cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.6221123.v1
title: Additional file 3: of Genome-wide expert annotation of the epigenetic machinery of the plant-parasitic nematodes Meloidogyne spp., with a focus on the asexuallyÂ reproducing species

description: Table S3. Epigenetic factors of S. mansoni. A cross indicates if the epigenetic factor has been previously identified in the literature and/or in the present study. (XLSX 15Â kb)
DOI: 10.6084/m9.figshare.6221117
title: Additional file 2: of Genome-wide expert annotation of the epigenetic machinery of the plant-parasitic nematodes Meloidogyne spp., with a focus on the asexually reproducing species

description: Table S2. Protein domains (Pfam) specifically associated with epigenetic factors. For each of the 6 model species, number of proteins belonging to DNMT, histones, histone modifying enzymes (Histone Acetyltransferases, HAT; Histone deacetylases, HDAC; Histone methyltransferases, HMT; Histone demethylases, HDMT; Histone kinases, HK; Histone phosphatases, HP; Histone ubiquitinyl-transferases, HUT; Histone deubiquitinases, HDU), and Argonautes are indicated, as well as the specific protein domains (Pfam) that constitute the “Pfam epigenetic factor list”. (XLSX 13 kb)
DOI: 10.6084/m9.figshare.6221117.v1
title: Additional file 2: of Genome-wide expert annotation of the epigenetic machinery of the plant-parasitic nematodes Meloidogyne spp., with a focus on the asexually reproducing species

description: Table S2. Protein domains (Pfam) specifically associated with epigenetic factors. For each of the 6 model species, number of proteins belonging to DNMT, histones, histone modifying enzymes (Histone Acetyltransferases, HAT; Histone deacetylases, HDAC; Histone methyltransferases, HMT; Histone demethylases, HDMT; Histone kinases, HK; Histone phosphatases, HP; Histone ubiquitinyl-transferases, HUT; Histone deubiquitinases, HDU), and Argonautes are indicated, as well as the specific protein domains (Pfam) that constitute the “Pfam epigenetic factor list”. (XLSX 13 kb)
DOI: 10.6084/m9.figshare.6221111
title: Additional file 1: of Genome-wide expert annotation of the epigenetic machinery of the plant-parasitic nematodes Meloidogyne spp., with a focus on the asexuallyÂ reproducing species

description: Table S1. Reference dataset of 716 known epigenetic factors in 6 model species. (XLSX 48Â kb)
DOI: 10.6084/m9.figshare.6221111.v1
title: Additional file 1: of Genome-wide expert annotation of the epigenetic machinery of the plant-parasitic nematodes Meloidogyne spp., with a focus on the asexuallyÂ reproducing species

description: Table S1. Reference dataset of 716 known epigenetic factors in 6 model species. (XLSX 48Â kb)
DOI: 10.6084/m9.figshare.6221075
title: Additional file 4: of Transcriptional profiling of swine mammary gland during the transition from colostrogenesis to lactogenesis using RNA sequencing

description: Provides complete list of upstream regulator resulting from Ingenuity Pathway Analysis (IPA) analysis. Moreover, it provides additional discussion points, omitted from the main body of the manuscript. (XLSX 20Â kb)
DOI: 10.6084/m9.figshare.6221075.v1
title: Additional file 4: of Transcriptional profiling of swine mammary gland during the transition from colostrogenesis to lactogenesis using RNA sequencing

description: Provides complete list of upstream regulator resulting from Ingenuity Pathway Analysis (IPA) analysis. Moreover, it provides additional discussion points, omitted from the main body of the manuscript. (XLSX 20Â kb)
DOI: 10.6084/m9.figshare.6221060
title: Additional file 3: of Transcriptional profiling of swine mammary gland during the transition from colostrogenesis to lactogenesis using RNA sequencing

description: Provides the complete list of differentially expressed genes (DEG) resulting from differential expression (DE) analysis of RNAseq data of swine mammary gland tissue harvested in late-pregnancy through farrowing and used for Dynamic Impact Approach (DIA) and Ingenuity Pathway Analysis (IPA) analyses. Moreover, it provides additional discussion points, omitted from the main body of the manuscript. (XLSX 1239Â kb)
DOI: 10.6084/m9.figshare.6221060.v1
title: Additional file 3: of Transcriptional profiling of swine mammary gland during the transition from colostrogenesis to lactogenesis using RNA sequencing

