cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.c.3622799_d2
title: Additional file 1: Table S1. of Gene expression analysis of pig cumulus-oocyte complexes stimulated in vitro with follicle stimulating hormone or epidermal growth factor-like peptides

description: List of primers used for microarray data analysis verification. List and data of primers used in qRT-PCR. F, forward primer; R, reverse primer. (XLSX 18Â kb)
DOI: 10.6084/m9.figshare.c.3622850_d1
title: Additional file 3: of Deciphering the recent phylogenetic expansion of the originally deeply rooted Mycobacterium tuberculosis lineage 7

description: Is a table listing the SNPs in genes. (XLSX 11Â kb)
DOI: 10.6084/m9.figshare.c.3622856_d1
title: Additional file 1: of Rapid phenotyping of crop root systems in undisturbed field soils using X-ray computed tomography

description: MatLab 8.0 script for noise elimination, provided as an .exe-file working on 16-bit unsigned integer.
DOI: 10.6084/m9.figshare.c.3623861_d1
title: Additional file 4: of Genomic signatures of Mannheimia haemolytica that associate with the lungs of cattle with respiratory disease, an integrative conjugative element, and antibiotic resistance genes

description: Table of nucleotide polymorphism allele locations and genotypes used to type genotype 1 M. haemolytica isolates (first table). Due to the size of the dataset, this is the first of two tables that contain the genotypes (Additional files 4 and 5). The table contains the locations and allele scores for 11,712 of the 16,888 nucleotide polymorphisms used to type genotype 1 M. haemolytica and construct the network of Fig.Â 2. Each polymorphism was unambiguously scored in 90% or more of the isolates. (CSV 12221 kb)
DOI: 10.6084/m9.figshare.c.3623861_d2
title: Additional file 8: of Genomic signatures of Mannheimia haemolytica that associate with the lungs of cattle with respiratory disease, an integrative conjugative element, and antibiotic resistance genes

description: Table of nucleotide polymorphism allele locations and genotypes used to score genotype 2 M. haemolytica isolates (second table). Due to the size of the dataset, this is the second of two tables that contain the genotypes (Additional files 8 and 9). The table contains the locations and allele scores for 8229 of 24,475 nucleotide polymorphisms used to type genotype 2 M. haemolytica and construct the network of Fig.Â 3. Each polymorphism was unambiguously scored in 90% or more of the isolates. (CSV 9995 kb)
DOI: 10.6084/m9.figshare.c.3623861_d8
title: Additional file 2: of Genomic signatures of Mannheimia haemolytica that associate with the lungs of cattle with respiratory disease, an integrative conjugative element, and antibiotic resistance genes

description: Table of nucleotide polymorphism allele locations and genotypes used to initially type all 1133 M. haemolytica isolates (first table). Due to the size of the dataset this is the first of two tables that contain the genotypes (Additional files 2 and 3). The table contains the locations and allele scores for 11,306 of 16,447 nucleotide polymorphisms that were used to generate the tree of Fig.Â 1. Each polymorphism was unambiguously scored in 95% or more of the isolates. (ZIP 4344 kb)
DOI: 10.6084/m9.figshare.c.3623861_d9
title: Additional file 1: of Genomic signatures of Mannheimia haemolytica that associate with the lungs of cattle with respiratory disease, an integrative conjugative element, and antibiotic resistance genes

description: Table of M. haemolytica isolates used in this study. For each isolate, the table contains information regarding a Minilims identifier number for the isolate and for the isolate library, state or province of origin, year of isolation, the collection the isolate belongs to, an AHDRCC identifier number, the group the isolate belongs to, use in the study, genotype and subtype designation, ICE and antibiotic resistance gene sequence information. (XLSX 148 kb)
DOI: 10.6084/m9.figshare.c.3624869_d1
title: Additional file 1: of Modelling intentions to provide smoking cessation support among mental health professionals in the Netherlands

