and the p-value and FDR reflecting the confidence in the displayed differential expression of that gene. (XLSX 20 kb)
DOI: 10.6084/m9.figshare.c.3632801_d3.v1
title: Additional file 5: Table S2. of Germ cell and tumor associated piRNAs in the medaka and Xiphophorus melanoma models

description: Number of sequences produced by the primary or secondary biogenesis pathway. First column: absolute numbers of sequence reads with uridine at position1 (1U) and no adenine at the 10th position (10A) indicating piRNAs generated by the primary pathway. 2nd column: sequence reads with no uridine at position 1 but 10A. All other sequence reads were excluded. Only sequence reads mapping to germline, tumor or control samples in medaka and Xiphophorus were considered. 3rd column: ratio for 1U/10A as a measure for the preference of the primary or secondary biogenesis pathway was calculated. Column 4â  6: analogous to columns 1â  3, but with guanine instead of uridine and adenine. (XLSX 11Â kb)
DOI: 10.6084/m9.figshare.c.3632798_d5.v1
title: Additional file 6: Table S6. of Transcriptome wide analyses reveal a sustained cellular stress response in the gill tissue of Trematomus bernacchii after acclimation to multiple stressors

description: Heat shock related proteins: This table provides all genes associated with heat shock proteins found within the reference transcriptome regardless of expression/confidence level at 7d, 28d and 56d (n = 4). Each time-point sub-table is sorted by FDR (smallest first). The table includes the gene sequence name from the reference transcriptome, the BLAST result description, the sequence length, the number of BLAST hits to that gene sequence, the minimum e-value of the BLAST hits, the mean similarity, the # of GO terms associated with that sequence, the list of those GO terms, the Enzyme Codes associated with that sequence, InterproScan results associated with that sequence, the log2 adjusted fold change in expression, the log2 counts per million (CPM) of the reads mapped to that sequence, and the p-value and FDR reflecting the confidence in the displayed differential expression of that gene. (XLSX 37 kb)
DOI: 10.6084/m9.figshare.c.3632807_d4.v1
title: Additional file 3: Table S1. of Colony-stimulating factor 1 receptor blockade prevents fractionated whole-brain irradiation-induced memory deficits

description: Dendritic spine quantification of granule neurons in dentate gyrus.(XLSX 14 kb)
DOI: 10.6084/m9.figshare.c.3632801_d4.v1
title: Additional file 11: Table S5. of Germ cell and tumor associated piRNAs in the medaka and Xiphophorus melanoma models

description: Bed file of medaka piRNA clusters. (BED 2235Â kb)
DOI: 10.15468/dl.zefgec
title: Occurrence Download

description: A dataset containing 16635 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Mexico",
 "TaxonKey is Passerina leclancherii Lafresnaye, 1840"
 ]
}

 The dataset includes 16635 records from 59 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0037968-241126133413365/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.6084/m9.figshare.c.3632798_d6.v1
title: Additional file 7: Table S7. of Transcriptome wide analyses reveal a sustained cellular stress response in the gill tissue of Trematomus bernacchii after acclimation to multiple stressors

description: Response to stress: This table provides all differentially expressed genes exceeding the confidence threshold (FDR ≤ 0.05) that are associated with the GO Term response to stress (GO:0006950) at 7d, 28d and 56d (n = 4). The table includes the gene sequence name from the reference transcriptome, the BLAST result description, the sequence length, the number of BLAST hits to that gene sequence, the minimum e-value of the BLAST hits, the mean similarity, the # of GO terms associated with that sequence, the list of those GO terms, the Enzyme Codes associated with that sequence, InterproScan results associated with that sequence, the log2 adjusted fold change in expression, the log2 counts per million (CPM) of the reads mapped to that sequence, and the p-value and FDR reflecting the confidence in the displayed differential expression of that gene. (XLSX 26 kb)
DOI: 10.6084/m9.figshare.c.3632897_d1.v1
title: Additional file 1: of Somatic healthcare utilisation patterns among older people with intellectual disability: an 11-year register study

description: Data concerning differences in proportions with at least one visit registration with respect to four different outcomes: planned/unplanned inpatient registrations/outpatient physician visits(year, and age group, odds ratios (OR) with 95 % confidence intervals) and data concerning differences in number of visits, registrations and LOS for individuals with at least one registration/visit (mean, standarddeviations, p-values for Mann–Whitney U-tests, and Jonckheere–Terpstra tests for trend). (XLSX 53 kb)
DOI: 10.6084/m9.figshare.c.3632918_d1.v1
title: Additional file 1: of Intestinal adaptations to a combination of different diets with and without endurance exercise

description: Spreadsheet of data for brush border membrane assasys. (XLSX 117Â kb)
DOI: 10.6084/m9.figshare.c.3632915_d1.v1
title: Additional file 2: Table S2. of Development of a point-of-care-device for fast detection of periodontal pathogens

