cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.7676870
title: The effects of high-flow nasal cannula on intubation and re-intubation in critically ill patients: a systematic review, meta-analysis and trial sequential analysis

description: ABSTRACT Objective: To evaluate the efficacy of high-flow nasal cannula in the prevention of intubation and re-intubation in critically ill patients compared to conventional oxygen therapy or noninvasive ventilation. Methods: This systematic review was performed through an electronic database search of articles published from 1966 to April 2018. The primary outcome was the need for intubation or re-intubation. The secondary outcomes were therapy escalation, mortality at the longest follow-up, hospital mortality and the need for noninvasive ventilation. Results: Seventeen studies involving 3,978 patients were included. There was no reduction in the need for intubation or re-intubation with high-flow nasal cannula (OR 0.72; 95%CI 0.52 - 1.01; p = 0.056). There was no difference in the need for therapy escalation (OR 0.80, 95% CI 0.59 - 1.08, p = 0.144), mortality at the longest follow-up (OR 0.94; 95%CI 0.70 - 1.25; p = 0.667), hospital mortality (OR 0.84; 95%CI 0.56 - 1.26; p = 0.391) or noninvasive ventilation (OR 0.64, 95%CI 0.39 - 1.05, p = 0.075). In the trial sequential analysis, the number of events included was lower than the optimal information size with a global type I error &gt; 0.05. Conclusion: In the present study and setting, high-flow nasal cannula was not associated with a reduction of the need for intubation or re-intubation in critically ill patients.
DOI: 10.6084/m9.figshare.21308673.v1
title: Additional file 4 of Functional analysis revealed the involvement of ZmABCB15 in resistance to rice black-streaked dwarf virus infection

description: Additional file 4: Table S3. The primer sequences for the qRT-PCR.
DOI: 10.25386/genetics.9250682
title: Supplemental Material for Chen et al., 2019

description: This fileset contains additional data used in the following study:Chen Q, et al. (2019) TeoNAM: a nested association mapping population for domestication and agronomic trait analysis in maize. Genetics.<br>Chen_et_al_Supplemental_Tables contains Table S1-S5;Chen_et_al_Supplemental_Figures contains Figure S1-S51;TeoNAM_1257RILs_22traits_phenotype_data contains the phenotypic data of 22 traits for 1257 RILs of TeoNAM.<br>
DOI: 10.25386/genetics.9250682.v1
title: Supplemental Material for Chen et al., 2019

description: This fileset contains additional data used in the following study:Chen Q, et al. (2019) TeoNAM: a nested association mapping population for domestication and agronomic trait analysis in maize. Genetics.<br>Chen_et_al_Supplemental_Tables contains Table S1-S5;Chen_et_al_Supplemental_Figures contains Figure S1-S51;TeoNAM_1257RILs_22traits_phenotype_data contains the phenotypic data of 22 traits for 1257 RILs of TeoNAM.<br>
DOI: 10.6084/m9.figshare.22357921
title: Dataset1_Biological activities and soil abotic conditions

description: Data on biological activities (i.e., plant growth, soil microbial respiration, soil fauna feeding) and soil abotic conditions (i.e., soil temperature and soil moisture), presented in Table 1; Fig. 2, 3, 4; Supplementary Fig. 1, 4.
DOI: 10.6084/m9.figshare.14490634
title: Additional file 1 of Single-cell characterization of a model of poly I:C-stimulated peripheral blood mononuclear cells in severe asthma

description: Additional file 1. Additional tables.
DOI: 10.6084/m9.figshare.21308670
title: Additional file 3 of Functional analysis revealed the involvement of ZmABCB15 in resistance to rice black-streaked dwarf virus infection

description: Additional file 3: Table S2. The CDSs of ZmABCB family.
DOI: 10.6084/m9.figshare.7677077
title: Increased expression levels of Syntaxin 1A and Synaptobrevin 2/Vesicle-Associated Membrane Protein-2 are associated with the progression of bladder cancer

