cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.c.3634949_d5.v1
title: Additional file 3: Table S1. of Immunosenescence of the CD8+ T cell compartment is associated with HIV-infection, but only weakly reflects age-related processes of adipose tissue, metabolism, and muscle in antiretroviral therapy-treated HIV-infected patients and controls

description: Linear regression analyses for the effect of HIV-infection on CD8+ T cell maturation and differentiation. †Parameter was transformed using log2(x). Estimates and confidence intervals are back transformed using (2β-1) × 100, and shown as percent change in the outcome per unit increase of the covariate. The bold values are statistically significant at *P
DOI: 10.6084/m9.figshare.c.3634949_d7.v1
title: Additional file 4: Table S2. of Immunosenescence of the CD8+ T cell compartment is associated with HIV-infection, but only weakly reflects age-related processes of adipose tissue, metabolism, and muscle in antiretroviral therapy-treated HIV-infected patients and controls

description: Unadjusted and adjusted associations between CD8+ T cell subset sizes and ageing parameters in HIV+. Adjusted analyses are in grey. Age was adjusted for HIV-duration, ART-duration, and current ART; IL-6, suPAR, HOMA-IR, metabolic syndrome, VAT, and lLMI were adjusted for age, HIV-duration, ART-duration, and current ART. †Parameters were transformed using log2(x). Estimates and confidence intervals are back transformed using (2β-1) × 100, and shown as percent change in the outcome per unit increase of the covariate. The bold values are statistically significant at *P
DOI: 10.34770/bbxw-w128
title: Data for "Measurement of small island characteristics using high resolution ECE and CER at DIII-D"

description: Data for figures in "Measurement of small island characteristics
 using high resolution ECE and CER at DIII-D"
DOI: 10.6084/m9.figshare.c.3635060_d1.v1
title: Additional file 13: Table S10. of Structure and function of the healthy pre-adolescent pediatric gut microbiome

description: KEGG pathways differing in the functional metagenomic profiles of GI communities from healthy children and adults. Between-group differences were evaluated with Whiteâ  s non-parametric t-tests and Storeyâ  s false discovery rate corrections. (TIF 15.5 kb)
DOI: 10.6084/m9.figshare.c.3635060_d4.v1
title: Additional file 3: Table S3. of Structure and function of the healthy pre-adolescent pediatric gut microbiome

description: Subject and SRA sequence identifiers for the shotgun metagenomic sequence data used in this study. (XLSX 14.5 kb)
DOI: 10.6084/m9.figshare.c.3635060_d5.v1
title: Additional file 4: Table S4. of Structure and function of the healthy pre-adolescent pediatric gut microbiome

description: Sequence and assembly metrics for the shotgun metagenomic sequence libraries used in this study. (XLSX 23.0 kb)
DOI: 10.6084/m9.figshare.c.3635060_d6.v1
title: Additional file 11: Table S8. of Structure and function of the healthy pre-adolescent pediatric gut microbiome

description: Species abundances which differed in the WGS-based profiles of healthy child and adult GI communities. Between-group differences were evaluated with two-tailed Whiteâ  s non-parametric t-tests with Storeyâ  s FDR corrections. (XLSX 11.1 kb)
DOI: 10.6084/m9.figshare.c.3635060_d9.v1
title: Additional file 12: Table S9. of Structure and function of the healthy pre-adolescent pediatric gut microbiome

description: KEGG ortholog groups (KO) differing in the GI communities of healthy children and adults. Between-group differences were evaluated with two-tailed Whiteâ  s non-parametric t-tests with Storeyâ  s FDR corrections. N/A indicates KO without Enzyme Commission (EC) numbers. (TIF 155 kb)
DOI: 10.6084/m9.figshare.c.3635060_d13.v1
title: Additional file 2: Table S2. of Structure and function of the healthy pre-adolescent pediatric gut microbiome

description: Subject and SRA sequence identifiers for the 16S rRNA gene data (V3-V5 region) used in this study. (XLSX 18.5 kb)
DOI: 10.6084/m9.figshare.c.3635060_d14.v1
title: Additional file 9: Table S7. of Structure and function of the healthy pre-adolescent pediatric gut microbiome

