cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.c.3625103_d1
title: Additional file 1: Table S1. of Clinical significance of the expression of autophagy-associated marker, beclin 1, in breast cancer patients who received neoadjuvant endocrine therapy

description: All the data supporting the conclusion in this paper. (XLS 48Â kb)
DOI: 10.6084/m9.figshare.c.3625088_d3
title: Additional file 12: Table S9. of Identification, characterization, and gene expression analysis of nucleotide binding site (NB)-type resistance gene homologues in switchgrass

description: List of 338 genes that were identified to be expressed in both ‘Alamo’ and ‘Dacotah’. Table S9 lists the gene IDs for the 338 genes that were identified to be expressed in both ‘Alamo’ and ‘Dacotah’. Also listed in this table is the mean reads for each cultivar, which is the average number of reads of three biological replicates mapping to the gene. A gene was considered expressed if 5 or more reads mapped to it. (XLSX 19 kb)
DOI: 10.6084/m9.figshare.c.3625127_d3
title: Additional file 1: Table S1. of RNA-Seq analysis of seasonal and individual variation in blood transcriptomes of healthy managed bottlenose dolphins

description: All globin depleted samples and associated physical or hematological parameters measured. (XLS 43Â kb)
DOI: 10.6084/m9.figshare.c.3625088_d10
title: Additional file 5: Table S4. of Identification, characterization, and gene expression analysis of nucleotide binding site (NB)-type resistance gene homologues in switchgrass

description: List of 104 switchgrass RGHs that were predicted to contain a NLS using NLStradamus. Table S4 contains a list of 104 switchgrass RGH protein IDs that were predicted to contain a NLS using NLStradamus. This list also details the algorithm of NLStradamus used to predict the NLS and the score, the length of the switchgrass RGH amino acid sequence, the amino acid start and stop position of the NLS, and the putative NLS sequence. (XLSX 17 kb)
DOI: 10.6084/m9.figshare.c.3625127_d4
title: Additional file 4: Table S4. of RNA-Seq analysis of seasonal and individual variation in blood transcriptomes of healthy managed bottlenose dolphins

description: Gene co-expression modules with significant correlation to measured traits. (XLS 427Â kb)
DOI: 10.6084/m9.figshare.c.3625595_d6
title: Additional file 19: of Dynamic transcriptome profiling of Bean Common Mosaic Virus (BCMV) infection in Common Bean (Phaseolus vulgaris L.)

description: Differentially-expressed genes for BCMV-S2 at 8Â days after infection. (ZIP 66Â kb)
DOI: 10.6084/m9.figshare.c.3625607_d6
title: Additional file 6: of Effects of variable practice on the motor learning outcomes in manual wheelchair propulsion

description: Complete data set. (XLS 106 kb)
DOI: 10.6084/m9.figshare.c.3625619_d1
title: Additional file 6: of Global identification and analysis of long non-coding RNAs in diploid strawberry Fragaria vesca during flower and fruit development

description: The sequences of 335 unigenes in the .fasta format. (FASTA 223 kb)
DOI: 10.6084/m9.figshare.c.3625595_d7
title: Additional file 16 of Dynamic transcriptome profiling of Bean Common Mosaic Virus (BCMV) infection in Common Bean (Phaseolus vulgaris L.)

description: Significant alternate-splice transcripts for BCMV-S2 at 8Â days after infection. (ZIP 37Â kb)
DOI: 10.6084/m9.figshare.c.3625619_d2
title: Additional file 2: of Global identification and analysis of long non-coding RNAs in diploid strawberry Fragaria vesca during flower and fruit development

description: The descriptions and mapping statistics of the 74 samples. (XLSX 16 kb)
DOI: 10.6084/m9.figshare.c.3625595_d8
title: Additional file 22: of Dynamic transcriptome profiling of Bean Common Mosaic Virus (BCMV) infection in Common Bean (Phaseolus vulgaris L.)

