cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.26543569.v1
title: Causal relationship between gut microbiota, plasma metabolites, inflammatory cytokines and abdominal aortic aneurysm: a Mendelian randomization study

description: Complex interconnections are evident among gut microbiota, circulating metabolites, inflammatory cytokines, and the pathogenesis of abdominal aortic aneurysms (AAA), with the causal dynamics yet to be comprehensively elucidated. The primary objective of this study was to elucidate the potential causal relationships involving gut microbiota-mediated plasma metabolites, inflammatory cytokines, and AAA. We utilized data from genome-wide association studies predominantly comprising individuals of European ancestry, encompassing four major gut microbiota signatures, 233 plasma metabolite signatures (<i>N</i> = 136,016), 91 inflammatory cytokine signatures (<i>N</i> = 14,824), and AAA signatures (<i>N</i> = 1,458,875). Mendelian randomization (MR), employed in a two-sample format, was utilized as a tool to investigate the potential causal pathways from gut microbiota to the development of AAA. Additionally, a two-step MR approach was employed to dissect the impact of plasma metabolites and inflammatory cytokines on the relationship between gut microbiota and AAA and to ascertain the mediated fractions. Our findings indicate that five phylum or family-identical bacteria, 175 plasma metabolites, and seven inflammatory factors are causally associated with AAA. Among them, five bacterial species from the same phylum or family, identified from different GWAS data, were strongly associated with AAA. Of these, two exhibited negative causality and three exhibited positive causality. We found that the phylum <i>Firmicutes</i> and the families <i>Oscillospiraceae</i> might reduce the risk of AAA, whereas the families <i>Prevotellaceae</i>, <i>Sutterellaceae</i>, and <i>Aminobacteriaceae</i> might increase the risk of AAA. Further screening indicated that phylum <i>Firmicutes</i> id.1672 (GCST90017114) may confer a protective effect against AAA by reducing triglyceride levels in medium/small high-density lipoprotein (HDL). MR analysis has delineated a causal pathway from gut microbiota, through plasma circulating metabolites and inflammatory cytokines, to the pathogenesis of AAA. The role of intestinal flora and certain biomarkers may provide a reference for the diagnosis of AAA, and contribute to the prevention, diagnosis, and treatment of AAA disease.
DOI: 10.6084/m9.figshare.c.3676585_d3.v1
title: Additional file 1: of Global transcriptome analysis reveals extensive gene remodeling, alternative splicing and differential transcription profiles in non-seed vascular plant Selaginella moellendorffii

description: Novel coding genes. (XLSX 1368 kb)
DOI: 10.6084/m9.figshare.25053611
title: The positive association between the atherogenic index of plasma and the risk of new-onset hypertension: a nationwide cohort study in China

description: The atherogenic index of plasma (AIP) is a novel metabolic biomarker of atherosclerosis. Nevertheless, the association between the AIP and new-onset hypertension has not been elucidated in the Chinese population. Prospective data were obtained from 3150 participants aged ≥ 18 years in the China Health and Nutrition Survey from 2009 to 2015. The AIP is a logarithmically transformed ratio of triglycerides to high-density lipoprotein cholesterol in molar concentration. Cox regression analysis was used to determine the association of AIP index with new-onset hypertension. After the six-year follow-up, 1054 (33.4%) participants developed new-onset hypertension. The participants were divided into AIP quartile groups (Q1-Q4). Compared with those in Q1, subjects in Q3–4 had nearly 1.35 times the risk of new-onset hypertension after full adjustment [Q3: hazard ratio (HR): 1.35, 95% confidence interval (CI): 1.13–1.62; Q4: HR: 1.35, 95% CI: 1.13–1.64]. The risks of new-onset hypertension were nearly 1.30 times higher in subjects in Q2–4 than in subjects in Q1 (<i>p</i> &lt; .01) after the full adjustment when we excluded subjects with diabetes and/or chronic kidney diseases. There was a significant difference [HR (CI): 1.27 (1.04–1.54) vs. 0.90 (0.69–1.18)] when subjects were divided into two groups according to body mass index (BMI) level (&lt;24 vs. ≥24 kg/m<sup>2</sup>). The present study suggested that individuals with a higher AIP index are associated with new-onset hypertension, independent of kidney function and glucose levels. The association was stronger in subjects with normal BMI, which may provide early screening of metabolomics in hypertension prevention.
DOI: 10.6084/m9.figshare.25053611.v1
title: The positive association between the atherogenic index of plasma and the risk of new-onset hypertension: a nationwide cohort study in China