description: Abstract Gene expression is tightly regulated in time and space through a multitude of factors consisting of signaling molecules. Soluble N-ethylmaleimide-sensitive-factor attachment protein receptors (SNARE) are membrane proteins responsible for the intercellular trafficking of signals through endocytosis and exocytosis of vesicles. Altered expression of SNARE proteins in cellular communication is the major hallmark of cancer phenotypes as indicated in recent studies. SNAREs play an important role in maintaining cell growth and epithelial membrane permeability of the bladder and are not only involved in cancer progression but also metastatic cell invasion through SNARE-mediated trafficking. Synaptobrevin2/Vesicle associated membrane protein-2 (v-SNARE) and Syntaxin (t-SNARE) form a vesicular docking complex during endocytosis. Some earlier studies have shown a critical role of SNARE in colon, lungs, and breast cancer progression and metastasis. In this study, we analyzed the relative expression of the STX1A and VAMP2 (SYB2) for their possible association in the progression and metastasis of bladder cancer. The profiling of the genes showed a significant increase in STX1A and VAMP2 expression (p &lt; 0.001) in high-grade tumor cells compared to normal and low-grade tumors. These findings suggest that elevated expression of STX1A and VAMP2 might have caused the abnormal progression and invasion of cancer cells leading to the transformation of cells into high-grade tumor in bladder cancer.
DOI: 10.6084/m9.figshare.19211438.v1
title: Additional file 2 of Altered gut metabolites and microbiota interactions are implicated in colorectal carcinogenesis and can be non-invasive diagnostic biomarkers

description: Additional file 1: Table S1. Demographic and clinical details of samples.
DOI: 10.6084/m9.figshare.19211441.v1
title: Additional file 3 of Altered gut metabolites and microbiota interactions are implicated in colorectal carcinogenesis and can be non-invasive diagnostic biomarkers

description: Additional file 2: Table S2. Differential test results for CRC vs NC.
DOI: 10.6084/m9.figshare.21308670.v1
title: Additional file 3 of Functional analysis revealed the involvement of ZmABCB15 in resistance to rice black-streaked dwarf virus infection

description: Additional file 3: Table S2. The CDSs of ZmABCB family.
DOI: 10.6084/m9.figshare.19211581.v1
title: Additional file 2 of An artificial intelligence method to assess the tumor microenvironment with treatment outcomes for gastric cancer patients after gastrectomy

description: Additional file 2: The immunoScore was calculated of TCGA,GSE62254 and GSE15459 cohorts.
DOI: 10.6084/m9.figshare.14490464
title: Additional file 2 of Sex-specific DNA methylation differences in Alzheimer’s disease pathology

description: Additional file 2: Supplementary Tables. Table S1. Sample information of the brain samples datasets included in the meta-analysis. Table S2. Quality control (QC) information on DNA methylation samples and probes for each cohort contributing to this meta-analysis. Table S3. In females, a total of 381 differentially methylated CpGs were significantly associated with the AD Braak stage at 5% FDR in the meta-analysis of four brain samples cohorts (Gasparoni, London, Mt. Sinai, ROSMAP). Table S4. In males, a total of 76 differentially methylated CpGs were significantly associated with the AD Braak stage at 5% FDR in the meta-analysis of four brain samples cohorts (Gasparoni, London, Mt. Sinai, ROSMAP). Table S5. In females, at 5% FDR, a total of 72 co-methylated DMRs were significantly associated with AD Braak stage in the meta-analysis of the four brain samples cohorts. Table S6. In males, at 5% FDR, a total of 27 co-methylated DMRs were significantly associated with AD Braak stage in the meta-analysis of four brain samples cohorts. Table S7. Enrichment of sex-specific DNA methylation changes in different genomic features. Table S8. Enrichment of sex-specific DNA methylation changes in different chromatin states. Table S9. Enrichment of sex-specific DNA methylation changes in binding sites of transcription factors and chromatin proteins assayed by ENCODE and CODEX projects. Table S10. Results of Gene Set Enrichement analysis of sex-specific CpGs and DMRs in female and males. Table S11. Significant association between sex-specific differences and expression levels of nearby genes. Table S12. The sex-specific CpGs and DMRs located within 500 kb of sex-specific SNPs associated with AD biomarkers or AD neuropathology. Table S13. mQTLs assoicated with FDR-significant CpGs in females. Table S14. mQTLs assoicated with FDR-significant CpGs in males. Table S15. mQTLs associated with significant CpGs identified by sex-by-Braak stage interaction analysis. Table S16. Sex-specific DNA methylation differences overlapped with AD drug targets in ChEMBL database. Table S17. Average beta values at each Braak stage for significant CpGs identified in female samples. Table S18. Average beta values at each Braak stage for significant CpGs identified in male samples. Table S19. Overlap of Braak-associated sex-specific CpGs and DMRs with sex-specifc DNA methylation changes in fetal development.
DOI: 10.6084/m9.figshare.14490464.v1
title: Additional file 2 of Sex-specific DNA methylation differences in Alzheimer’s disease pathology