description: List of originalÂ survey items and response options. (XLSX 17Â kb)
DOI: 10.6084/m9.figshare.c.3625796_d2
title: Additional file 1: Table S1. of Genetic diversity of two Daphnia-infecting microsporidian parasites, based on sequence variation in the internal transcribed spacer region

description: Number of Daphnia host individuals sampled from each reservoir. Table S2. Comparison between the results of the hierarchical analysis of molecular variance (AMOVA) of spatial population structure for Berwaldia and MIC1, using the dataset before and after clustering with Statistical Parsimony (using QRS pipeline; [42]). Table S3. Comparison of the summary statistics of the ten re-sampled, smaller Berwaldia ITS marker datasets simulating only two populations (“R-1” to “R-10”: 2630 sequences each) and summary statistics calculated for the entire Berwaldia ITS dataset, including all six populations (“Entire”: 18,871 sequences). Table S4. Comparison between the summary statistics of the ten smaller Berwaldia and MIC1 ITS datasets (“B-1” to “B-10” and “M-1 to M-10; 80 and 26 sequences per dataset, respectively) and the summary statistics calculated for the entire Berwaldia and MIC1 ITS datasets (“B-Entire” and “M-Entire”; 18,871 and 2630 sequences, respectively). Table S5. Recombination events detected in the Berwaldia ITS alignment using RDP4. (XLS 31 kb)
DOI: 10.6084/m9.figshare.c.3625799_d2
title: Additional file 2: of Multimodular type I polyketide synthases in algae evolve by module duplications and displacement of AT domains in trans

description: Table S2. Details on analyzed type I PKSs and NRPSs. (XLSX 22 kb)
DOI: 10.6084/m9.figshare.c.3625802_d3
title: MOESM6 of Profiling and bioinformatics analyses reveal differential circular RNA expression in radioresistant esophageal cancer cells

description: Additional file 6: Table S6. circRNA_miRNA_target gene.pathways.
DOI: 10.6084/m9.figshare.c.3625787_d3
title: Additional file 2: of Venom-gland transcriptome and venom proteome of the Malaysian king cobra (Ophiophagus hannah)

description: Malaysian Ophiophagus hannah Venom-gland Transcriptome Toxins Annotations. (XLSX 147 kb)
DOI: 10.6084/m9.figshare.c.3625796_d3
title: Additional file 2: File S1. of Genetic diversity of two Daphnia-infecting microsporidian parasites, based on sequence variation in the internal transcribed spacer region

description: DNA alignment of the 26 Berwaldia ITS representative sequences in FASTA format. (FASTA 14 kb)
DOI: 10.6084/m9.figshare.c.3625802_d4
title: MOESM1 of Profiling and bioinformatics analyses reveal differential circular RNA expression in radioresistant esophageal cancer cells

description: Additional file 1: Table S1. circRNAs gene primers in the study for Q-PCR.
DOI: 10.6084/m9.figshare.c.3625808_d2
title: Additional file 2: of Development of guidelines for family and non-professional helpers on assisting an older person who is developing cognitive impairment or has dementia: a Delphi expert consensus study

description: Endorsed and rejected items. Endorsed and rejected items including the survey round that they were endorsed or rejected. (XLSX 91Â kb)
DOI: 10.6084/m9.figshare.c.3625787_d4
title: Additional file 3: of Venom-gland transcriptome and venom proteome of the Malaysian king cobra (Ophiophagus hannah)

description: Malaysian Ophiophagus hannah venom proteome. (XLSX 223 kb)
DOI: 10.6084/m9.figshare.c.3625796_d4
title: Additional file 3: File S2. of Genetic diversity of two Daphnia-infecting microsporidian parasites, based on sequence variation in the internal transcribed spacer region

description: DNA alignment of the 32 MIC1 ITS representative sequences in FASTA format. (FASTA 23 kb)
DOI: 10.6084/m9.figshare.c.3625802_d5
title: MOESM4 of Profiling and bioinformatics analyses reveal differential circular RNA expression in radioresistant esophageal cancer cells