description: The atherogenic index of plasma (AIP) is a novel metabolic biomarker of atherosclerosis. Nevertheless, the association between the AIP and new-onset hypertension has not been elucidated in the Chinese population. Prospective data were obtained from 3150 participants aged ≥ 18 years in the China Health and Nutrition Survey from 2009 to 2015. The AIP is a logarithmically transformed ratio of triglycerides to high-density lipoprotein cholesterol in molar concentration. Cox regression analysis was used to determine the association of AIP index with new-onset hypertension. After the six-year follow-up, 1054 (33.4%) participants developed new-onset hypertension. The participants were divided into AIP quartile groups (Q1-Q4). Compared with those in Q1, subjects in Q3–4 had nearly 1.35 times the risk of new-onset hypertension after full adjustment [Q3: hazard ratio (HR): 1.35, 95% confidence interval (CI): 1.13–1.62; Q4: HR: 1.35, 95% CI: 1.13–1.64]. The risks of new-onset hypertension were nearly 1.30 times higher in subjects in Q2–4 than in subjects in Q1 (<i>p</i> &lt; .01) after the full adjustment when we excluded subjects with diabetes and/or chronic kidney diseases. There was a significant difference [HR (CI): 1.27 (1.04–1.54) vs. 0.90 (0.69–1.18)] when subjects were divided into two groups according to body mass index (BMI) level (&lt;24 vs. ≥24 kg/m<sup>2</sup>). The present study suggested that individuals with a higher AIP index are associated with new-onset hypertension, independent of kidney function and glucose levels. The association was stronger in subjects with normal BMI, which may provide early screening of metabolomics in hypertension prevention.
DOI: 10.6084/m9.figshare.25097405.v1
title: Exploration and validation of signature genes and immune associations in septic cardiomyopathy

description: An early and accurate diagnosis of septic cardiomyopathy is vital for improving the overall prognosis of sepsis. In our research, we aimed to identify signature genes and their immune connections in septic cardiomyopathy. By analyzing the mouse myocardial transcriptome from sepsis induced by cecum ligation and puncture (CLP), we identified four distinct k-means clusters. Further analysis of human myocardial datasets using Weighted Gene Co-expression Network Analysis (WGCNA) revealed a strong correlation between the MEturquoise module and septic cardiomyopathy (cor = 0.79, <i>p</i> &lt; .001). Through the application of Cytoscape plug-in MCODE and comprehensive analysis, we pinpointed two signature genes, THBS1 and TIMP1. These genes demonstrated significant involvement in immune cell infiltration, as detected by CIBERSORT, and displayed promising prognostic potential as validated by external datasets. Our experimental validation confirmed the up-regulation of both THBS1 and TIMP1 in septic murine hearts, underscoring their positive association with septic cardiomyopathy.
DOI: 10.6084/m9.figshare.25416775
title: Association between CBS gene T833C, G919A and 844ins68 polymorphisms in the 8th exon region and coronary artery disease: a meta-analysis