description: Additional file 2: Supplementary Tables. Table S1. Sample information of the brain samples datasets included in the meta-analysis. Table S2. Quality control (QC) information on DNA methylation samples and probes for each cohort contributing to this meta-analysis. Table S3. In females, a total of 381 differentially methylated CpGs were significantly associated with the AD Braak stage at 5% FDR in the meta-analysis of four brain samples cohorts (Gasparoni, London, Mt. Sinai, ROSMAP). Table S4. In males, a total of 76 differentially methylated CpGs were significantly associated with the AD Braak stage at 5% FDR in the meta-analysis of four brain samples cohorts (Gasparoni, London, Mt. Sinai, ROSMAP). Table S5. In females, at 5% FDR, a total of 72 co-methylated DMRs were significantly associated with AD Braak stage in the meta-analysis of the four brain samples cohorts. Table S6. In males, at 5% FDR, a total of 27 co-methylated DMRs were significantly associated with AD Braak stage in the meta-analysis of four brain samples cohorts. Table S7. Enrichment of sex-specific DNA methylation changes in different genomic features. Table S8. Enrichment of sex-specific DNA methylation changes in different chromatin states. Table S9. Enrichment of sex-specific DNA methylation changes in binding sites of transcription factors and chromatin proteins assayed by ENCODE and CODEX projects. Table S10. Results of Gene Set Enrichement analysis of sex-specific CpGs and DMRs in female and males. Table S11. Significant association between sex-specific differences and expression levels of nearby genes. Table S12. The sex-specific CpGs and DMRs located within 500 kb of sex-specific SNPs associated with AD biomarkers or AD neuropathology. Table S13. mQTLs assoicated with FDR-significant CpGs in females. Table S14. mQTLs assoicated with FDR-significant CpGs in males. Table S15. mQTLs associated with significant CpGs identified by sex-by-Braak stage interaction analysis. Table S16. Sex-specific DNA methylation differences overlapped with AD drug targets in ChEMBL database. Table S17. Average beta values at each Braak stage for significant CpGs identified in female samples. Table S18. Average beta values at each Braak stage for significant CpGs identified in male samples. Table S19. Overlap of Braak-associated sex-specific CpGs and DMRs with sex-specifc DNA methylation changes in fetal development.
DOI: 10.6084/m9.figshare.19211438
title: Additional file 2 of Altered gut metabolites and microbiota interactions are implicated in colorectal carcinogenesis and can be non-invasive diagnostic biomarkers

description: Additional file 1: Table S1. Demographic and clinical details of samples.
DOI: 10.6084/m9.figshare.19211444
title: Additional file 4 of Altered gut metabolites and microbiota interactions are implicated in colorectal carcinogenesis and can be non-invasive diagnostic biomarkers

description: Additional file 3: Table S3. Differential test results for CRC vs CRA.
DOI: 10.6084/m9.figshare.21308673
title: Additional file 4 of Functional analysis revealed the involvement of ZmABCB15 in resistance to rice black-streaked dwarf virus infection

description: Additional file 4: Table S3. The primer sequences for the qRT-PCR.
DOI: 10.6084/m9.figshare.7677284.v1
title: Maximal Information Coefficient and Support Vector Regression Based Nonlinear Feature Selection and QSAR Modeling on Toxicity of Alcohol Compounds to Tadpoles of Rana temporaria

description: Efficient evaluation of biotoxicity of organics is of vital significance to resource utilization and environmental protection. In this study, toxicity of 110 alcohol compounds to tadpoles of Rana temporaria is adopted as the dependent variable and 1388 physiochemical parameters (features) calculated by PCLIENT are used for representing each compound. A feature selection pipeline with three steps is developed to refine the feature subset: 282 features that significantly correlated with biotoxicity of chemical compounds are preliminarily selected via the maximum information coefficient (MIC); 138 descriptors that have positive contribution to the model’s performance are reserved after a support vector regression (SVR) based backward elimination; 18 descriptors are finally selected via a forward selection process that integrated minimal redundancy maximal relevance (mRMR), MIC and SVR. In terms of feature subsets with different numbers of variables, quantitative structure activity relationship (QSAR) models are built using multiple linear regression (MLR), partial least square regression (PLS) and SVR, respectively. The independent prediction evaluation index, Q2, increases from -74.787, 0.824 and 0.868 to 0.892, 0.878 and 0.940, for the three regression models, respectively. Results suggest that nonlinear feature selection methods involved in MIC and SVR can effectively eliminate irrelevant descriptors. SVR outperforms classical statistical models to QSAR modeling on high-dimensional data containing nonlinear relationship between features. The methods proposed in this study have a potential application in the QSAR research field such as biotoxicity compounds.
DOI: 10.6084/m9.figshare.7152920.v1
title: Analysis of the Association of Polymorphisms rs5743708 in <i>TLR2</i> and rs4986790 in <i>TLR4</i> with Atopic Dermatitis Risk