description: Additional file 4: Table S4. circRNA_miRNA_target genes.
DOI: 10.6084/m9.figshare.c.3625862_d1
title: Additional file 4: Matrix S3. of Dengue research networks: building evidence for policy and planning in Brazil

description: Institutional network dataset (2005-2009). (CSV 85 kb)
DOI: 10.6084/m9.figshare.c.3626939_d2
title: MOESM18 of Setdb1-mediated H3K9 methylation is enriched on the inactive X and plays a role in its epigenetic silencing

description: Additional file 18. shRNA Sequences. 97-mer shRNA oligonucleotides used to create the retroviral shRNAsÂ for the X inactivation screen and additional hairpins used in this study. The common miR30 5â  , loop and 3â   sequences are in black, the unique 21-mer stem sequences are in red and theÂ mismatched bases are in blue.
DOI: 10.6084/m9.figshare.c.3626945_d1
title: Additional file 6: Table S8. of A comprehensive study of the genomic differentiation between temperate Dent and Flint maize

description: Gene-wise nucleotide diversity π and F ST for flowering time candidate genes with at least 5 SNPs in the genic and 5 kb upstream region. (XLSX 24 kb)
DOI: 10.6084/m9.figshare.c.3627737_d1
title: Additional file 1: of A multilocus molecular phylogeny for the avian genus Liocichla (Passeriformes: Leiothrichidae: Liocichla)

description: Table S1. Genbank accession numbers for all ingroup and outgroup sequences used in this study.
DOI: 10.6084/m9.figshare.c.3627734_d1
title: Additional file 1: of Community structure, seasonal variations and interactions between native and invasive cattle tick species in Benin and Burkina Faso

description: Effect of the co-infestation patterns on the distribution of tick attachment sites. (XLS 98 kb)
DOI: 10.6084/m9.figshare.c.3627698_d9
title: Additional file 10: of Transcriptomic responses of the basidiomycete yeast Sporobolomyces sp. to the mycotoxin patulin

description: Combined table of cuffdiff and BLASTx outputs for upregulated (Log2FC ≥ 2) and downregulated (Log2FC ≤ -2) DEGs detected for Sporobolomyces sp. grown in the presence of 50 μg/ml of PAT at OD595 of ~0.08. BLASTx against existing Sporobolomyces sp. genome annotation and SGD is also shown. DEGs have been sorted from the highest Log2FC value to the smallest. In bold are indicated DEGs found also for Sporobolomyces sp. incubated in the presence of 5 μg/ml of PAT reported in additional files 7 and 9. (XLSX 52 kb)
DOI: 10.15468/dl.zvfdyj
title: Occurrence Download

description: A dataset containing 9222 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is one of (Human Observation, Occurrence evidence)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Evolvulus alsinoides (L.) L."
 ]
}

 The dataset includes 9222 records from 58 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0034185-241126133413365/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.3627746_d1
title: Additional file 1: of Compliance with birth dose of Hepatitis B vaccine in high endemic and hard to reach areas in the Colombian amazon: results from a vaccination survey

description: Study database containing Hepatitis B vaccination data from participants, Leticia, Puerto Nariño, Tarapacá; Amazon department, Colombia 2011–2012. (XLSX 256 kb)
DOI: 10.6084/m9.figshare.c.3627698_d10
title: Additional file 7: of Transcriptomic responses of the basidiomycete yeast Sporobolomyces sp. to the mycotoxin patulin

description: Combined table of cuffdiff, Blast2GO and BLASTx outputs for upregulated Sporobolomyces sp. DEGs (FDR
DOI: 10.6084/m9.figshare.c.3627770_d1
title: Additional file 7: Table S6. of Genome-wide transcription start site profiling in biofilm-grown Burkholderia cenocepacia J2315

description: Promoter motifs based on DMINDA [16] analysis. Motif sequences are shown in context with the expression pattern of the respective genes, based on microarray data [19]. (XLSX 319ย�kb)
DOI: 10.15468/dl.tpsz87
title: Occurrence Download

description: A dataset containing 12016 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Human Observation",
 "Country is China",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Amphibia",
 "Year 2010-2024"
 ]
}