description: Genes in clusters determined by normalized expression values from the DE genes in each virus treatment. (ZIP 20Â kb)
DOI: 10.6084/m9.figshare.c.3625610_d4
title: Additional file 2: of Evaluation of whole-genome sequencing of four Chinese crested dogs for variant detection using the ion proton system

description: PI chip productivity and per base quality scores. Table describing the yield and base quality of eight sequencing chips. (XLSX 40ย�kb)
DOI: 10.6084/m9.figshare.c.3625619_d3
title: Additional file 4: of Global identification and analysis of long non-coding RNAs in diploid strawberry Fragaria vesca during flower and fruit development

description: The annotation file of 5,884 lncRNAs in the .gtf format (cufflink output). (GTF 3031 kb)
DOI: 10.6084/m9.figshare.c.3625595_d9
title: Additional file 9: of Dynamic transcriptome profiling of Bean Common Mosaic Virus (BCMV) infection in Common Bean (Phaseolus vulgaris L.)

description: Variants from NL1I reads on the NL1I genome assembly. Variant-call-format file, showing single-nucleotide variants within the NL1I genome. (ZIP 3Â kb)
DOI: 10.6084/m9.figshare.c.3625619_d4
title: Additional file 5: of Global identification and analysis of long non-coding RNAs in diploid strawberry Fragaria vesca during flower and fruit development

description: Annotations of the 5,884 lncRNAs. (XLSX 336 kb)
DOI: 10.6084/m9.figshare.c.3625619_d11
title: Additional file 8: of Global identification and analysis of long non-coding RNAs in diploid strawberry Fragaria vesca during flower and fruit development

description: Categories of the 5,884 lncRNAs classified by expression level, repetitive sequences, and small RNAs. (XLSX 1624 kb)
DOI: 10.6084/m9.figshare.c.3625595_d15
title: Additional file 18: of Dynamic transcriptome profiling of Bean Common Mosaic Virus (BCMV) infection in Common Bean (Phaseolus vulgaris L.)

description: Differentially-expressed genes for NL1-I at 8Â days after infection. (ZIP 139Â kb)
DOI: 10.6084/m9.figshare.c.3625619_d12
title: Additional file 14: of Global identification and analysis of long non-coding RNAs in diploid strawberry Fragaria vesca during flower and fruit development

description: LncRNAs in Malus. (FASTA 2792 kb)
DOI: 10.6084/m9.figshare.c.3626069_d4
title: Additional file 6: of Analysis of breast milk fatty acid composition using dried milk samples

description: Datasets. (XLSX 261Â kb)
DOI: 10.6084/m9.figshare.c.3626081_d5
title: Additional file 4: Table S3. of DNA hypermethylation and decreased mRNA expression of MAL, PRIMA1, PTGDR and SFRP1 in colorectal adenoma and cancer

description: Summary of gene expression and DNA methylation data. (XLS 49 kb)
DOI: 10.6084/m9.figshare.c.3626099_d2
title: Additional file 1: of Root morphology and seed and leaf ionomic traits in a Brassica napus L. diversity panel show wide phenotypic variation and are characteristic of crop habit

description: Supplementary tables. A collection of tables containing a variety of extra data including raw data gathered in the experiments, limits of detection calculations, data used for analyses of traits, and data used for generation of some of the figures. Also included is a detailed ouput from variance components analysis and a list of the abbreviations used across the tables. (XLSX 1324 kb)
DOI: 10.6084/m9.figshare.c.3626552_d6
title: Additional file 6: Table S5. of Reciprocal changes in DNA methylation and hydroxymethylation and a broad repressive epigenetic switch characterize FMR1 transcriptional silencing in fragile X syndrome

description: This table summarizes linear regression analyses (p value, RSq, R) for the indicated molecular assay (5mC, 5hmC, histone PTMs). (XLSX 128Â kb)
DOI: 10.6084/m9.figshare.c.3626552_d8
title: Additional file 11: Table S4. of Reciprocal changes in DNA methylation and hydroxymethylation and a broad repressive epigenetic switch characterize FMR1 transcriptional silencing in fragile X syndrome

