cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.9637604
title: Additional file 1: of Genome-wide transcriptomic analysis of a desert willow, Salix psammophila, reveals the function of hub genes SpMDP1 and SpWRKY33 in drought tolerance

description: Output statistics of RNA-Sequencing. (XLSX 11 kb)
DOI: 10.6084/m9.figshare.9637604.v1
title: Additional file 1: of Genome-wide transcriptomic analysis of a desert willow, Salix psammophila, reveals the function of hub genes SpMDP1 and SpWRKY33 in drought tolerance

description: Output statistics of RNA-Sequencing. (XLSX 11 kb)
DOI: 10.6084/m9.figshare.9637610
title: Additional file 3: of Genome-wide transcriptomic analysis of a desert willow, Salix psammophila, reveals the function of hub genes SpMDP1 and SpWRKY33 in drought tolerance

description: GO enrichment analysis of all DEGs. (XLSX 82 kb)
DOI: 10.6084/m9.figshare.9637610.v1
title: Additional file 3: of Genome-wide transcriptomic analysis of a desert willow, Salix psammophila, reveals the function of hub genes SpMDP1 and SpWRKY33 in drought tolerance

description: GO enrichment analysis of all DEGs. (XLSX 82 kb)
DOI: 10.6084/m9.figshare.9637613
title: Additional file 4: of Genome-wide transcriptomic analysis of a desert willow, Salix psammophila, reveals the function of hub genes SpMDP1 and SpWRKY33 in drought tolerance

description: KEGG enrichment analysis of all DEGs. (XLSX 14 kb)
DOI: 10.6084/m9.figshare.9637613.v1
title: Additional file 4: of Genome-wide transcriptomic analysis of a desert willow, Salix psammophila, reveals the function of hub genes SpMDP1 and SpWRKY33 in drought tolerance

description: KEGG enrichment analysis of all DEGs. (XLSX 14 kb)
DOI: 10.6084/m9.figshare.9637616
title: Additional file 5: of Genome-wide transcriptomic analysis of a desert willow, Salix psammophila, reveals the function of hub genes SpMDP1 and SpWRKY33 in drought tolerance

description: GO enrichment analysis of nine clusters. (XLSX 45 kb)
DOI: 10.6084/m9.figshare.9637616.v1
title: Additional file 5: of Genome-wide transcriptomic analysis of a desert willow, Salix psammophila, reveals the function of hub genes SpMDP1 and SpWRKY33 in drought tolerance

description: GO enrichment analysis of nine clusters. (XLSX 45 kb)
DOI: 10.6084/m9.figshare.9637619
title: Additional file 6: of Genome-wide transcriptomic analysis of a desert willow, Salix psammophila, reveals the function of hub genes SpMDP1 and SpWRKY33 in drought tolerance

description: The genes in co-expression network. (XLSX 30 kb)
DOI: 10.6084/m9.figshare.9637619.v1
title: Additional file 6: of Genome-wide transcriptomic analysis of a desert willow, Salix psammophila, reveals the function of hub genes SpMDP1 and SpWRKY33 in drought tolerance

description: The genes in co-expression network. (XLSX 30 kb)
DOI: 10.6084/m9.figshare.9637622
title: Additional file 7: of Genome-wide transcriptomic analysis of a desert willow, Salix psammophila, reveals the function of hub genes SpMDP1 and SpWRKY33 in drought tolerance

description: The co-expressed genes with SpMDP1. (XLSX 31 kb)
DOI: 10.6084/m9.figshare.9637622.v1
title: Additional file 7: of Genome-wide transcriptomic analysis of a desert willow, Salix psammophila, reveals the function of hub genes SpMDP1 and SpWRKY33 in drought tolerance

description: The co-expressed genes with SpMDP1. (XLSX 31 kb)
DOI: 10.6084/m9.figshare.9637625
title: Additional file 8: of Genome-wide transcriptomic analysis of a desert willow, Salix psammophila, reveals the function of hub genes SpMDP1 and SpWRKY33 in drought tolerance

description: The co-expressed genes with SpWRKY33. (XLSX 10 kb)
DOI: 10.6084/m9.figshare.9637625.v1
title: Additional file 8: of Genome-wide transcriptomic analysis of a desert willow, Salix psammophila, reveals the function of hub genes SpMDP1 and SpWRKY33 in drought tolerance