 The dataset includes 12016 records from 8 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0034186-241126133413365/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.3628250_d13
title: Additional file 9: of Flowering time adaption in Swedish landrace pea (Pisum sativum L.)

description: Variation in the HR gene. (XLSX 11Â kb)
DOI: 10.6084/m9.figshare.c.3628289_d2
title: Additional file 5: Figure S4a-c. of Differential impact of smoking on mortality and kidney transplantation among adult Men and Women undergoing dialysis

description: Age-specific transplantation rates for Coronary disease, Peripheral Arterial Disease and Stroke for Women by smoking status. P–value for differences between smokers and non-smokers **P
DOI: 10.6084/m9.figshare.c.3628298_d1
title: Additional file 10: of Rab32 and Rab38 genes in chordate pigmentation: an evolutionary perspective

description: Zebrafish ESTs available in NCBI database. (XLSX 10.5 kb)
DOI: 10.6084/m9.figshare.c.3628250_d14
title: Additional file 6: of Flowering time adaption in Swedish landrace pea (Pisum sativum L.)

description: Pearson correlation coefficients (including significances) between the measured traits, haplotypes and expression levels. Correlations with latitude and GSO are done with Swedish landraces only while the rest of the correlations include the whole data set. (XLS 21Â kb)
DOI: 10.6084/m9.figshare.c.3628298_d2
title: Additional file 2: of Rab32 and Rab38 genes in chordate pigmentation: an evolutionary perspective

description: Database of sequences used in phylogeny of Fig.Â  1 . (TXT 14 kb)
DOI: 10.6084/m9.figshare.c.3628289_d3
title: Additional file 2: Figure S1a-c. of Differential impact of smoking on mortality and kidney transplantation among adult Men and Women undergoing dialysis

description: Age-specific mortality rates for Coronary disease, Peripheral Arterial Disease and Stroke for Men by smoking status. P–value for differences between smokers and non-smokers **P
DOI: 10.6084/m9.figshare.c.3628289_d4
title: Additional file 3: Figure S2a-c. of Differential impact of smoking on mortality and kidney transplantation among adult Men and Women undergoing dialysis

description: Age-specific mortality rates for Coronary disease, Peripheral Arterial Disease and Stroke for Women by smoking status. P–value for differences between smokers and non-smokers **P
DOI: 10.6084/m9.figshare.c.3628289_d5
title: Additional file 4: Figure S3a-c. of Differential impact of smoking on mortality and kidney transplantation among adult Men and Women undergoing dialysis

description: Age-specific transplantation rates for Coronary disease, Peripheral Arterial Disease and Stroke for Men by smoking status. P–value for differences between smokers and non-smokers **P
DOI: 10.6084/m9.figshare.c.3628307_d2
title: Additional file 2 of Data integration to prioritize drugs using genomics and curated data

description: A spreadsheet file containing the list of studies. (XLS 15 kb)
DOI: 10.6084/m9.figshare.c.3628319_d1
title: Additional file 1: of Whole genome sequencing reveals mycobacterial microevolution among concurrent isolates from sputum and blood in HIV infected TB patients

description: A tabular list of all SNPs and indels per M. tuberculosis isolate, sputum and blood, created using nesoni nway program. Key: Highlighted = SNPs between concurrent sputum and blood M. tuberculosis isolates, p = patient. (XLS 15043 kb)
DOI: 10.6084/m9.figshare.c.3628316_d1
title: Additional file 4: of Militarization, human rights violations and community responses as determinants of health in southeastern Myanmar: results of a cluster survey

description: Negotiation as a modifier of associations between exposure to armed groups and risk of any household member reporting human rights violations. (XLSX 10 kb)
DOI: 10.6084/m9.figshare.c.3628763_d4
title: Additional file 5: Table S3. of High-resolution identification and abundance profiling of cassava (Manihot esculenta Crantz) microRNAs