description: Genera differing in the 16S profiles of healthy child and adult GI communities. Between-group differences were evaluated with two-tailed Whiteâ  s non-parametric t-tests with Storeyâ  s FDR corrections. (XLSX 14.6 kb)
DOI: 10.6084/m9.figshare.c.3635075_d2.v1
title: Additional file 3: of Efficient and biologically relevant consensus strategy for Parkinson’s disease gene prioritization

description: Details of the reduced gene set by using the mRMR software. (TXT 54 kb)
DOI: 10.6084/m9.figshare.c.3635153_d14.v1
title: Additional file 12: Table S9. of Mutational landscapes of tongue carcinoma reveal recurrent mutations in genes of therapeutic and prognostic relevance

description: Somatic mutations detected in the prevalence set (target-exome re-sequencing). (XLS 186 kb)
DOI: 10.6084/m9.figshare.c.3635153_d16.v1
title: Additional file 13: Table S10. of Mutational landscapes of tongue carcinoma reveal recurrent mutations in genes of therapeutic and prognostic relevance

description: List of significantly mutated pathways identified in OTSCC by GSEA pathway analysis or comparisons with well-recognized cancer-related pathways. (XLS 62 kb)
DOI: 10.6084/m9.figshare.c.3635156_d1.v1
title: Additional file 1: Table S1. of Vector competence of northern European Culex pipiens biotypes and hybrids for West Nile virus is differentially affected by temperature

description: Supporting data for experiment on incubation period until peak WNV titers. Table S2. Supporting data for experiment on vector competence of Cx. pipiens biotypes for WNV. (XLSX 73Â kb)
DOI: 10.6084/m9.figshare.c.3635306_d1.v1
title: Additional file 1: Table S1. of Environmental and anthropogenic factors affecting the probability of occurrence of Oncomegas wageneri (Cestoda: Trypanorhyncha) in the southern Gulf of Mexico

description: Geographic positions, the number of shoal flounders (Syacium gunteri) collected and the environmental variables recorded for each sampling site. The variables from Depth to Sigma-T were obtained from water, and those from Carbon % to Total hydro from sediments. PAHL and PAHH are polyaromatic hydrocarbons of low and high molecular weight respectively; Oxygen sat is oxygen saturation; pHW and pHS are pH values for water and sediment respectively; UCM is unresolved complex mixture and Total hydro is the sum of Total PAHs, Aliphatics and UCM. (XLSX 75 kb)
DOI: 10.6084/m9.figshare.c.3635324_d2.v1
title: Additional file 5: of FoCo: a simple and robust quantification algorithm of nuclear foci

description: Test image set. The test image set contains RGB and grayscale microscopy images of MRC-5 cells 1 hour after 2.5 Gy and 3 hours after 10 Gy irradiation and of non-irradiated MRC-5 cells. The included image of MRC-5 cells after 10 Gy irradiation (‘10Gy.tif’) was used for creating documentation for using FoCo. The user may use this image to verify if he/she is using the program correctly. (ZIP 1961 kb)
DOI: 10.6084/m9.figshare.c.3635324_d4.v1
title: Additional file 8: of FoCo: a simple and robust quantification algorithm of nuclear foci

description: Simulated foci images. We included simulated foci images from Fig. 4câ  d used as representative images for demonstrating automatic foci quantifications. (ZIP 23 kb)
DOI: 10.6084/m9.figshare.c.3635324_d7.v1
title: Additional file 2: of FoCo: a simple and robust quantification algorithm of nuclear foci

description: GUI FoCo with source code. (ZIP 69 kb)
DOI: 10.6084/m9.figshare.c.3635324_d6.v1
title: Additional file 6: of FoCo: a simple and robust quantification algorithm of nuclear foci