description: Primer sequences and product size. (XLSX 12 kb)
DOI: 10.6084/m9.figshare.c.3632918_d2.v1
title: Additional file 3: of Intestinal adaptations to a combination of different diets with and without endurance exercise

description: Spreadsheet of data for rates of glucose uptakes. (XLSX 118Â kb)
DOI: 10.6084/m9.figshare.c.3632915_d2.v1
title: Additional file 3: Table S3. of Development of a point-of-care-device for fast detection of periodontal pathogens

description: Crossing points (CP) corresponding to Fig.Â 5 (XLSX 10 kb)
DOI: 10.15468/dl.rc3nc5
title: Occurrence Download

description: A dataset containing 32323 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Mexico",
 "TaxonKey is Passerina versicolor (Bonaparte, 1838)"
 ]
}

 The dataset includes 32323 records from 99 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0037969-241126133413365/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.6084/m9.figshare.c.3632996_d1.v1
title: Additional file 1: Table S1. of Production of hemolysin BL by Bacillus cereus group isolates of dairy origin is associated with whole-genome phylogenetic clade

description: List of publicly available closed genomes included in this study. (XLSX 43 kb)
DOI: 10.6084/m9.figshare.c.3632987_d3.v1
title: Additional file 3: Table S2. of Pateamine A-sensitive ribosome profiling reveals the scope of translation in mouse embryonic stem cells

description: RNA-seq and Riboprofiling data for upstream ORFs of annotated protein coding transcripts (Microsoft Excel file). (XLSX 8807Â kb)
DOI: 10.6084/m9.figshare.c.3632996_d2.v1
title: Additional file 5. of Production of hemolysin BL by Bacillus cereus group isolates of dairy origin is associated with whole-genome phylogenetic clade

description: HMM_cry_log.sh. (SH 932 bytes)
DOI: 10.6084/m9.figshare.c.3633011_d1.v1
title: Additional file 5: of Draft genome of the scabies mite

description: Locations and putative identities of scabies homologs for genes which are immunogenic and present in the salivary glands of ticks and are listed in [ 107 ]. (XLSX 17Â kb)
DOI: 10.6084/m9.figshare.c.3632996_d3.v1
title: Additional file 4: Table S4. of Production of hemolysin BL by Bacillus cereus group isolates of dairy origin is associated with whole-genome phylogenetic clade

description: Absolute core genome SNP distance for 69 B. cereus group isolates. (XLSX 61 kb)
DOI: 10.6084/m9.figshare.c.3633011_d2.v1
title: Additional file 2: of Draft genome of the scabies mite

description: Abundance of repetitive element types identified by RepeatMasker. (XLSX 115Â kb)
DOI: 10.6084/m9.figshare.c.3632996_d4.v1
title: Additional file 3: Table S3. of Production of hemolysin BL by Bacillus cereus group isolates of dairy origin is associated with whole-genome phylogenetic clade

description: Presence/absence of 36 virulence genes in whole genome sequences of 69 B. cereus group isolates. (XLSX 19 kb)
DOI: 10.6084/m9.figshare.c.3633011_d3.v1
title: Additional file 4: of Draft genome of the scabies mite

description: Normalized abundance of shared Pfam domains in four mite proteomes. Values represent the number of domains that would be present in a proteome bearing 10,000 Pfam domains. Blue represents minor outliers that are higher than expected and Red represents minor outliers that are lower than expected. There were no major outliers detected. (XLSX 115Â kb)
DOI: 10.6084/m9.figshare.c.3633011_d4.v1
title: Additional file 3: of Draft genome of the scabies mite

description: All Pfam hits in the scabies proteome with 1 x 10 â  4 cutoff. This is a redundant list (since some proteins contain multiple domains) that can be used to count the number of specific Pfam domains in the proteome. (XLSX 358Â kb)
DOI: 10.6084/m9.figshare.c.3632996_d5.v1
title: Additional file 2: Table S2. of Production of hemolysin BL by Bacillus cereus group isolates of dairy origin is associated with whole-genome phylogenetic clade

description: Virulence-associated genes included in the comparative genomic analysis of Bacillus cereus group isolates. (XLSX 33 kb)
DOI: 10.6084/m9.figshare.c.3633008_d6.v1
title: MOESM1 of Levels of DNA methylation and transcript accumulation in leaves of transgenic maize varieties

description: Additional file 1. Output results of NormFinder algorithm used for determining the best endogenous normalizer genes. Leunig (LUG) and Membrane protein PB1A10.07c (MEP) showed the best combination of two normalizer genes with a stability value of 0.025.
DOI: 10.6084/m9.figshare.c.3633011_d5.v1
title: Additional file 1: of Draft genome of the scabies mite

description: BSUCO analysis metrics for Scabies and other acari genomes and gene sets. (XLSX 6Â kb)
DOI: 10.6084/m9.figshare.c.3633011_d6.v1
title: Additional file 6: of Draft genome of the scabies mite

description: Locations and putative identities of scabies homologs for vaccine candidates listed in [ 110 ]. (XLSX 5Â kb)
DOI: 10.15468/dl.w8waxv
title: Occurrence Download

description: A dataset containing 179046 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Mexico",
 "TaxonKey is Passer domesticus (Linnaeus, 1758)"
 ]
}