description: PHAS loci identified in Cassava. (XLSX 30Â kb)
DOI: 10.6084/m9.figshare.c.3628775_d4
title: Additional file 2: Table S2. of DNA hypomethylation of Synapsin II CpG islands associates with increased gene expression in bipolar disorder and major depression

description: Mixed Model ANOVA results for SYN1, SYN2, and SYN3 promoter CpG methylation. A. SYN1: Type III Tests of Fixed Effects. B. SYN2: Type III Tests of Fixed Effects. C. SYN3: Type III Tests of Fixed Effects. (XLSX 11Â kb)
DOI: 10.6084/m9.figshare.c.3628787_d2
title: Additional file 2: Table S2. of Copy number variants in the sheep genome detected using multiple approaches

description: A list of the positions of the CNV regions on genome build UMD3_OA. (XLSX 127Â kb)
DOI: 10.6084/m9.figshare.c.3628778_d4
title: Additional file 3: of Association of infertility and fertility treatment with mammographic density in a large screening-based cohort of women: a cross-sectional study

description: Association between infertility, fertility treatment and mammographic density, infertile women with non-hormonal fertility treatment excluded from reference group. (XLS 34 kb)
DOI: 10.6084/m9.figshare.c.3628754_d8
title: Additional file 13: Table S3. of Variation in NAT2 acetylation phenotypes is associated with differences in food-producing subsistence modes and ecoregions in Africa

description: Predicted frequency of slow acetylators per population, with 95% non-parametric (bootstrap) confidence interval. (XLSX 12 kb)
DOI: 10.6084/m9.figshare.c.3628763_d5
title: Additional file 1: Table S1. of High-resolution identification and abundance profiling of cassava (Manihot esculenta Crantz) microRNAs

description: Tissue differential abundances of miRNAs previously validated for cassava in miRBase 21.0. (XLSX 57Â kb)
DOI: 10.6084/m9.figshare.c.3628793_d1
title: Additional file 2: Table S1. of Local and global patterns of admixture and population structure in Iranian native cattle

description: Number of samples, species, subspecies assignments, and geographical provenance of each population. With the exception of 8 Iranian native cattle breeds, sample descriptions are according to Decker et al. 2014 [10]. (XLSX 17Â kb)
DOI: 10.6084/m9.figshare.c.3629300_d5
title: Additional file 5: Table S3. of The endonuclease domain of the LINE-1 ORF2 protein can tolerate multiple mutations

description: NGS RNAseq analysis of HeLa and 293 cells. RNAseq reads from HeLa and 293 cells were analyzed to confirm gene expression from several kinases and control genes (ACTB, GAPDH). Expression is reported as TPM, transcripts per kilobase million. (XLSX 10Â kb)
DOI: 10.6084/m9.figshare.c.3629297_d8
title: Additional file 8: of Transcriptome analysis of the Holly mangrove Acanthus ilicifolius and its terrestrial relative, Acanthus leucostachyus, provides insights into adaptation to intertidal zones

description: Gene IDs, sequence lengths, gene descriptions and primer sequences used in this study. (XLSX 9Â kb)
DOI: 10.6084/m9.figshare.c.3629297_d9
title: Additional file 4: of Transcriptome analysis of the Holly mangrove Acanthus ilicifolius and its terrestrial relative, Acanthus leucostachyus, provides insights into adaptation to intertidal zones

description: Pairwise Kimura two-parameter distances of the combined chloroplast fragments for the six Acanthus species. The abbreviations were listed in Additional file 9. (XLSX 9Â kb)
DOI: 10.6084/m9.figshare.c.3629300_d6
title: Additional file 10: Table S4. of The endonuclease domain of the LINE-1 ORF2 protein can tolerate multiple mutations

description: Sequences of primers used in this study for site-directed mutagenesis. (XLSX 9Â kb)
DOI: 10.6084/m9.figshare.c.3629339_d1
title: Additional file 3: Table S3. of Midgut proteome of an argasid tick, Ornithodoros erraticus: a comparison between unfed and engorged females