description: Source code for simulating foci images and analyzing with FoCo algorithm. The source code is written in Matlab. For simulating a foci image run the M-file ‘CreateAnalyzeArtificialImages.m’. (ZIP 5 kb)
DOI: 10.6084/m9.figshare.c.3635327_d6.v1
title: Additional file 6: of Smokeless tobacco and oral potentially malignant disorders in South Asia: a protocol for a systematic review

description: Data extraction spreadsheet. (XLSX 11 kb)
DOI: 10.6084/m9.figshare.c.3635330_d1.v1
title: Additional file 2: of Targeted association mapping demonstrating the complex molecular genetics of fatty acid formation in soybean

description: Description of population genetic statistics of 1205 SNP markers in 421 soybean accessions. (XLSX 130 kb)
DOI: 10.6084/m9.figshare.c.3635471_d4.v1
title: Additional file 9: of Male-specific association between MT-ND4 11719 A/G polymorphism and ulcerative colitis: a mitochondria-wide genetic association study

description: Data in aggregate form. (XLSX 16 kb)
DOI: 10.6084/m9.figshare.c.3635579_d1.v1
title: Additional file 4: of DMirNet: Inferring direct microRNA-mRNA association networks

description: The list of multi-cancer-related 44 miRNA-mRNA pairs. The putative novel multi-cancer-related pairs are coloured with yellow. (XLSX 12 kb)
DOI: 10.6084/m9.figshare.c.3635579_d2.v1
title: Additional file 1: of DMirNet: Inferring direct microRNA-mRNA association networks

description: Top1000 miRNA-mRNA association relationships for each dataset. (XLSX 59 kb)
DOI: 10.6084/m9.figshare.c.3635579_d3.v1
title: Additional file 2: of DMirNet: Inferring direct microRNA-mRNA association networks

description: Reconstructed miRNA-mRNA association networks and their key structures with top 500 miRNA-mRNA association relationships. The reconstructed network was visualized with Cytoscape and the key modular structure of the network was analysed using ModuLand. (XLSX 658 kb)
DOI: 10.6084/m9.figshare.c.3635579_d4.v1
title: Additional file 3: of DMirNet: Inferring direct microRNA-mRNA association networks

description: Functional analysis of reconstructed miRNA-mRNA association networks based on KEGG pathway. To interpret the functions of inferred miRNA-mRNA association network, related KEGG pathway in Top 500 and Top 1000 pairs were analysed using ClueGO (XLSX 1447 kb)
DOI: 10.6084/m9.figshare.c.3635588_d1.v1
title: Additional file 2: Table S2. of RNA-Seq analysis of Gtf2ird1 knockout epidermal tissue provides potential insights into molecular mechanisms underpinning Williams-Beuren syndrome

description: Gene ontology analysis performed with the BiNGO plug-in to Cytoscape. The lists of up-regulated and down-regulated genes were analysed for enrichment of gene ontology terms using BiNGO. The results are presented in this file. The results of gene ontology analysis for the DE transcription factors are also in this file. (XLSX 154 kb)
DOI: 10.6084/m9.figshare.c.3635588_d2.v1
title: Additional file 1: S1. of RNA-Seq analysis of Gtf2ird1 knockout epidermal tissue provides potential insights into molecular mechanisms underpinning Williams-Beuren syndrome

description: Differentially expressed genes found by edgeR. This file contains the analysis results for all genes tested by edgeR. (XLSX 1794 kb)
DOI: 10.6084/m9.figshare.c.3635588_d3.v1
title: Additional file 4: Table S4. (Tables S1â  S7) of RNA-Seq analysis of Gtf2ird1 knockout epidermal tissue provides potential insights into molecular mechanisms underpinning Williams-Beuren syndrome

description: Categorisation of Subsets of differentially expressed genes. This file includes tables of genes found to be differentially expressed which are involved in growth factor signalling (Table S1), cytokine signalling (Table S2), Wnt signalling (Table S3), Calcium signalling (Table S4), Cell cycle (Table S5), Hedgehog signalling (Table S6) and G protein-coupled signalling (Table S7). (XLSX 89 kb)
DOI: 10.6084/m9.figshare.c.3635588_d4.v1
title: Additional file 5: Table S5. of RNA-Seq analysis of Gtf2ird1 knockout epidermal tissue provides potential insights into molecular mechanisms underpinning Williams-Beuren syndrome