description: This table summarizes the values from the statistical analyses (mean, SD, SEM, p value) for each sample groups (control and FXS) for each epigenetic readout (5mC, 5hmC, histone PTMs). (XLSX 15Â kb)
DOI: 10.6084/m9.figshare.c.3626552_d10
title: Additional file 8: Table S6. of Reciprocal changes in DNA methylation and hydroxymethylation and a broad repressive epigenetic switch characterize FMR1 transcriptional silencing in fragile X syndrome

description: This table summarizes the results of linear regression analyses and the Spearman correlation (p value, RSq, R) looking at the relationship between the ABC-C score and the indicated epigenetic readouts (5mC, 5hmC, histone PTMs). (XLSX 16Â kb)
DOI: 10.6084/m9.figshare.c.3627116_d5
title: Additional file 6: of Dhurrin metabolism in the developing grain of Sorghum bicolor (L.) Moench investigated by metabolite profiling and novel clustering analyses of time-resolved transcriptomic data

description: Overview of the sorghum GSTs and UGTs found in our analysis, with class specification, domain information and full-length sequence. Also included are Genebank annotations and full-length sequences used for the different analyses. (XLSX 551 kb)
DOI: 10.6084/m9.figshare.c.3627146_d1
title: MOESM5 of Genetic associations with micronutrient levels identified in immune and gastrointestinal networks

description: Met_PC1 genes mapping to quantitative trait loci (Figure 8 ) (XLSX 1090Â kb)
DOI: 10.6084/m9.figshare.c.3627146_d2
title: MOESM3 of Genetic associations with micronutrient levels identified in immune and gastrointestinal networks

description: Genewise analysis of SNPs associated with met_PC1 (FigureÂ 6) (XLSX 425Â kb)
DOI: 10.6084/m9.figshare.c.3627152_d1
title: Additional file 1: of Mental health literacy measures evaluating knowledge, attitudes and help-seeking: a scoping review

description: Supplementary files contain an example of search strategies in PubMed, and supplementary references of studies that applied mental health literacy measures but did not provide related psychometrics information. (ZIP 97 kb)
DOI: 10.6084/m9.figshare.c.3627146_d3
title: MOESM2 of Genetic associations with micronutrient levels identified in immune and gastrointestinal networks

description: Significant SNPs associated with Met_PC1. (XLSX 390Â kb)
DOI: 10.6084/m9.figshare.c.3627182_d3
title: Additional file 1: of Stringent comparative sequence analysis reveals SOX10 as a putative inhibitor of glial cell differentiation

description: Monomeric SOX10 consensus sequences in the human genome provided as a UCSC Human Genome Browser (hg18) custom track. The fourth column (‘name’) shows the predicted SOX10 binding site sequence. (ZIP 222208 kb)
DOI: 10.6084/m9.figshare.c.3627593_d4
title: Additional file 3: of Patterns of livestock activity on heterogeneous subalpine pastures reveal distinct responses to spatial autocorrelation, environment and management

description: Contains example R code for the spatial regression with INLA. (TXT 2 kb)
DOI: 10.6084/m9.figshare.c.3627626_d1
title: Additional file 4: Table S2. of Salivary DNA methylation panel to diagnose HPV-positive and HPV-negative head and neck cancers

description: Methylation ratio data file. The raw data generated for this study. Each table contains the band intensity ratio of methylated to unmethylated MSP. The file contains the methylation ratio of RASSF1Îą, p16 INK4a , TIMP3 and PCQAP for normal healthy controls and HPV-negative and HPV-positive HNSCC patients used in this study. (XLSX 31 kb)
DOI: 10.6084/m9.figshare.c.3627626_d2
title: Additional file 2: Table S1. of Salivary DNA methylation panel to diagnose HPV-positive and HPV-negative head and neck cancers

description: The Cancer Genome Atlas data file. The raw data extracted from The Cancer Genome Atlas (TCGA) database, containing the methylation signature information for RASSF1Îą, TIMP3 and PCQAP in HNSCC and normal tissues. (XLSX 101 kb)
DOI: 10.6084/m9.figshare.c.3627827_d12
title: MOESM6 of Maintenance-energy requirements and robustness of Saccharomyces cerevisiae at aerobic near-zero specific growth rates