description: Provides the complete list of differentially expressed genes (DEG) resulting from differential expression (DE) analysis of RNAseq data of swine mammary gland tissue harvested in late-pregnancy through farrowing and used for Dynamic Impact Approach (DIA) and Ingenuity Pathway Analysis (IPA) analyses. Moreover, it provides additional discussion points, omitted from the main body of the manuscript. (XLSX 1239Â kb)
DOI: 10.6084/m9.figshare.6221048
title: Additional file 2: of Transcriptional profiling of swine mammary gland during the transition from colostrogenesis to lactogenesis using RNA sequencing

description: Provides an aggregate summary of RNA sequencing and alignment for all the samples. mRNA libraries were sequenced on a HiSeq2500 (Illumina Inc.). Quality control metrics were performed on raw sequencing reads using the FASTQC v0.11.15 application. An index of the reference genome was built and single-end clean reads for each individual were aligned to the reference genome by STAR (v2.5.1b). Reads were mapped and annotated to the Sus scrofa genome (v10.2.86), downloaded from EnsemblGenome website (Nov. 2016). Reads aligned were quantified with Subread package (v1.5.0) based on the Refseq gene annotation. (XLSX 10Â kb)
DOI: 10.6084/m9.figshare.6221048.v1
title: Additional file 2: of Transcriptional profiling of swine mammary gland during the transition from colostrogenesis to lactogenesis using RNA sequencing

description: Provides an aggregate summary of RNA sequencing and alignment for all the samples. mRNA libraries were sequenced on a HiSeq2500 (Illumina Inc.). Quality control metrics were performed on raw sequencing reads using the FASTQC v0.11.15 application. An index of the reference genome was built and single-end clean reads for each individual were aligned to the reference genome by STAR (v2.5.1b). Reads were mapped and annotated to the Sus scrofa genome (v10.2.86), downloaded from EnsemblGenome website (Nov. 2016). Reads aligned were quantified with Subread package (v1.5.0) based on the Refseq gene annotation. (XLSX 10Â kb)
DOI: 10.6084/m9.figshare.6221030
title: Additional file 1: of Transcriptional profiling of swine mammary gland during the transition from colostrogenesis to lactogenesis using RNA sequencing

description: Provides an aggregate summary of RNA extraction and quality check for all samples. Mammary tissue was collected on days 14, 10, 6 and 2 before (â ) parturition and on day 1 after (+) parturition from three 2nd parity sows. Extraction of RNA and quality evaluation was performed following protocols described by Tramontana et al. (2008) [15]. (XLSX 10Â kb)
DOI: 10.6084/m9.figshare.6221030.v1
title: Additional file 1: of Transcriptional profiling of swine mammary gland during the transition from colostrogenesis to lactogenesis using RNA sequencing

description: Provides an aggregate summary of RNA extraction and quality check for all samples. Mammary tissue was collected on days 14, 10, 6 and 2 before (â ) parturition and on day 1 after (+) parturition from three 2nd parity sows. Extraction of RNA and quality evaluation was performed following protocols described by Tramontana et al. (2008) [15]. (XLSX 10Â kb)
DOI: 10.6084/m9.figshare.6220985
title: Additional file 7: of Chronophin regulates active vitamin B6 levels and transcriptomic features of glioblastoma cell lines cultured under non-adherent, serum-free conditions

description: Table S3. Genes deregulated in NCH421k after CIN knockdown (NGS results). Table of the results from the NGS analysis for NCH421k (comparison CTRL vs. CIN shRNA #1 and #2) including statistics as calculated by DESeq2. (XLSX 5355 kb)
DOI: 10.6084/m9.figshare.6220985.v1
title: Additional file 7: of Chronophin regulates active vitamin B6 levels and transcriptomic features of glioblastoma cell lines cultured under non-adherent, serum-free conditions

description: Table S3. Genes deregulated in NCH421k after CIN knockdown (NGS results). Table of the results from the NGS analysis for NCH421k (comparison CTRL vs. CIN shRNA #1 and #2) including statistics as calculated by DESeq2. (XLSX 5355 kb)
DOI: 10.6084/m9.figshare.6220973
title: Additional file 1: of Genetic analysis of male sterility obtained from a rice cultivar Lebed backcrossed with Taichung 65

description: Table S1. Seed setting rates of BC5F1 plants obtained from fertile BC4F1 plants. Table S2. Seed setting rates of BC5F1 plants obtained from sterile BC4F1 plants. Table S3. Primer sequences of INDEL and SSR markers. Table S4. Genotyping of INDEL markers in BC5F1 plants segregating for fertility. Table S5. Genotyping of INDEL and SSR markers in sterile and fertile BC6F1 plants. Table S6. Genotypes of INDEL and SSR markers, anther phenotypes and seed setting rates in BC6F1 and BC7F1 recombinant plants. (XLSX 40 kb)
DOI: 10.6084/m9.figshare.6220970
title: Additional file 6: of Chronophin regulates active vitamin B6 levels and transcriptomic features of glioblastoma cell lines cultured under non-adherent, serum-free conditions