description: Searches for GTF2IRD1 interaction partners in the BioGRID and MetaCore databases. (XLSX 51 kb)
DOI: 10.6084/m9.figshare.c.3635588_d5.v1
title: Additional file 6: Table S6. of RNA-Seq analysis of Gtf2ird1 knockout epidermal tissue provides potential insights into molecular mechanisms underpinning Williams-Beuren syndrome

description: Primers used in RTqPCR validation. (XLSX 10 kb)
DOI: 10.6084/m9.figshare.c.3635588_d6.v1
title: Additional file 3: Table S3. of RNA-Seq analysis of Gtf2ird1 knockout epidermal tissue provides potential insights into molecular mechanisms underpinning Williams-Beuren syndrome

description: Gene set enrichment analysis using the GSEApreranked tool. The full results of the GSEA analysis for biological process and Kegg pathways are in this file. (XLSX 96 kb)
DOI: 10.6084/m9.figshare.c.3635597_d1.v1
title: Additional file 6: of An integrative analysis of small molecule transcriptional responses in the human malaria parasite Plasmodium falciparum

description: Small Molecule GO-networks. (XLSX 30 kb)
DOI: 10.6084/m9.figshare.c.3635597_d2.v1
title: Additional file 2: of An integrative analysis of small molecule transcriptional responses in the human malaria parasite Plasmodium falciparum

description: Gene Expression Data. (XLSX 6956 kb)
DOI: 10.6084/m9.figshare.c.3635699_d3.v1
title: MOESM3 of Tumor size, stage and grade alterations of urinary peptidome in RCC

description: Additional file 3: Table S3.   A) Peptides with a statistical significant (p
DOI: 10.6084/m9.figshare.c.3635699_d5.v1
title: MOESM4 of Tumor size, stage and grade alterations of urinary peptidome in RCC

description: Additional file 4: Table S4.   Peptides with a statistically significant (p &gt; 0.05) urinary abundance (m/z area) between pT1a and pT1b. Up/down refers to the over/under representation of the peptide in pT1b compared to pT1a patients.
DOI: 10.6084/m9.figshare.c.3635699_d4.v1
title: MOESM1 of Tumor size, stage and grade alterations of urinary peptidome in RCC

description: Additional file 1: Table S1.   Peptides with a statistically significant (p
DOI: 10.6084/m9.figshare.c.3635702_d1.v1
title: Additional file 18: Table S15. of CoSpliceNet: a framework for co-splicing network inference from transcriptomics data

description: ER-related transcripts identified in the set of 7960 differentially expressed transcripts. (XLSX 89Â kb)
DOI: 10.6084/m9.figshare.c.3635702_d3.v1
title: Additional file 4: Table S2. of CoSpliceNet: a framework for co-splicing network inference from transcriptomics data

description: List of 146 differentially expressed SRPs and their functional and other properties. (XLSX 86Â kb)
DOI: 10.6084/m9.figshare.c.3635702_d2.v1
title: Additional file 6: Table S3. of CoSpliceNet: a framework for co-splicing network inference from transcriptomics data

description: List of transcripts and their properties associated with each SRP in the eye-shaped co-expression network. (XLSX 585Â kb)
DOI: 10.6084/m9.figshare.c.3635702_d4.v1
title: Additional file 15: Table S12. of CoSpliceNet: a framework for co-splicing network inference from transcriptomics data

description: ER-related transcripts in the UPR-related co-splicing network. (XLSX 55Â kb)
DOI: 10.6084/m9.figshare.c.3635702_d6.v1
title: Additional file 7: Table S4. of CoSpliceNet: a framework for co-splicing network inference from transcriptomics data

description: List of 14 differentially expressed RBP transcripts. (XLSX 28Â kb)
DOI: 10.6084/m9.figshare.c.3635702_d5.v1
title: Additional file 14: Table S11. of CoSpliceNet: a framework for co-splicing network inference from transcriptomics data