 The dataset includes 179046 records from 59 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0037941-241126133413365/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.6084/m9.figshare.c.3633122_d3.v1
title: Additional file 3: of Developing expressed sequence tag libraries and the discovery of simple sequence repeat markers for two species of raspberry (Rubus L.)

description: Gene ontology term distribution for the categories Biological Process, Molecular Function, and Cellular Component. (XLSX 12 kb)
DOI: 10.6084/m9.figshare.c.3633137_d1.v1
title: Additional file 1: of Demography and health of Pugs under primary veterinary care in England

description: Mapping systems that linked disorder terms between diagnosis-level precision, grouped-level precision and syndromic classifications. (XLSX 58 kb)
DOI: 10.6084/m9.figshare.c.3633122_d4.v1
title: Additional file 4: of Developing expressed sequence tag libraries and the discovery of simple sequence repeat markers for two species of raspberry (Rubus L.)

description: Top ten longest unigenes aligned to the Gene Ontology database with BLAST results. (XLSX 10 kb)
DOI: 10.6084/m9.figshare.c.3633128_d8.v1
title: Additional file 2 of Addressing inaccuracies in BLOSUM computation improves homology search performance

description: List of best performing matrix/gap parameter combinations. (CSV 47.6 kb)
DOI: 10.6084/m9.figshare.c.3633152_d1.v1
title: Additional file 1: of Assessment of subchondral bone marrow lesions in knee osteoarthritis by MRI: a comparison of fluid sensitive and contrast enhanced sequences

description: Supplementary imaging protocol, method description and figures. (ZIP 5644 kb)
DOI: 10.6084/m9.figshare.c.3633260_d2.v1
title: Additional file 2: of gtrellis: an R/Bioconductor package for making genome-level Trellis graphics

description: Enhanced Manhattan plot. (ZIP 452 kb)
DOI: 10.6084/m9.figshare.c.3633260_d3.v1
title: Additional file 3: of gtrellis: an R/Bioconductor package for making genome-level Trellis graphics

description: Data and source code for producing Figs.Â 2 and 3. (ZIP 1464 kb)
DOI: 10.6084/m9.figshare.c.3633263_d3.v1
title: Additional file 2: Table S1. of Deletion of the type-1 interferon receptor in APPSWE/PS1ΔE9 mice preserves cognitive function and alters glial phenotype

description: Statistical table (See additional statistical table file). Statistical analysis information is displayed for all data displayed within the accompanying figures. Power values were determined post-hoc based upon population effect size, sample size and group number. An α value of 0.05 was used to set the type-1 error rate in statistical comparisons. p values are given as exact values or adjusted multiplicity variants where an ANOVA and multiple comparisons post-hoc test was applied to the data. n represents the number of individual animals or primary cell cultures derived from separate animals used in each experiment. N/A: not applicable. (XLSX 49 kb)
DOI: 10.6084/m9.figshare.c.3633284_d1.v1
title: Additional file 1: of Impact of kinetic isotope effects in isotopic studies of metabolic systems

description: R scripts used to construct the models, perform the simulations and generate the figures. (TAR 137 kb)
DOI: 10.6084/m9.figshare.c.3633278_d3.v1
title: Additional file 6: Figure S5. of 
                     Mycobacterium tuberculosis whole genome sequencing and protein structure modelling provides insights into anti-tuberculosis drug resistance

description: Percentage of the variation in MIC values explained by each mutated codon in candidate genes. Bars in red represent significant independent associations with increased MIC (pâ
DOI: 10.6084/m9.figshare.c.3633278_d4.v1
title: Additional file 5: Figure S4. of 
                     Mycobacterium tuberculosis whole genome sequencing and protein structure modelling provides insights into anti-tuberculosis drug resistance

description: The relationship between the total number of non-synonymous SNPs in candidate loci and the MIC values. The size of the circle represents the number of isolates. a) Ethambutol (embB, embA, embA promoter, embC, embR and ubiA). b) Streptomycin (rpsL, rrs). The size of the circles is proportional to the frequency. The MIC values tend to increase with the number of non-synonymous mutations (ethambutol: rho = 0.24, slope = 0.29, p = 0.003; streptomycin: rho = 0.48, slope = 3.59, p = 1.65 × 10-8). The horizontal blue lines refer to the resistance cut-offs. (ZIP 92 kb)
DOI: 10.6084/m9.figshare.c.3633278_d5.v1
title: Additional file 4: Figure S3. of 
                     Mycobacterium tuberculosis whole genome sequencing and protein structure modelling provides insights into anti-tuberculosis drug resistance