description: Several studies indicate that the cystathionine β-synthase (CBS) gene T833C, G919A and 844ins68 polymorphisms in the 8th exon region may be correlated with coronary artery disease (CAD) susceptibility, but the results have been inconsistent and inconclusive. Thus, a meta-analysis was conducted to provide a comprehensive estimate of these associations. On the basis of searches in the PubMed, EMBASE, Cochrane Library, Wanfang, VIP, and CNKI databases, we selected 14 case – control studies including 2123 cases and 2368 controls for this meta-analysis. Pooled odds ratios (ORs) with 95% confidence intervals (CIs) were calculated accordingly using a fixed-effect or random-effect model. The results indicated an increased risk between the CBS T833C gene polymorphisms and susceptibility to CAD under the dominant model (CC+CT vs. TT: OR = 1.92, 95% CI: 1.11 ~ 3.32), recessive model (CC vs. CT+TT: OR = 1.88, 95% CI: 1.17 ~ 3.03), and homozygous model (CC vs. TT: OR = 2.46, 95% CI: 1.04 ~ 5.83). In these three genetic models, no significant association was identified for CBS G919A (AA+AG vs. GG: OR = 1.48, 95% CI: 0.45 ~ 4.82),(AA vs. AG+GG: OR = 1.58, 95% CI: 0.93 ~ 2.70),(AA vs. GG: OR = 1.66, 95% CI: 0.40 ~ 6.92) or CBS 844ins68 (II+ID vs. DD: OR = 1.04, 95% CI: 0.80 ~ 1.35),(II vs. ID+DD: OR = 1.09, 95% CI: 0.51 ~ 2.36),(II vs. DD: OR = 1.10, 95% CI: 0.51 ~ 2.39). This meta-analysis suggests that the CBS T833C gene polymorphism is significantly associated with the risk of CAD and it shows a stronger association in Asian populations. Individuals with the C allele of the CBS gene T833C polymorphism might be particularly susceptible to CAD.
DOI: 10.6084/m9.figshare.c.3676585_d2
title: Additional file 10: of Global transcriptome analysis reveals extensive gene remodeling, alternative splicing and differential transcription profiles in non-seed vascular plant Selaginella moellendorffii

description: The gene families of lignin biosynthesis pathways in Arabidopsis and in S. moellendorffii. (XLSX 23 kb)
DOI: 10.6084/m9.figshare.25416775.v1
title: Association between CBS gene T833C, G919A and 844ins68 polymorphisms in the 8th exon region and coronary artery disease: a meta-analysis

description: Several studies indicate that the cystathionine β-synthase (CBS) gene T833C, G919A and 844ins68 polymorphisms in the 8th exon region may be correlated with coronary artery disease (CAD) susceptibility, but the results have been inconsistent and inconclusive. Thus, a meta-analysis was conducted to provide a comprehensive estimate of these associations. On the basis of searches in the PubMed, EMBASE, Cochrane Library, Wanfang, VIP, and CNKI databases, we selected 14 case – control studies including 2123 cases and 2368 controls for this meta-analysis. Pooled odds ratios (ORs) with 95% confidence intervals (CIs) were calculated accordingly using a fixed-effect or random-effect model. The results indicated an increased risk between the CBS T833C gene polymorphisms and susceptibility to CAD under the dominant model (CC+CT vs. TT: OR = 1.92, 95% CI: 1.11 ~ 3.32), recessive model (CC vs. CT+TT: OR = 1.88, 95% CI: 1.17 ~ 3.03), and homozygous model (CC vs. TT: OR = 2.46, 95% CI: 1.04 ~ 5.83). In these three genetic models, no significant association was identified for CBS G919A (AA+AG vs. GG: OR = 1.48, 95% CI: 0.45 ~ 4.82),(AA vs. AG+GG: OR = 1.58, 95% CI: 0.93 ~ 2.70),(AA vs. GG: OR = 1.66, 95% CI: 0.40 ~ 6.92) or CBS 844ins68 (II+ID vs. DD: OR = 1.04, 95% CI: 0.80 ~ 1.35),(II vs. ID+DD: OR = 1.09, 95% CI: 0.51 ~ 2.36),(II vs. DD: OR = 1.10, 95% CI: 0.51 ~ 2.39). This meta-analysis suggests that the CBS T833C gene polymorphism is significantly associated with the risk of CAD and it shows a stronger association in Asian populations. Individuals with the C allele of the CBS gene T833C polymorphism might be particularly susceptible to CAD.
DOI: 10.6084/m9.figshare.c.3676585_d2.v1
title: Additional file 10: of Global transcriptome analysis reveals extensive gene remodeling, alternative splicing and differential transcription profiles in non-seed vascular plant Selaginella moellendorffii