description: Differentially spliced transcripts. (XLSX 65Â kb)
DOI: 10.6084/m9.figshare.c.3635702_d7.v1
title: Additional file 9: Table S6. of CoSpliceNet: a framework for co-splicing network inference from transcriptomics data

description: Co-splicing network of 2332 transcripts associated with 13 RBPs. (XLSX 1313Â kb)
DOI: 10.6084/m9.figshare.c.3635702_d8.v1
title: Additional file 16: Table S13. of CoSpliceNet: a framework for co-splicing network inference from transcriptomics data

description: IRE1A co-splicing network. (XLSX 82Â kb)
DOI: 10.6084/m9.figshare.c.3635702_d13.v1
title: Additional file 17: Table S14. of CoSpliceNet: a framework for co-splicing network inference from transcriptomics data

description: RBP-DR1 co-splicing network. (XLSX 134Â kb)
DOI: 10.6084/m9.figshare.c.3635702_d12.v1
title: Additional file 10: Table S7. of CoSpliceNet: a framework for co-splicing network inference from transcriptomics data

description: Significant associations between RBPs and their potential products. The R regions that do not have a significant motif were filtered using p-value cutoff of 0.05. The log(p-value) was used to weight the edges in the co-splicing network. (XLSX 213Â kb)
DOI: 10.6084/m9.figshare.c.3635702_d15.v1
title: Additional file 8: Table S5. of CoSpliceNet: a framework for co-splicing network inference from transcriptomics data

description: RBP-specific co-expression network. Association of 2646 differentially expressed transcripts that were co-expressed with 14 RBPs. (XLSX 511Â kb)
DOI: 10.6084/m9.figshare.c.3635702_d14.v1
title: Additional file 11: Table S8. of CoSpliceNet: a framework for co-splicing network inference from transcriptomics data

description: Enriched motifs in R regions of targets of each RBP. The motifs are shown as logos from the MEME analysis. (XLSX 2349Â kb)
DOI: 10.6084/m9.figshare.c.3635702_d16.v1
title: Additional file 12: Table S9. of CoSpliceNet: a framework for co-splicing network inference from transcriptomics data

description: Enriched motifs in R regions of targets of each RBP. The motifs are shown as regular expressions from the MEME analysis. (XLSX 50Â kb)
DOI: 10.6084/m9.figshare.c.3635702_d17.v1
title: Additional file 2: Table S1. of CoSpliceNet: a framework for co-splicing network inference from transcriptomics data

description: The set of 7960 differentially expressed transcripts in developing Arabidopsis embryos. Data related to expression values, clusters, coding potential, domains, and TAIR10 functional description are provided for each transcript. (XLSX 3712Â kb)
DOI: 10.6084/m9.figshare.c.3635702_d18.v1
title: Additional file 13: Table S10. of CoSpliceNet: a framework for co-splicing network inference from transcriptomics data

description: Position weight matrices of the motifs enriched in R regions of targets of each RBP. (TXT 22Â kb)
DOI: 10.6084/m9.figshare.c.3635708_d1.v1
title: Additional file 2 of An accurate test for homogeneity of odds ratios based on Cochranâ  s Q-statistic

description: Additional R subroutines for computing the homogeneity test Q Îł .
DOI: 10.15468/dl.qcutef
title: Occurrence Download

description: A dataset containing 495 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Cichla kelberi Kullander & Ferreira, 2006"
 ]
}

 The dataset includes 495 records from 18 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0037974-241126133413365/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.4yrmnr
title: Occurrence Download

description: A dataset containing 21 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((159.15836 53.93384,160.36024 53.93384,160.36024 54.60975,159.15836 54.60975,159.15836 53.93384))",
 "HasGeospatialIssue is false",
 "TaxonKey is Ursus Linnaeus, 1758"
 ]
}