description: Population structure analysis of the 144 isolates show clustering by lineage (Lineages one to four are represented by blue, green, purple, and red points, respectively). (a) A phylogenetic tree rooted with M. canetti. (b) First two principal components represent 33Â % and 30.5Â % of the variation explained between isolates, respectively. (ZIP 105 kb)
DOI: 10.6084/m9.figshare.c.3633428_d1.v1
title: Additional file 1: Table S1. of Identification of new heading date determinants in wheat 5B chromosome

description: 5B chromosome genetic_linkage_map of CS x CS-5Bdic. The map was constructed using MultiPoint â  UltraDenseâ   software. (XLSX 26Â kb)
DOI: 10.6084/m9.figshare.c.3633401_d6.v1
title: Additional file 4: Table S4. of Tsetse fly tolerance to T. brucei infection: transcriptome analysis of trypanosome-associated changes in the tsetse fly salivary gland

description: List of differentially expressed transcripts between SG + MG+ vs SG-MG+. (XLS 1305 kb)
DOI: 10.6084/m9.figshare.c.3633368_d12.v1
title: Additional file 7: of Genetic toxicity assessment of engineered nanoparticles using a 3D in vitro skin model (EpiDerm™)

description: Tabulated dose-response data used in the creation of Fig. 6: Human B lymphoblastoid cells (TK6) were exposed to the 16 nm-SiO2 or 85 nm-SiO2 for 24 h in absence of cyt B via the 3D topical (3D-T), 3D in-medium (3D-M) or 2D in-medium (2D) exposure routes. Genotoxicity (micronucleus frequency) was assessed until cell viability decreased below 50 %. Equivalent 2D / 3D doses were established by total mass dose normalisation according to the total number of cells in each system at time of inoculation (see Methods). Alternative dose metrics including the 3D equivalent total mass doses with area (topical exposures) unit components are provided in Table 2. (CSV 4 kb)
DOI: 10.6084/m9.figshare.c.3633428_d2.v1
title: Additional file 3: Table S3. of Identification of new heading date determinants in wheat 5B chromosome

description: LODs values of Interval analysis of heading date trait. (XLSX 10Â kb)
DOI: 10.6084/m9.figshare.c.3633401_d7.v1
title: Additional file 6: Table S5. of Tsetse fly tolerance to T. brucei infection: transcriptome analysis of trypanosome-associated changes in the tsetse fly salivary gland

description: List of differentially expressed transcripts shared between experimental conditions. (XLS 838Â kb)
DOI: 10.6084/m9.figshare.c.3633428_d3.v1
title: Additional file 4: Table S4. of Identification of new heading date determinants in wheat 5B chromosome

description: Results of blastn analysis for SNP sequences, located in the QTL region. (XLSX 51Â kb)
DOI: 10.6084/m9.figshare.c.3633431_d1.v1
title: Additional file 3: of Assessment of primary rehabilitation needs in neurological rehabilitation: translation, adaptation and face validity of the Danish version of Rehabilitation Complexity Scale-Extended

description: Data from face validity study. The dataset has 10 variables: Variable a: Case_no refers to the case numbers; Variables b, e, h: *_problems answers to question “Did you have any problems scoring one of the 10 latest patients?”; Variables c, f, i: *_problem_ID gives the ID of the case with a problem; Variables d, g, j: * _score answers to question “On average over the last 10 patients, does the RCS-E present a sufficient description of the patient in the areas you have been asked to assess? Please indicate on a scale from 0 to 10, where 0 is not at all sufficient and 10 is sufficient”. (CSV 1 kb)
DOI: 10.6084/m9.figshare.c.3633401_d8.v1
title: Additional file 2: Table S2. of Tsetse fly tolerance to T. brucei infection: transcriptome analysis of trypanosome-associated changes in the tsetse fly salivary gland

description: Real-time quantitative RT-PCR validation of RNA-seq data. (XLS 39Â kb)
DOI: 10.6084/m9.figshare.c.3633428_d4.v1
title: Additional file 2: Table S2. of Identification of new heading date determinants in wheat 5B chromosome

description: Localization of markers due to N5BT5D/DT5BL analysis in current investigation and according to comparison with previously reported 5B mapping data. (XLSX 37Â kb)
DOI: 10.6084/m9.figshare.c.3633401_d9.v1
title: Additional file 1: Table S1. of Tsetse fly tolerance to T. brucei infection: transcriptome analysis of trypanosome-associated changes in the tsetse fly salivary gland

description: List of genes added to the GmorY1 assembly. (XLS 27Â kb)