description: The gene families of lignin biosynthesis pathways in Arabidopsis and in S. moellendorffii. (XLSX 23 kb)
DOI: 10.6084/m9.figshare.25896567
title: SIRT5-mediated PRKAA2 succinylation ameliorates apoptosis of human placental trophoblasts in hypertensive disorder complicating pregnancy

description: Hypertensive disorder complicating pregnancy (HDCP) is a serious clinical disorder syndrome during pregnancy. This study aims at finding novel targets for HDCP therapy. HDCP-related mRNAs were firstly screened out and subjected to gene enrichment analysis. We chose protein kinase AMP-activated catalytic subunit alpha 2 (PRKAA2) as the research object. Thirty-nine HDCP patients at 32 to 40 weeks of gestation were selected as the HDCP group, and 39 normal controls who received cesarean section delivery at 37–42 weeks of pregnancy were enrolled in this study. Chorionic villi samples were collected within 30 min of delivery. The apoptosis of isolated placental trophoblasts was monitored to investigate the regulatory role of PRKAA2. PRKAA2 expression was further proven to be enhanced in the placental tissues of HDCP patients compared with that of normal puerpera. Subsequently, the results of flow cytometry analysis and western blot indicated that PRKAA2 overexpression accelerated primary placental cell apoptosis, while its knockdown attenuated cell apoptosis. Mechanistically, we determined that the level of PRKAA2 succinylation was elevated in the placental tissue of HDCP patients. Through in vitro succinylation assay and mutagenesis, we confirmed that sirtuin 5 (SIRT5) interacts with PRKAA2 at K69 and K260 to induce PRKAA2 desuccinylation. SIRT5 regulated primary HDCP cell apoptosis through PRKAA2. Finally, the animal study revealed that PRKAA2 elevates the systolic blood pressure of HDCP rat model. Our findings indicated that SIRT5-mediated PRKAA2 succinylation modulates placental cell apoptosis in HDCP, suggesting that PRKAA2 is a potential therapeutic target for HDCP treatment.
DOI: 10.6084/m9.figshare.25896567.v1
title: SIRT5-mediated PRKAA2 succinylation ameliorates apoptosis of human placental trophoblasts in hypertensive disorder complicating pregnancy

description: Hypertensive disorder complicating pregnancy (HDCP) is a serious clinical disorder syndrome during pregnancy. This study aims at finding novel targets for HDCP therapy. HDCP-related mRNAs were firstly screened out and subjected to gene enrichment analysis. We chose protein kinase AMP-activated catalytic subunit alpha 2 (PRKAA2) as the research object. Thirty-nine HDCP patients at 32 to 40 weeks of gestation were selected as the HDCP group, and 39 normal controls who received cesarean section delivery at 37–42 weeks of pregnancy were enrolled in this study. Chorionic villi samples were collected within 30 min of delivery. The apoptosis of isolated placental trophoblasts was monitored to investigate the regulatory role of PRKAA2. PRKAA2 expression was further proven to be enhanced in the placental tissues of HDCP patients compared with that of normal puerpera. Subsequently, the results of flow cytometry analysis and western blot indicated that PRKAA2 overexpression accelerated primary placental cell apoptosis, while its knockdown attenuated cell apoptosis. Mechanistically, we determined that the level of PRKAA2 succinylation was elevated in the placental tissue of HDCP patients. Through in vitro succinylation assay and mutagenesis, we confirmed that sirtuin 5 (SIRT5) interacts with PRKAA2 at K69 and K260 to induce PRKAA2 desuccinylation. SIRT5 regulated primary HDCP cell apoptosis through PRKAA2. Finally, the animal study revealed that PRKAA2 elevates the systolic blood pressure of HDCP rat model. Our findings indicated that SIRT5-mediated PRKAA2 succinylation modulates placental cell apoptosis in HDCP, suggesting that PRKAA2 is a potential therapeutic target for HDCP treatment.
DOI: 10.6084/m9.figshare.c.3676546_d4
title: Additional file 5: Dataset 1. of Comparative analysis of Corynebacterium glutamicum genomes: a new perspective for the industrial production of amino acids