 The dataset includes 21 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0037975-241126133413365/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.3635816_d1.v1
title: Additional file 1: of The importance of distinguishing between the odds ratio and the incidence rate ratio in GWAS

description: The R code for simulations. (ZIP 2.06 kb)
DOI: 10.6084/m9.figshare.c.3635822_d1.v1
title: Additional file 5: of Transcriptome profiling of two olive cultivars in response to infection by the CoDiRO strain of Xylella fastidiosa subsp. pauca

description: Differentially expressed transcripts between healthy cv. Leccino and Ogliarola salentina plants. (XLSX 29Â kb)
DOI: 10.6084/m9.figshare.c.3635822_d3.v1
title: Additional file 7: of Transcriptome profiling of two olive cultivars in response to infection by the CoDiRO strain of Xylella fastidiosa subsp. pauca

description: GO enrichment analysis of the 512 DEGs between Xfp-infected cv. Leccino and Ogliarola salentina plants. (XLSX 294Â kb)
DOI: 10.6084/m9.figshare.c.3635822_d5.v1
title: Additional file 3: of Transcriptome profiling of two olive cultivars in response to infection by the CoDiRO strain of Xylella fastidiosa subsp. pauca

description: Differentially expressed transcripts in cv. Leccino infected by Xylella fastidiosa. Each unique transcript is categorized by Mercator and Log2 fold expression values calculated by DESeq2 analysis. Transcript categorization was further verified by BLASTX search against the non-redundant protein database. Up- and down-regulated transcripts are in separate excel sheets. (XLSX 138Â kb)
DOI: 10.6084/m9.figshare.c.3635822_d4.v1
title: Additional file 9: of Transcriptome profiling of two olive cultivars in response to infection by the CoDiRO strain of Xylella fastidiosa subsp. pauca

description: Oligonucleotides of selected target and reference genes. Transcripts used for design and corresponding lengths are reported. Categorization of transcripts by BLASTX against the NCBI non-redundant protein sequences database, BLASTN against the Transcriptome Shotgun Assembly databases and orthologous A. thaliana genes are indicated. (XLSX 21Â kb)
DOI: 10.6084/m9.figshare.c.3635822_d8.v1
title: Additional file 6: of Transcriptome profiling of two olive cultivars in response to infection by the CoDiRO strain of Xylella fastidiosa subsp. pauca

description: Differentially expressed transcripts in comparison of cv Leccino vs Ogliarola salentina infected by Xylella fastidiosa. Each unique transcript is categorized by MapMan and Log2Fold expression values calculated by DESeq2 analysis. Transcript categorization was further verified by BLASTX search against nr database. Up- and down-regulated transcripts of both cultivars are in separate excel sheets. (XLSX 10197Â kb)
DOI: 10.6084/m9.figshare.c.3635822_d7.v1
title: Additional file 10: of Transcriptome profiling of two olive cultivars in response to infection by the CoDiRO strain of Xylella fastidiosa subsp. pauca

description: ANOVA one-way comparing the expression levels of selected transcripts obtained by RT-qPCR among the four groups (LC_H, LC_X, OG_H, OG_X). Post hoc multiple comparisons using the Tukey HSD test of individual averages of expression levels. A p-value lower than 0.05 (in bold) indicates that expression levels of single transcripts are significantly different. Significance level was set at 5 % (α = 0.05) for F- and p-values. Df indicates the degree of freedom between groups. (XLS 48 kb)
DOI: 10.6084/m9.figshare.c.3635822_d10.v1
title: Additional file 4: of Transcriptome profiling of two olive cultivars in response to infection by the CoDiRO strain of Xylella fastidiosa subsp. pauca

description: Differentially expressed transcripts in cv Ogliarola salentina infected by Xylella fastidiosa. Each unique transcript is categorized by MapMan and Log2 fold expression values calculated by DESeq2 analysis. Transcript categorization was further verified by BLASTX search against nr database. Up- and down-regulated transcripts are in separate excel sheets. (XLSX 10155Â kb)
DOI: 10.6084/m9.figshare.c.3635846_d1.v1
title: Additional file 1: Figure S1. of Carriers of human mitochondrial DNA macrohaplogroup M colonized India from southeastern Asia

description: Phylogenetic tree of M complete sequences from this study. (XLSX 66 kb)