description: Non-redundant host proteins identified in Soluble fraction, S-1, from midgut of engorged ticks at 48 h post-feeding (fed group). (XLSX 45 kb)
DOI: 10.6084/m9.figshare.c.3629345_d1
title: Additional file 1: of An interspecific assessment of Bergmann’s rule in 22 mammalian families

description: All phylogenies used in analyses. R script for data extraction and analyses. Detailed results/raw output from SLOUCH. SLOUCH input data. Likelihood plots for all half-life estimations. (ZIP 2442 kb)
DOI: 10.6084/m9.figshare.c.3629720_d11
title: Additional file 18: of Quantitative CRISPR interference screens in yeast identify chemical-genetic interactions and new rules for guide RNA design

description: Analysis of potential off-target binding sites. (XLSX 36 kb)
DOI: 10.6084/m9.figshare.c.3629720_d12
title: Additional file 3: of Quantitative CRISPR interference screens in yeast identify chemical-genetic interactions and new rules for guide RNA design

description: Raw data for qPCR. (XLSX 38 kb)
DOI: 10.6084/m9.figshare.c.3629789_d2
title: Additional file 2: Tables S1-S7. of From yeast to hypha: defining transcriptomic signatures of the morphological switch in the dimorphic fungal pathogen Ophiostoma novo-ulmi

description: Table S1: qRT-PCR primers for reference genes and tested genes. Table S2: Results of BLASTp analysis of Saccharomyces cerevisiae dimorphism related proteins with Ophiostoma novo-ulmi genome. The last column indicates if the homologous proteins are orthologs (results of reciprocal best blast hits (RBH) using tblastx on exon sequences for each gene of the two species, e-value = 1x10^3 and word size = 5). Table S3: Normalized read counts for the 7605 genes analyzed using EdgeR and maSigPro in R. 1-3: 0 h; 4-6: 2 h; 7-9: 4 h; 10-12: 6 h; 13-15: 10 h; 16-18: 27 h. DEGs : Differentially Expressed Genes detected using maSigPro, FDR â ¤ 0.05. For each DEG, the number of the STEM profile associated is indicated. Nigg et al. 2015: genes overexpressed in Yeast or Mycelium growth phases in the study of Nigg and collaborators in 2015 [47]. Table S4: Description of the 815 genes found in the STEM profile 39. Values are means of differential gene expressions for each time compared to 0 h.Table S5: Enriched biological processes in the STEM profile 39 containing at least 4 DEGs genes after filtration using GO Trimming and REVIGO. GO term in bold are parent term retained as name for a regroupment. Table S6: Description of the 256 genes found in the STEM profile 8. Values are means of differential gene expressions for each time compared to 0 h. Table S7: Enriched biological processes in the STEM profile 8 containing at least 4 DEGs genes after filtration using GO Trimming and REVIGO. GO term in bold are parent term retained as name for a regroupment. (XLSX 1029Â kb)
DOI: 10.6084/m9.figshare.c.3629720_d13
title: Additional file 19: of Quantitative CRISPR interference screens in yeast identify chemical-genetic interactions and new rules for guide RNA design

description: Primers, strains, and plasmids used in this study. (XLSX 96 kb)
DOI: 10.6084/m9.figshare.c.3629798_d1
title: Additional file 2: Table S2. of Virulence genes of Rickettsia rickettsii are differentially modulated by either temperature upshift or blood-feeding in tick midgut and salivary glands

description: Transcriptional level of Rickettsia rickettsii genes in salivary glands of ticks exposed to temperature upshift, blood-feeding or both stimuli simultaneously. (XLSX 16 kb)
DOI: 10.6084/m9.figshare.c.3629720_d14
title: Additional file 4: of Quantitative CRISPR interference screens in yeast identify chemical-genetic interactions and new rules for guide RNA design

description: List of gRNAs, their target location, and target strand (template or non-template). (XLSX 81 kb)