description: Mutations (InDels and SNPs) detected in B253 and annotations, by using ATCC 13032 or B1 as a reference genome sequence. (XLS 8150 kb)
DOI: 10.6084/m9.figshare.c.3676546_d4.v1
title: Additional file 5: Dataset 1. of Comparative analysis of Corynebacterium glutamicum genomes: a new perspective for the industrial production of amino acids

description: Mutations (InDels and SNPs) detected in B253 and annotations, by using ATCC 13032 or B1 as a reference genome sequence. (XLS 8150 kb)
DOI: 10.6084/m9.figshare.c.3675829_d10
title: Additional file 10: of Genome-wide analysis of differential transcriptional and epigenetic variability across human immune cell types

description: Relationship between DNA methylation and gene expression. Relationship between DNA methylation and gene expression among genes showing cell type-specific DNA methylation hypervariability. (XLSX 29 kb)
DOI: 10.6084/m9.figshare.c.3675829_d10.v1
title: Additional file 10: of Genome-wide analysis of differential transcriptional and epigenetic variability across human immune cell types

description: Relationship between DNA methylation and gene expression. Relationship between DNA methylation and gene expression among genes showing cell type-specific DNA methylation hypervariability. (XLSX 29 kb)
DOI: 10.6084/m9.figshare.c.3675829_d9.v1
title: Additional file 5: of Genome-wide analysis of differential transcriptional and epigenetic variability across human immune cell types

description: Neutrophil network gene ontology enrichment. Ontology enrichment analyses of three modules of a correlation network of neutrophil-specific hypervariable genes not mediated by cis genetic effects using ClueGO. (XLSX 68 kb)
DOI: 10.6084/m9.figshare.c.3675829_d9
title: Additional file 5: of Genome-wide analysis of differential transcriptional and epigenetic variability across human immune cell types

description: Neutrophil network gene ontology enrichment. Ontology enrichment analyses of three modules of a correlation network of neutrophil-specific hypervariable genes not mediated by cis genetic effects using ClueGO. (XLSX 68 kb)
DOI: 10.6084/m9.figshare.c.3675829_d8.v1
title: Additional file 3: of Genome-wide analysis of differential transcriptional and epigenetic variability across human immune cell types

description: Gene ontology enrichment of genes showing hypervariable expression. Ontology enrichment analysis of genes showing hypervariable expression using GOseq. (XLSX 83 kb)
DOI: 10.6084/m9.figshare.c.3675823_d6.v1
title: Additional file 2: Table S2. of Overgrazing induces alterations in the hepatic proteome of sheep (Ovis aries): an iTRAQ-based quantitative proteomic analysis

description: List of all proteins (nâ  =â  2153) identified in the study. (XLSX 148 kb)
DOI: 10.6084/m9.figshare.c.3675829_d8
title: Additional file 3: of Genome-wide analysis of differential transcriptional and epigenetic variability across human immune cell types

description: Gene ontology enrichment of genes showing hypervariable expression. Ontology enrichment analysis of genes showing hypervariable expression using GOseq. (XLSX 83 kb)
DOI: 10.6084/m9.figshare.c.3675823_d6
title: Additional file 2: Table S2. of Overgrazing induces alterations in the hepatic proteome of sheep (Ovis aries): an iTRAQ-based quantitative proteomic analysis