description: The co-expressed genes with SpWRKY33. (XLSX 10 kb)
DOI: 10.6084/m9.figshare.9637628
title: Additional file 9: of Genome-wide transcriptomic analysis of a desert willow, Salix psammophila, reveals the function of hub genes SpMDP1 and SpWRKY33 in drought tolerance

description: The primers of eight hub genes and co-expressed genes used in qRT-PCR analysis. (XLSX 12 kb)
DOI: 10.6084/m9.figshare.9637628.v1
title: Additional file 9: of Genome-wide transcriptomic analysis of a desert willow, Salix psammophila, reveals the function of hub genes SpMDP1 and SpWRKY33 in drought tolerance

description: The primers of eight hub genes and co-expressed genes used in qRT-PCR analysis. (XLSX 12 kb)
DOI: 10.6084/m9.figshare.13297128.v1
title: Additional file 7 of Molecular convergent and parallel evolution among four high-elevation anuran species from the Tibetan region

description: Additional file 7: Table S6. List of amino acid sites that were subjected to positive selection.
DOI: 10.6084/m9.figshare.19588548
title: Additional file 1 of Increased COVID-19 mortality rate in rare disease patients: a retrospective cohort study in participants of the Genomics England 100,000 Genomes project

description: Additional file 1: Table S2. Lists of ICD-10 codes for comorbidities associated to COVID-19
DOI: 10.6084/m9.figshare.13297149
title: Additional file 4 of Apoptotic bodies derived from mesenchymal stem cells promote cutaneous wound healing via regulating the functions of macrophages

description: Additional file 4. Additional Tables 1–7 Data tables summarizing the mean and standard deviation of the data obtained.
DOI: 10.6084/m9.figshare.13297107
title: Additional file 10 of Molecular convergent and parallel evolution among four high-elevation anuran species from the Tibetan region

description: Additional file 10: Table S9. Results from enrichment analysis of fast evolving genes (FEGs).
DOI: 10.6084/m9.figshare.13297128
title: Additional file 7 of Molecular convergent and parallel evolution among four high-elevation anuran species from the Tibetan region

description: Additional file 7: Table S6. List of amino acid sites that were subjected to positive selection.
DOI: 10.6084/m9.figshare.13297134
title: Additional file 9 of Molecular convergent and parallel evolution among four high-elevation anuran species from the Tibetan region

description: Additional file 9: Table S8. Results from enrichment analysis of convergent and parallel genes based on dataset 2–7.
DOI: 10.6084/m9.figshare.13297134.v1
title: Additional file 9 of Molecular convergent and parallel evolution among four high-elevation anuran species from the Tibetan region

description: Additional file 9: Table S8. Results from enrichment analysis of convergent and parallel genes based on dataset 2–7.
DOI: 10.6084/m9.figshare.13297119
title: Additional file 4 of Molecular convergent and parallel evolution among four high-elevation anuran species from the Tibetan region

description: Additional file 4: Table S3. Detailed results from Zhang and Kumar’s test of dataset 1. Six pairwise comparisons are conducted and all sites and genes experiencing convergent and parallel evolution are listed.
DOI: 10.6084/m9.figshare.13297122
title: Additional file 5 of Molecular convergent and parallel evolution among four high-elevation anuran species from the Tibetan region

description: Additional file 5: Table S4. List of genes that were subjected to positive selection (PSGs).
DOI: 10.6084/m9.figshare.20105457
title: Additional file 9 of Identification, characterization and functional analysis of gonadal long noncoding RNAs in a protogynous hermaphroditic teleost fish, the ricefield eel (Monopterus albus)

description: Additional file 9: Dataset S5. DE-lncRNAs and their cis-target genes.
DOI: 10.6084/m9.figshare.13297114
title: Additional file 2 of Identification and population genetic analyses of copy number variations in six domestic goat breeds and Bezoar ibexes using next-generation sequencing

description: Additional file 2: Table S2. List of CNVs identified in 85 goat genomes included in this study.
DOI: 10.6084/m9.figshare.13297129
title: Additional file 7 of Identification and population genetic analyses of copy number variations in six domestic goat breeds and Bezoar ibexes using next-generation sequencing