description: Additional file 6. See Additional file 5 caption.
DOI: 10.6084/m9.figshare.c.3627827_d14
title: MOESM7 of Maintenance-energy requirements and robustness of Saccharomyces cerevisiae at aerobic near-zero specific growth rates

description: Additional file 7. See Additional file 5 caption.
DOI: 10.6084/m9.figshare.c.3627881_d4
title: Additional file 2: Table S1. of A mutation in the low voltage-gated calcium channel CACNA1G alters the physiological properties of the channel, causing spinocerebellar ataxia

description: Summary of exome sequencing. (XLSX 42Â kb)
DOI: 10.15468/dl.magdtd
title: Occurrence Download

description: A dataset containing 86521 species occurrences available in GBIF matching the query:
{
 "and" : [
 "GadmGid is USA.5_1",
 "Geometry POLYGON((-119.68219 32.435,-117.76332 32.88441,-116.92652 33.56029,-117.59019 34.35012,-117.6479 35.17976,-119.46578 34.97905,-120.43243 34.21899,-120.418 32.96918,-119.68219 32.435))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Gastropoda"
 ]
}

 The dataset includes 86521 records from 73 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0034121-241126133413365/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.3628178_d2
title: Additional file 3: of Integrative genomic deconvolution of rheumatoid arthritis GWAS loci into gene and cell type associations

description: Contains the trans-eQTLs with FDR &lt;5Â %. (TXT 1275 kb)
DOI: 10.6084/m9.figshare.c.3628187_d1
title: Additional file 4: of A De-Novo Genome Analysis Pipeline (DeNoGAP) for large-scale comparative prokaryotic genomics studies

description: List of predicted InterPro annotation and their frequency in predicted ortholog families. (XLSX 125Â kb)
DOI: 10.6084/m9.figshare.c.3628187_d2
title: Additional file 3: of A De-Novo Genome Analysis Pipeline (DeNoGAP) for large-scale comparative prokaryotic genomics studies

description: List of genomes used for development and testing of the DeNoGAP pipeline. (XLSX 25Â kb)
DOI: 10.6084/m9.figshare.c.3628391_d3
title: MOESM1 of Prevalence and risk factors for overweight horses at premises in Sweden assessed using official animal welfare control data

description: Additional file 1: Table S1. Premises characteristics associated with overweight horses.
DOI: 10.6084/m9.figshare.c.3628406_d1
title: Additional file 7: of Detailed phenotyping identifies genes with pleiotropic effects on body composition

description: The signed t-values of SNP effects (450,001 to 510,174 in â  chromosome: positionâ   order) for the 56 traits used in multi-trait, meta-analysis. (GZ 12388Â kb)
DOI: 10.6084/m9.figshare.c.3628406_d2
title: Additional file 6: of Detailed phenotyping identifies genes with pleiotropic effects on body composition

description: The signed t-values of SNP effects (300,001 to 450,000 in â  chromosome: positionâ   order) for the 56 traits used in multi-trait, meta-analysis. (GZ 30638Â kb)
DOI: 10.6084/m9.figshare.c.3628415_d1
title: Additional file 2: Figure S2. of An 8-gene mRNA expression profile in circulating tumor cells predicts response to aromatase inhibitors in metastatic breast cancer patients

description: Kaplan-Meier curve as defined by CTC count for the total cohort of 78 patients. Blue (0): &lt;5 CTCs at baseline; red (1): â Ľ5 CTCs at baseline. (XLSX 15Â kb)
DOI: 10.6084/m9.figshare.c.3628397_d6
title: Additional file 5: of A transposable element insertion in the susceptibility gene CsaMLO8 results in hypocotyl resistance to powdery mildew in cucumber

description: Complete overview of putative LTRs and putative TEs homologous to the TE identified in CsaMLO8. (XLSX 27Â kb)
DOI: 10.6084/m9.figshare.c.3628406_d4
title: Additional file 4: of Detailed phenotyping identifies genes with pleiotropic effects on body composition

description: The signed t-values of SNP effects (1 to 150,000 in â  chromosome: positionâ   order) for the 56 traits used in multi-trait, meta-analysis. (GZ 30545Â kb)
DOI: 10.6084/m9.figshare.c.3628646_d2
title: MOESM3 of Conserved and highly expressed tRNA derived fragments in zebrafish