description: List of all proteins (nâ  =â  2153) identified in the study. (XLSX 148 kb)
DOI: 10.6084/m9.figshare.c.3675829_d7.v1
title: Additional file 9: of Genome-wide analysis of differential transcriptional and epigenetic variability across human immune cell types

description: Correlation of cell type-specific hypervariable DNA methylation with donor information. Correlation of cell type-specific hypervariable DNA methylation with donor information. (XLSX 118 kb)
DOI: 10.6084/m9.figshare.c.3675829_d7
title: Additional file 9: of Genome-wide analysis of differential transcriptional and epigenetic variability across human immune cell types

description: Correlation of cell type-specific hypervariable DNA methylation with donor information. Correlation of cell type-specific hypervariable DNA methylation with donor information. (XLSX 118 kb)
DOI: 10.15468/dl.2j3vzw
title: Occurrence Download

description: A dataset containing 20 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Monacanthus modestus Günther, 1877",
 "Geometry POLYGON((170 20, 170 50, 120 50, 120 20, 170 20))",
 "HasCoordinate is true"
 ]
}

 The dataset includes 20 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0035578-241126133413365/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.3675829_d1
title: Additional file 4: of Genome-wide analysis of differential transcriptional and epigenetic variability across human immune cell types

description: Correlation of cell type-specific hypervariable gene expression with donor information. Correlation of cell type-specific hypervariable gene expression with donor information. (XLSX 358 kb)
DOI: 10.6084/m9.figshare.c.3675829_d1.v1
title: Additional file 4: of Genome-wide analysis of differential transcriptional and epigenetic variability across human immune cell types

description: Correlation of cell type-specific hypervariable gene expression with donor information. Correlation of cell type-specific hypervariable gene expression with donor information. (XLSX 358 kb)
DOI: 10.15468/dl.8ttm32
title: Occurrence Download

description: A dataset containing 1846 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Symphorus nematophorus (Bleeker, 1860)"
 ]
}

 The dataset includes 1846 records from 70 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0035580-241126133413365/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.3674848_d11
title: Additional file 10: of Genetic detection of peste des petits ruminants virus under field conditions: a step forward towards disease eradication

description: Data file of End point report of RT-qPCR. It includes the data of end-point analysis for threshold validation of amplification curves generated during the test. (RTF 261 kb)
DOI: 10.6084/m9.figshare.c.3674848_d11.v1
title: Additional file 10: of Genetic detection of peste des petits ruminants virus under field conditions: a step forward towards disease eradication

description: Data file of End point report of RT-qPCR. It includes the data of end-point analysis for threshold validation of amplification curves generated during the test. (RTF 261 kb)
DOI: 10.6084/m9.figshare.c.3674875_d2.v1
title: Additional file 1: Table S1. of Upregulation of the proto-oncogene Bmi-1 predicts a poor prognosis in pediatric acute lymphoblastic leukemia

description: Detailed demographic characteristics of pediatric patients with ALL (nâ  =â  85). (XLSX 15 kb)
DOI: 10.6084/m9.figshare.c.3674848_d10
title: Additional file 6: of Genetic detection of peste des petits ruminants virus under field conditions: a step forward towards disease eradication

description: ESE software file in notepad format generated from Detection of PPRV in clinical samples collected in outbreaks. Again in positive samples, the value of amplification signal in the form of mVolts increased with the passage of time during exponential phase until a platue phase is reached with no more increase in signal. (TXT 5 kb)
DOI: 10.6084/m9.figshare.c.3674875_d2
title: Additional file 1: Table S1. of Upregulation of the proto-oncogene Bmi-1 predicts a poor prognosis in pediatric acute lymphoblastic leukemia

description: Detailed demographic characteristics of pediatric patients with ALL (nâ  =â  85). (XLSX 15 kb)