description: Additional file 7: Table S5. List of highly differentiated CNVs between BI and domestic goats and between TC and lowland goats.
DOI: 10.6084/m9.figshare.20105524.v1
title: Additional file 2 of Mechanism of reduced muscle atrophy via ketone body (D)-3-hydroxybutyrate

description: Additional file 2: Table S1. Lists genes in proteostasis gene-set and “3HB-regulated genes”, detailed information for GO and KEGG analysis of “3HB-regulated genes” are also included (related to Fig. 3).
DOI: 10.6084/m9.figshare.13297132.v1
title: Additional file 8 of Identification and population genetic analyses of copy number variations in six domestic goat breeds and Bezoar ibexes using next-generation sequencing

description: Additional file 8: Table S6. Significantly enriched terms for the differentiation CNV genes identified in this study.
DOI: 10.6084/m9.figshare.13297126
title: Additional file 6 of Identification and population genetic analyses of copy number variations in six domestic goat breeds and Bezoar ibexes using next-generation sequencing

description: Additional file 6: Table S4. Significantly enriched terms for the genes overlapped with 2394 CNVRs identified in seven goat populations.
DOI: 10.6084/m9.figshare.13297114.v1
title: Additional file 2 of Identification and population genetic analyses of copy number variations in six domestic goat breeds and Bezoar ibexes using next-generation sequencing

description: Additional file 2: Table S2. List of CNVs identified in 85 goat genomes included in this study.
DOI: 10.15468/4we8dv
title: 2009 - ongoing The Marine Biological Association of the UK (MBA) Devon and Cornwall Bioblitz Surveys

description: The MBA runs an annual Bioblitz with partners, as well as supporting and participating in Bioblitz events run by other organisations. The bioblitz is a 24 hour survey to document all ad hoc sightings of any species found within the area. In 2019, this event was carried out in Wembury Bay, Devon, UK.
DOI: 10.6084/m9.figshare.23269479
title: Uniform Nonparametric Inference for Spatially Dependent Panel Data

description: This article proposes a uniform functional inference method for nonparametric regressions in a panel-data setting that features general unknown forms of spatio-temporal dependence. The method requires a long time span, but does not impose any restriction on the size of the cross section or the strength of spatial correlation. The uniform inference is justified via a new growing-dimensional Gaussian coupling theory for spatio-temporally dependent panels. We apply the method in two empirical settings. One concerns the nonparametric relationship between asset price volatility and trading volume as depicted by the mixture of distribution hypothesis. The other pertains to testing the rationality of survey-based forecasts, in which we document nonparametric evidence for information rigidity among professional forecasters, offering new support for sticky-information and noisy-information models in macroeconomics.
DOI: 10.6084/m9.figshare.23269479.v1
title: Uniform Nonparametric Inference for Spatially Dependent Panel Data

description: This article proposes a uniform functional inference method for nonparametric regressions in a panel-data setting that features general unknown forms of spatio-temporal dependence. The method requires a long time span, but does not impose any restriction on the size of the cross section or the strength of spatial correlation. The uniform inference is justified via a new growing-dimensional Gaussian coupling theory for spatio-temporally dependent panels. We apply the method in two empirical settings. One concerns the nonparametric relationship between asset price volatility and trading volume as depicted by the mixture of distribution hypothesis. The other pertains to testing the rationality of survey-based forecasts, in which we document nonparametric evidence for information rigidity among professional forecasters, offering new support for sticky-information and noisy-information models in macroeconomics.
DOI: 10.6084/m9.figshare.23258776
title: Additional file 5 of Differences in the global exposure, mortality and disability of low bone mineral density between men and women: the underestimated burden in men

description: Additional file 5: Supplementary Table 1. Specific SDI values in 204 countries.
DOI: 10.6084/m9.figshare.23258776.v1
title: Additional file 5 of Differences in the global exposure, mortality and disability of low bone mineral density between men and women: the underestimated burden in men

description: Additional file 5: Supplementary Table 1. Specific SDI values in 204 countries.
DOI: 10.6084/m9.figshare.23258785
title: Additional file 7 of Differences in the global exposure, mortality and disability of low bone mineral density between men and women: the underestimated burden in men