description: Additional file 3: Table S1. Sequencing data relative to zebrafish tRFs found in publicly available GEO datasets. For each experiment the sequences of conserved tRFs identified and corresponding number of reads are displayed. ID corresponds to the tRF identification; “Query” corresponds to the zebrafish tRF that was used as a template to search for similar molecules in the datasets; “Sequence” corresponds to the sequence found in the datasets that is related to the “query”; “Count” gives the total number of reads retrieved for each “sequence”; “Source tag” is the GEO dataset sample ID number; “description” depicts the type of sample where the tRF was found.
DOI: 10.6084/m9.figshare.c.3628931_d3
title: Additional file 2: Table S2. of Colorectal Carcinogenesis in the A/J Min/+ Mouse Model is Inhibited by Hemin, Independently of Dietary Fat Content and Fecal Lipid Peroxidation Rate

description: Dataset. Number, average size and load of intestinal lesions, fecal TBARS and fecal water content, body weight and daily food intake. (XLS 86 kb)
DOI: 10.6084/m9.figshare.c.3628955_d1
title: MOESM1 of Transfection of Sertoli cells with androgen receptor alters gene expression without androgen stimulation

description: Addtional file 1: Table S1. Contains raw data (Cq values of reference and target genes) of quantitative RT-PCR analysis.
DOI: 10.6084/m9.figshare.c.3629180_d5
title: Additional file 1 of Meta-analytic estimation of measurement variability and assessment of its impact on decision-making: the case of perioperative haemoglobin concentration monitoring

description: Stan implementation of the meta-analytic model. (STAN 7.66 kb)
DOI: 10.6084/m9.figshare.c.3629204_d1
title: Additional file 1: of Neurocognitive profile in major depressive disorders: relationship to symptom level and subjective memory complaints

description: Mohn Rund BMC Psych 2016. (XLSX 15 kb)
DOI: 10.6084/m9.figshare.c.3629198_d3
title: Additional file 1: Table S1. of Loss of DNA methylation at imprinted loci is a frequent event in hepatocellular carcinoma and identifies patients with shortened survival

description: Compilation of all p values for all statistical calculations performed for the data displayed in Fig. 1.
DOI: 10.6084/m9.figshare.c.3629198_d6
title: Additional file 5: Figure S4. of Loss of DNA methylation at imprinted loci is a frequent event in hepatocellular carcinoma and identifies patients with shortened survival

description: DNA methylation analysis at imprinted loci in HCA, FNH, the adjacent liver tissues, and healthy liver samples.
DOI: 10.6084/m9.figshare.c.3629219_d1
title: Additional file 1: of Correlation of the lung microbiota with metabolic profiles in bronchoalveolar lavage fluid in HIV infection

description: Bal public dataset. (XLSX 12Â kb)
DOI: 10.6084/m9.figshare.c.3629417_d3
title: Additional file 1: Table S1. of Gene family expansions and contractions are associated with host range in plant pathogens of the genus Colletotrichum

description: List of Colletotrichum strains used for the phylogeny shown in Additional file 2: Figure S1, indicating their species designation, complex, strain ID and Genbank accession numbers of the sequences retrieved and used for phylogenetic analyses. Strains included in genome sequence projects are highlighted in bold. (XLSX 67 kb)
DOI: 10.6084/m9.figshare.c.3629417_d4
title: Additional file 4: Table S3. of Gene family expansions and contractions are associated with host range in plant pathogens of the genus Colletotrichum

description: Number of secreted CAZyme modules determined according to the CAZy database ( http://www.cazy.org/ ) [50, 52]. (XLSX 21 kb)
DOI: 10.6084/m9.figshare.c.3629417_d5
title: Additional file 3: Table S2. of Gene family expansions and contractions are associated with host range in plant pathogens of the genus Colletotrichum

description: InterPro functional domains associated with the proteomes and secretomes of fungal genomes used in this study. (XLSX 645 kb)
DOI: 10.6084/m9.figshare.c.3629417_d6
title: Additional file 6: Table S4. of Gene family expansions and contractions are associated with host range in plant pathogens of the genus Colletotrichum