description: Table S2. Genes deregulated in NCH644 after CIN knockdown (NGS results). Table of the results from the NGS analysis for NCH644 (comparison CTRL vs. CIN shRNA #1 and #2) including statistics as calculated by DESeq2. (XLSX 5446 kb)
DOI: 10.6084/m9.figshare.6220973.v1
title: Additional file 1: of Genetic analysis of male sterility obtained from a rice cultivar Lebed backcrossed with Taichung 65

description: Table S1. Seed setting rates of BC5F1 plants obtained from fertile BC4F1 plants. Table S2. Seed setting rates of BC5F1 plants obtained from sterile BC4F1 plants. Table S3. Primer sequences of INDEL and SSR markers. Table S4. Genotyping of INDEL markers in BC5F1 plants segregating for fertility. Table S5. Genotyping of INDEL and SSR markers in sterile and fertile BC6F1 plants. Table S6. Genotypes of INDEL and SSR markers, anther phenotypes and seed setting rates in BC6F1 and BC7F1 recombinant plants. (XLSX 40 kb)
DOI: 10.6084/m9.figshare.6220970.v1
title: Additional file 6: of Chronophin regulates active vitamin B6 levels and transcriptomic features of glioblastoma cell lines cultured under non-adherent, serum-free conditions

description: Table S2. Genes deregulated in NCH644 after CIN knockdown (NGS results). Table of the results from the NGS analysis for NCH644 (comparison CTRL vs. CIN shRNA #1 and #2) including statistics as calculated by DESeq2. (XLSX 5446 kb)
DOI: 10.6084/m9.figshare.6220961
title: Additional file 1: of Role of abscisic acid in strigolactone-induced salt stress tolerance in arbuscular mycorrhizal Sesbania cannabina seedlings

description: Table S1 Effect of different treatments on the relative abundances of three SLs candidates m/z 383, m/z 356 and m/z 317 in S. cannabina seedlings extract.Data were analyzed using Duncan’s multiple range test. Different letters indicate statistical significance at p
DOI: 10.6084/m9.figshare.6220961.v1
title: Additional file 1: of Role of abscisic acid in strigolactone-induced salt stress tolerance in arbuscular mycorrhizal Sesbania cannabina seedlings

description: Table S1 Effect of different treatments on the relative abundances of three SLs candidates m/z 383, m/z 356 and m/z 317 in S. cannabina seedlings extract.Data were analyzed using Duncan’s multiple range test. Different letters indicate statistical significance at p
DOI: 10.6084/m9.figshare.6220874
title: Additional file 1: of Chronophin regulates active vitamin B6 levels and transcriptomic features of glioblastoma cell lines cultured under non-adherent, serum-free conditions

description: Table S1. Comprehensive molecular characterization of glioblastoma cell lines. Comprehensive molecular characterization of all cell lines used in this study based on RNA-Seq. This table contains the name of the cell lines, mutation and expression analysis for TP53, analysis of genomic deletion (based on real-time PCR) and expression for CDKN2A as well as expression data for several glioblastoma subtype-specific genes. (XLSX 12 kb)
DOI: 10.6084/m9.figshare.6220874.v1
title: Additional file 1: of Chronophin regulates active vitamin B6 levels and transcriptomic features of glioblastoma cell lines cultured under non-adherent, serum-free conditions

description: Table S1. Comprehensive molecular characterization of glioblastoma cell lines. Comprehensive molecular characterization of all cell lines used in this study based on RNA-Seq. This table contains the name of the cell lines, mutation and expression analysis for TP53, analysis of genomic deletion (based on real-time PCR) and expression for CDKN2A as well as expression data for several glioblastoma subtype-specific genes. (XLSX 12 kb)
DOI: 10.6084/m9.figshare.6220817
title: Additional file 1: of Surveying alignment-free features for Ortholog detection in related yeast proteomes by using supervised big data classifiers

description: Proteome fasta files for the following yeast species: S. cerevisiae, C. glabrata, K. waltii and K lactis. (ZIP 5844 kb)
DOI: 10.6084/m9.figshare.6220817.v1
title: Additional file 1: of Surveying alignment-free features for Ortholog detection in related yeast proteomes by using supervised big data classifiers

description: Proteome fasta files for the following yeast species: S. cerevisiae, C. glabrata, K. waltii and K lactis. (ZIP 5844 kb)
DOI: 10.6084/m9.figshare.6220619
title: Measurement of L value in tissue engineering skin2

description: Measurement of L value in tissue engineering skin
DOI: 10.6084/m9.figshare.6220619.v1
title: Measurement of L value in tissue engineering skin2

description: Measurement of L value in tissue engineering skin
DOI: 10.6084/m9.figshare.6220481
title: Choropleth map of positive DENV, CHIKV and ZIKV samples by location reported by Public Health Virology, Queensland Health (2005-2017).