description: <b>Background</b>: We carried out a meta-analysis to assess whether <i>Toll-like receptor 2</i> (<i>TLR2</i>) rs5743708 and <i>Toll-like receptor 4</i> (<i>TLR4</i>) rs4986790 polymorphisms are associated with the risk of atopic dermatitis. <b>Methods</b>: A systematic search of PubMed, Embase, and Web of Science was performed to identify eligible case–control studies on the association of rs5743708 and rs4986790 with the risk of atopic dermatitis. Statistical analyses of the odds ratio (OR), 95% confidence interval (CI), and p value were performed using STATA software. <b>Results</b>: Our meta-analysis included a total of nine case–control studies, all involving Caucasian populations. With respect to the <i>TLR2</i> rs5743708 G/A polymorphism, there was a statistically significant difference in the overall risk of atopic dermatitis between the case and control groups [OR = 2.07, p value of association test, p<sub>(association)</sub> = 0.001 in allele (A vs. G) model; OR = 1.93, p<sub>(association)</sub> = 0.004 in carrier (A vs. G) model; OR = 2.07, p<sub>(association)</sub> = 0.001 in heterozygote (GA vs. GG) model; OR = 1.99, p<sub>(association)</sub> = 0.001 in dominant (GA+ AA vs. GG) model]. Similar positive results were observed in the subgroup analysis of “population-based control.” For the <i>TLR4</i> rs4986790 A/G polymorphism, an increased atopic dermatitis risk was detected in the case group under the allele [OR = 1.78, p<sub>(association)</sub> = 0.013], carrier [OR = 1.69, p<sub>(association)</sub> = 0.027] and heterozygote [OR = 1.74, p<sub>(association)</sub> = 0.020] models, but not the dominant [OR = 1.44, p<sub>(association)</sub> = 0.070] model, in comparison to the population-based control group. <b>Conclusion</b>: Our meta-analysis revealed a novel finding that the heterogeneous “GA” genotype of the <i>TLR2</i> rs5743708 and “AG” genotype of the <i>TLR4</i> rs4986790 may be associated with increased susceptibility to atopic dermatitis in Caucasians.
DOI: 10.6084/m9.figshare.19211527.v1
title: Additional file 1 of Comparison of porcine ALG and rabbit ATG on outcomes of HLA-haploidentical hematopoietic stem cell transplantation for patients with acquired aplastic anemia

description: Additional file 1. Institution and years for the patients who were treated with haplo-HSCT
DOI: 10.6084/m9.figshare.19211581
title: Additional file 2 of An artificial intelligence method to assess the tumor microenvironment with treatment outcomes for gastric cancer patients after gastrectomy

description: Additional file 2: The immunoScore was calculated of TCGA,GSE62254 and GSE15459 cohorts.
DOI: 10.6084/m9.figshare.7152920
title: Analysis of the Association of Polymorphisms rs5743708 in <i>TLR2</i> and rs4986790 in <i>TLR4</i> with Atopic Dermatitis Risk