description: Numbers of extracellular secreted protease homologs classified according to the MEROPS database 10.0 [45] in Colletotrichum and other fungal genomes used in this study. (XLSX 14 kb)
DOI: 10.6084/m9.figshare.c.3629678_d3
title: Additional file 2: of Discovery and replication of a peripheral tissue DNA methylation biosignature to augment a suicide prediction model

description: Title: GenRED Offspring Saliva Cortisol Associated Probes. Description: Table containing all probes nominally associated with AUC weekday cortisol in the GenRED Offspring saliva cohort (Nâ  =â  20) with the corresponding regression coefficient (Î˛) and p-value. (XLSX 958 kb)
DOI: 10.6084/m9.figshare.c.3629678_d4
title: Additional file 1: of Discovery and replication of a peripheral tissue DNA methylation biosignature to augment a suicide prediction model

description: Title: GenRED Offspring Blood Cortisol Associated Probes. Description: Table containing all probes nominally associated with AUC weekday cortisol in the GenRED Offspring blood cohort (Nâ  =â  18) with the corresponding regression coefficient (Î˛) and p-value. (XLSX 860 kb)
DOI: 10.6084/m9.figshare.c.3629714_d2
title: Additional file 2: Table S2. of DNA methylation and hormone receptor status in breast cancer

description: Correlation between the level of methylation and gene expression as determined by Pearson correlation coefficient (PCC). (XLSX 518Â kb)
DOI: 10.6084/m9.figshare.c.3629720_d1
title: Additional file 15: of Quantitative CRISPR interference screens in yeast identify chemical-genetic interactions and new rules for guide RNA design

description: Nucleosome occupancy scores of gRNA target regions based on tiling array analysis. (XLSX 49 kb)
DOI: 10.6084/m9.figshare.c.3629723_d1
title: MOESM1 of Phenotypic characterization and comparative transcriptomics of evolved Saccharomyces cerevisiae strains with improved tolerance to lignocellulosic derived inhibitors

description: Additional file 1: Table S1. Transcriptional analysis dataset of strains GHP1 and GHP4 in the absence and presence of inhibitory compounds. Annotation and fold change calculation from FPKM values.
DOI: 10.6084/m9.figshare.c.3629891_d6
title: Additional file 3: of Genome-wide association and genomic prediction of breeding values for fatty acid composition in subcutaneous adipose and longissimus lumborum muscle of beef cattle

description: List of significant single nucleotide polymorphisms (SNP) for 81 fatty acid composition traits in longissimus lumborum muscle (LL). Results include trait name, SNP name, chromosome, position on the UMD3.1 genome assembly, alleles, allele substitution effect, percentage of total genetic variance explained, and posterior probability of inclusion of SNP. (CSV 27 kb)
DOI: 10.6084/m9.figshare.c.3629918_d2
title: Additional file 2: of Genome-wide survey and phylogeny of S-Ribosylhomocysteinase (LuxS) enzyme in bacterial genomes

description: Table showing Taxonomic distribution of LuxS sequences in bacteria. (XLSX 38 kb)
DOI: 10.6084/m9.figshare.c.3629918_d3
title: Additional file 9: of Genome-wide survey and phylogeny of S-Ribosylhomocysteinase (LuxS) enzyme in bacterial genomes

description: Folder containing homology models of LuxS proteins of Borrelia burgdorferi (Cluster-1), Amphibacillus jilinensis (Cluster-2), Lactobacillus plantarum (Cluster-3), Truepera radiovictrix (Cluster-4) and Vibrio harveyi (Cluster-5); Multiple structural alignment of homology models; Sieved structure of LuxS protein of B. subtilis against 0.8Ă threshold from the multiple structural alignment. (ZIP 677 kb)
DOI: 10.6084/m9.figshare.c.3629951_d1
title: MOESM1 of Malaria prevalence in Bata district, Equatorial Guinea: a cross-sectional study

description: Additional file1: Table 1. Prevalence of Plasmodium infection by age group and setting, Bata district, Equatorial Guinea, June – August 2013.