description: Choropleth map of positive DENV, CHIKV and ZIKV samples by location reported by Public Health Virology, Queensland Health (2005-2017). Map was created using QGIS version 3.0.1.<br>
DOI: 10.6084/m9.figshare.6220481.v2
title: Choropleth map of positive DENV, CHIKV and ZIKV samples by location reported by Public Health Virology, Queensland Health (2005-2017).

description: Choropleth map of positive DENV, CHIKV and ZIKV samples by location reported by Public Health Virology, Queensland Health (2005-2017). Map was created using QGIS version 3.0.1.<br>
DOI: 10.6084/m9.figshare.6220451
title: Dataset for: Deletion of endothelial arginase 1 does not improve vasomotor function in diabetic mice.

description: <b>Aim:</b> Endothelial arginase 1 was ablated to assess whether this prevents hyperglycemia-induced endothelial dysfunction by improving arginine availability for nitric oxide production. <b>Methods:</b> Endothelial Arg1-deficient mice (Arg1-KO<sup>Tie2</sup>) were generated by crossing Arg1<sup>fl/fl </sup>(controls) with Tie2Cre<sup>tg/-</sup> mice and analyzed by immunohistochemistry, measurements of hemodynamics and wire myography. <b>Results and Conclusion:</b> Ablation was confirmed by immunohistochemistry. Mean arterial blood pressure was similar in conscious male control and Arg1-KO<sup>Tie2</sup> mice. Depletion of circulating arginine by intravenous infusion of arginase 1 or inhibition of nitric oxide synthase activity with L-N<sup>G</sup>-nitroarginine methyl ester increased mean arterial pressure similarly in control (9 ± 2 and 34 ± 2 mmHg, respectively) and Arg1-KO<sup>Tie2</sup> mice (11 ± 3 and 38 ± 4 mmHg, respectively). Vasomotor responses were studied in isolated saphenous arteries of 12- and 34-week-old Arg1-KO<sup>Tie2</sup> and control animals by wire myography. Diabetes was induced in 10-week-old control and Arg1-KO<sup>Tie2</sup> mice with streptozotocin, and vasomotor responses were studied 10 weeks later. Optimal arterial diameter, contractile responses to phenylephrine and relaxing responses to acetylcholine and sodium nitroprusside were similar in normoglycemic control and Arg1-KO<sup>Tie2</sup> mice. The relaxing response to acetylcholine was dependent on the availability of extracellular L-arginine. In the diabetic mice, arterial relaxation responses to endothelium-dependent hyperpolarization and to exogenous nitric oxide were impaired. The data show that endothelial ablation of arginase 1 in mice does not markedly modify smooth muscle and endothelial functions of a resistance artery under normo- and hyperglycemic conditions.
DOI: 10.6084/m9.figshare.6220436
title: Dataset for: CC002/Unc females are mouse models of exercise-induced paradoxical fat response

description: Exercise results in beneficial health outcomes and protects against a variety of chronic diseases. However, U.S. exercise guidelines recommend identical exercise programs for everyone, despite individual variation in responses to these programs, including paradoxical fat gain. Experimental models of exercise-induced paradoxical outcomes may enable the dissection of underlying physiological mechanisms as well as the evaluation of potential interventions. Whereas several studies have identified individual mice exhibiting paradoxical fat gain following exercise, no systematic effort has been conducted to identify and characterize models of paradoxical response. Strains from the Collaborative Cross (CC) genetic reference population were used due to its high levels of genetic variation, its reproducible nature, and the observation that the CC is a rich source of novel disease models, to assess the impact genetic background has on exercise responses. We identified the strain CC002/Unc as an exercise-induced paradoxical fat response model in a controlled voluntary exercise study across multiple ages in female mice. We also found sex and genetic differences were consistent with this pattern in a study of forced exercise programs. These results provide a novel model for studies to determine the mechanisms behind paradoxical metabolic responses to exercise, and enable development of more rational personalized exercise recommendations based on factors such as age, sex, and genetic background.
DOI: 10.6084/m9.figshare.6220436.v1
title: Dataset for: CC002/Unc females are mouse models of exercise-induced paradoxical fat response