description: <b>Background</b>: We carried out a meta-analysis to assess whether <i>Toll-like receptor 2</i> (<i>TLR2</i>) rs5743708 and <i>Toll-like receptor 4</i> (<i>TLR4</i>) rs4986790 polymorphisms are associated with the risk of atopic dermatitis. <b>Methods</b>: A systematic search of PubMed, Embase, and Web of Science was performed to identify eligible case–control studies on the association of rs5743708 and rs4986790 with the risk of atopic dermatitis. Statistical analyses of the odds ratio (OR), 95% confidence interval (CI), and p value were performed using STATA software. <b>Results</b>: Our meta-analysis included a total of nine case–control studies, all involving Caucasian populations. With respect to the <i>TLR2</i> rs5743708 G/A polymorphism, there was a statistically significant difference in the overall risk of atopic dermatitis between the case and control groups [OR = 2.07, p value of association test, p<sub>(association)</sub> = 0.001 in allele (A vs. G) model; OR = 1.93, p<sub>(association)</sub> = 0.004 in carrier (A vs. G) model; OR = 2.07, p<sub>(association)</sub> = 0.001 in heterozygote (GA vs. GG) model; OR = 1.99, p<sub>(association)</sub> = 0.001 in dominant (GA+ AA vs. GG) model]. Similar positive results were observed in the subgroup analysis of “population-based control.” For the <i>TLR4</i> rs4986790 A/G polymorphism, an increased atopic dermatitis risk was detected in the case group under the allele [OR = 1.78, p<sub>(association)</sub> = 0.013], carrier [OR = 1.69, p<sub>(association)</sub> = 0.027] and heterozygote [OR = 1.74, p<sub>(association)</sub> = 0.020] models, but not the dominant [OR = 1.44, p<sub>(association)</sub> = 0.070] model, in comparison to the population-based control group. <b>Conclusion</b>: Our meta-analysis revealed a novel finding that the heterogeneous “GA” genotype of the <i>TLR2</i> rs5743708 and “AG” genotype of the <i>TLR4</i> rs4986790 may be associated with increased susceptibility to atopic dermatitis in Caucasians.
DOI: 10.6084/m9.figshare.7677266.v1
title: PYROLYSIS KINETICS OF HULLESS BARLEY STRAW USING THE DISTRIBUTED ACTIVATION ENERGY MODEL (DAEM) BY THE TG/DTA TECHNIQUE AND SEM/XRD CHARACTERIZATIONS FOR HULLESS BARLEY STRAW DERIVED BIOCHAR

description: Abstract The pyrolysis kinetics of hulless barley straw at different heating rates of 5，10, 15, 20 and 30 ºC/min were investigated via thermogravimetry, and the activation energy distribution E and pre-exponential factor k0 were calculated using the Distributed Activation Energy Model (DAEM) from thermogravimetric analysis (TGA) curves, and characterizations of pyrolysis product of biochar were analyzed by techniques of scanning electron microscopy (SEM) and X-ray diffraction (XRD). The pyrolysis process consisted mainly of the dehydration stage (50-150 ºC), the active pyrolysis stage (200-400 ºC) and the passive pyrolysis stage (400-800 ºC). The E ranged from 73.45 to 214.11 kJ/mol within the conversion rate range of 0.10-0.55, and changed from 214.11 to 141.55 kJ/mol within the conversion rate range of 0.55-0.90, and the average value of E was 172.23 kJ/mol. The values of k0 changed greatly with E values at different mass conversion. The wide E and k0 distributions obtained from the kinetic analysis are attributed to the complex chemical reactions of pyrolysis. The structure of biochar was degraded or ruptured due to the increase in temperature. The XRD analysis confirmed that the biochar was amorphous, dominated by disordered graphitic crystallites.
DOI: 10.6084/m9.figshare.7677266
title: PYROLYSIS KINETICS OF HULLESS BARLEY STRAW USING THE DISTRIBUTED ACTIVATION ENERGY MODEL (DAEM) BY THE TG/DTA TECHNIQUE AND SEM/XRD CHARACTERIZATIONS FOR HULLESS BARLEY STRAW DERIVED BIOCHAR

description: Abstract The pyrolysis kinetics of hulless barley straw at different heating rates of 5，10, 15, 20 and 30 ºC/min were investigated via thermogravimetry, and the activation energy distribution E and pre-exponential factor k0 were calculated using the Distributed Activation Energy Model (DAEM) from thermogravimetric analysis (TGA) curves, and characterizations of pyrolysis product of biochar were analyzed by techniques of scanning electron microscopy (SEM) and X-ray diffraction (XRD). The pyrolysis process consisted mainly of the dehydration stage (50-150 ºC), the active pyrolysis stage (200-400 ºC) and the passive pyrolysis stage (400-800 ºC). The E ranged from 73.45 to 214.11 kJ/mol within the conversion rate range of 0.10-0.55, and changed from 214.11 to 141.55 kJ/mol within the conversion rate range of 0.55-0.90, and the average value of E was 172.23 kJ/mol. The values of k0 changed greatly with E values at different mass conversion. The wide E and k0 distributions obtained from the kinetic analysis are attributed to the complex chemical reactions of pyrolysis. The structure of biochar was degraded or ruptured due to the increase in temperature. The XRD analysis confirmed that the biochar was amorphous, dominated by disordered graphitic crystallites.
DOI: 10.6084/m9.figshare.24452517
title: Additional file 1 of Composition of pathogenic microorganism in chronic osteomyelitis based on metagenomic sequencing and its application value in etiological diagnosis

description: Supplementary Material 1