description: Additional file 7: Supplementary Table 3. Specific ASDR values and differences between men and women in 204 countries.
DOI: 10.6084/m9.figshare.23258788
title: Additional file 8 of Differences in the global exposure, mortality and disability of low bone mineral density between men and women: the underestimated burden in men

description: Additional file 8: Supplementary Table 4. Specific ASMR values and differences between men and women in 204 countries.
DOI: 10.6084/m9.figshare.23258788.v1
title: Additional file 8 of Differences in the global exposure, mortality and disability of low bone mineral density between men and women: the underestimated burden in men

description: Additional file 8: Supplementary Table 4. Specific ASMR values and differences between men and women in 204 countries.
DOI: 10.6084/m9.figshare.23258782
title: Additional file 6 of Differences in the global exposure, mortality and disability of low bone mineral density between men and women: the underestimated burden in men

description: Additional file 6: Supplementary Table 2. Specific SEV values and differences between men and women in 204 countries.
DOI: 10.6084/m9.figshare.23258785.v1
title: Additional file 7 of Differences in the global exposure, mortality and disability of low bone mineral density between men and women: the underestimated burden in men

description: Additional file 7: Supplementary Table 3. Specific ASDR values and differences between men and women in 204 countries.
DOI: 10.6084/m9.figshare.24426805
title: Predicted gene set of the onion thrips (<i>Thrips tabaci</i> L.)

description: The GFF3 format file, CDS FASTA file and protein FASTA file of the predicted gene set in the genome assembly of the onion thrips (<i>Thrips tabaci</i> L.)
DOI: 10.6084/m9.figshare.19588785.v1
title: Additional file 3 of miR-203, fine-tunning neuroinflammation by juggling different components of NF‐κB signaling

description: Additional file 3: Figure S3. 3D reconstruction of the z-stack images of immunofluorescence using anti-Iba1, showing the activation of microglia from mouse hippocampus overexpressing miR-203 (A) or overexpressing scramble RNAs (B).
DOI: 10.6084/m9.figshare.22210286.v1
title: Coordinated alternation of DNA methylation and alternative splicing of PBRM1 affect bovine sperm structure and motility

description: DNA methylation and gene alternative splicing drive spermatogenesis. In screening DNA methylation markers and transcripts related to sperm motility, semen from three pairs of full-sibling Holstein bulls with high and low motility was subjected to reduced representation bisulphite sequencing. A total of 948 DMRs were found in 874 genes (gDMRs). Approximately 89% of gDMR-related genes harboured alternative splicing events, including <i>SMAD2, KIF17</i>, and <i>PBRM1</i>. One DMR in exon 29 of <i>PBRM1</i> with the highest 5mC ratio was found, and hypermethylation in this region was related to bull sperm motility. Furthermore, alternative splicing events at exon 29 of <i>PBRM1</i> were found in bull testis, including <i>PBRM1-complete, PBRM1-SV1</i> (exon 28 deletion), and <i>PBRM1-SV2</i> (exons 28–29 deletion). <i>PBRM1-SV2</i> exhibited significantly higher expression in adult bull testes than in newborn bull testes. In addition, <i>PBRM1</i> was localized to the redundant nuclear membrane of bull sperm, which might be related to sperm motility caused by sperm tail breakage. Therefore, the hypermethylation of exon 29 may be associated with the production of <i>PBRM1-SV2</i> in spermatogenesis. These findings indicated that DNA methylation alteration at specific loci could regulate gene splicing and expression and synergistically alter sperm structure and motility.
DOI: 10.6084/m9.figshare.19588785
title: Additional file 3 of miR-203, fine-tunning neuroinflammation by juggling different components of NF‐κB signaling

description: Additional file 3: Figure S3. 3D reconstruction of the z-stack images of immunofluorescence using anti-Iba1, showing the activation of microglia from mouse hippocampus overexpressing miR-203 (A) or overexpressing scramble RNAs (B).
DOI: 10.6084/m9.figshare.9638702
title: Instrument-based Tests for Measuring Anterior Chamber Cells in Uveitis: A Systematic Review