description: Exercise results in beneficial health outcomes and protects against a variety of chronic diseases. However, U.S. exercise guidelines recommend identical exercise programs for everyone, despite individual variation in responses to these programs, including paradoxical fat gain. Experimental models of exercise-induced paradoxical outcomes may enable the dissection of underlying physiological mechanisms as well as the evaluation of potential interventions. Whereas several studies have identified individual mice exhibiting paradoxical fat gain following exercise, no systematic effort has been conducted to identify and characterize models of paradoxical response. Strains from the Collaborative Cross (CC) genetic reference population were used due to its high levels of genetic variation, its reproducible nature, and the observation that the CC is a rich source of novel disease models, to assess the impact genetic background has on exercise responses. We identified the strain CC002/Unc as an exercise-induced paradoxical fat response model in a controlled voluntary exercise study across multiple ages in female mice. We also found sex and genetic differences were consistent with this pattern in a study of forced exercise programs. These results provide a novel model for studies to determine the mechanisms behind paradoxical metabolic responses to exercise, and enable development of more rational personalized exercise recommendations based on factors such as age, sex, and genetic background.
DOI: 10.6084/m9.figshare.6220433
title: 5cde.docxNear Infrared Fluorescent Peptide Nanoparticles for Enhancing Esophageal Cancer Therapeutic Efficacy

description: In vivo fluorescent images<br>
DOI: 10.6084/m9.figshare.6220418
title: Quemaduras Autoinflingidas

description: Unidad de Quemados - Clínica Reina Catalina<br>Barranquilla
DOI: 10.6084/m9.figshare.6220418.v1
title: Quemaduras Autoinflingidas

description: Unidad de Quemados - Clínica Reina Catalina<br>Barranquilla
DOI: 10.6084/m9.figshare.6220406
title: Paroedura picta genome assembly (repeat-masked)

description: Repeat elements and low-complexity regions annotated by RepeatMasker were soft-masked.
DOI: 10.6084/m9.figshare.6220361.v1
title: Factor and idiosyncratic empirical processes

description: The distributions of the common and idiosyncratic components for an individual variable are important in forecasting and applications. However, they are not identified with low dimensional observations. Using the recently developed theory for large dimensional approximate factor model for large panel data, the common and idiosyncratic components can be estimated consistently. Based on the estimated common and idiosyncratic components, we construct the empirical processes for estimation of the distribution functions of the common and idiosyncratic components. We prove that the two empirical processes are oracle efficient when <i>T</i> = <i>o</i>(<i>p</i>) where <i>p</i> and <i>T</i> are the dimension and sample size, respectively. This demonstrates that the factor and idiosyncratic empirical processes behave as well as the empirical processes pretending that the common and idiosyncratic components for an individual variable are directly observable. Based on this oracle property, we construct simultaneous confidence bands (SCBs) for the distributions of the common and idiosyncratic components. For the first-order consistency of the estimated distribution functions, T=o(p) suffices. Extensive simulation studies check that the estimated bands have good coverage frequencies. Our real data analysis shows that the common-component distribution has a structural change during the crisis in 2008, while the idiosyncratic-component distribution does not change much.
DOI: 10.6084/m9.figshare.6220361.v2
title: Factor and Idiosyncratic Empirical Processes

description: The distributions of the common and idiosyncratic components for an individual variable are important in forecasting and applications. However, they are not identified with low-dimensional observations. Using the recently developed theory for large dimensional approximate factor model for large panel data, the common and idiosyncratic components can be estimated consistently. Based on the estimated common and idiosyncratic components, we construct the empirical processes for estimation of the distribution functions of the common and idiosyncratic components. We prove that the two empirical processes are oracle efficient when <i>T</i> = <i>o</i>(<i>p</i>) where <i>p</i> and <i>T</i> are the dimension and sample size, respectively. This demonstrates that the factor and idiosyncratic empirical processes behave as well as the empirical processes pretending that the common and idiosyncratic components for an individual variable are directly observable. Based on this oracle property, we construct simultaneous confidence bands (SCBs) for the distributions of the common and idiosyncratic components. For the first-order consistency of the estimated distribution functions, T=o(p) suffices. Extensive simulation studies check that the estimated bands have good coverage frequencies. Our real data analysis shows that the common-component distribution has a structural change during the crisis in 2008, while the idiosyncratic-component distribution does not change much. Supplementary materials for this article are available online.