description: New instrument-based techniques for anterior chamber (AC) cell counting can offer automation and objectivity above clinician assessment. This review aims to identify such instruments and its correlation with clinician estimates. Using standard systematic review methodology, we identified and tabulated the outcomes of studies reporting reliability and correlation between instrument-based measurements and clinician AC cell grading. From 3470 studies, 6 reported correlation between an instrument-based AC cell count to clinician grading. The two instruments were optical coherence tomography (OCT) and laser flare-cell photometry (LFCP). Correlation between clinician grading and LFCP was 0.66–0.87 and 0.06–0.97 between clinician grading and OCT. OCT volume scans demonstrated correlation between 0.75 and 0.78. Line scans in the middle AC demonstrated higher correlation (0.73–0.97) than in the inferior AC (0.06–0.56). AC cell count by OCT and LFP can achieve high levels of correlation with clinician grading, whilst offering additional advantages of speed, automation, and objectivity.
DOI: 10.6084/m9.figshare.9638702.v1
title: Instrument-based Tests for Measuring Anterior Chamber Cells in Uveitis: A Systematic Review

description: New instrument-based techniques for anterior chamber (AC) cell counting can offer automation and objectivity above clinician assessment. This review aims to identify such instruments and its correlation with clinician estimates. Using standard systematic review methodology, we identified and tabulated the outcomes of studies reporting reliability and correlation between instrument-based measurements and clinician AC cell grading. From 3470 studies, 6 reported correlation between an instrument-based AC cell count to clinician grading. The two instruments were optical coherence tomography (OCT) and laser flare-cell photometry (LFCP). Correlation between clinician grading and LFCP was 0.66–0.87 and 0.06–0.97 between clinician grading and OCT. OCT volume scans demonstrated correlation between 0.75 and 0.78. Line scans in the middle AC demonstrated higher correlation (0.73–0.97) than in the inferior AC (0.06–0.56). AC cell count by OCT and LFP can achieve high levels of correlation with clinician grading, whilst offering additional advantages of speed, automation, and objectivity.
DOI: 10.6084/m9.figshare.9638858
title: Area-Proportional Visualization for Circular Data

description: Data visualization is important for statistical analysis, as it helps convey information efficiently and shed lights on the hidden patterns behind data in a visual context. It is particularly helpful to display circular data in a two-dimensional space to accommodate its nonlinear support space and reveal the underlying circular structure which is otherwise not obvious in one-dimension. In this article, we first formally categorize circular plots into two types, either height- or area-proportional, and then describe a new general methodology that can be used to produce circular plots, particularly in the area-proportional manner, which in our opinion is the more appropriate choice. Formulas are given that are fairly simple yet effective to produce various circular plots, such as smooth density curves, histograms, rose diagrams, dot plots, and plots for multiclass data. Supplemental materials for this article are available online.
DOI: 10.6084/m9.figshare.9638858.v2
title: Area-Proportional Visualization for Circular Data

description: Data visualization is important for statistical analysis, as it helps convey information efficiently and shed lights on the hidden patterns behind data in a visual context. It is particularly helpful to display circular data in a two-dimensional space to accommodate its nonlinear support space and reveal the underlying circular structure which is otherwise not obvious in one-dimension. In this article, we first formally categorize circular plots into two types, either height- or area-proportional, and then describe a new general methodology that can be used to produce circular plots, particularly in the area-proportional manner, which in our opinion is the more appropriate choice. Formulas are given that are fairly simple yet effective to produce various circular plots, such as smooth density curves, histograms, rose diagrams, dot plots, and plots for multiclass data. Supplemental materials for this article are available online.
DOI: 10.4121/f2a20379-0d48-4829-a5a2-c080eb669663
title: Data underlying the publication: A Microstructure-based Graph Neural Network for Accelerating Multiscale Simulations

description: Data accompanying the code in: https://github.com/JoepStorm/Microscale-GNN-Surrogate. The data contains results from multiscale finite element simulations and is aimed at training surrogate models. The data was generated with an in-house Finite Element software developed using the Jem/Jive open-source C++ library.
DOI: 10.4121/f2a20379-0d48-4829-a5a2-c080eb669663.v1
title: Data underlying the publication: A Microstructure-based Graph Neural Network for Accelerating Multiscale Simulations

description: Data accompanying the code in: https://github.com/JoepStorm/Microscale-GNN-Surrogate. The data contains results from multiscale finite element simulations and is aimed at training surrogate models. The data was generated with an in-house Finite Element software developed using the Jem/Jive open-source C++ library.