cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.28636520
title: The impact of leisure sedentary behaviors on risk of chronic kidney disease, diabetes, and related complications: Mendelian randomization study

description: The causal relationship between leisure sedentary behaviors (LSBs) and chronic kidney disease, diabetes and related complications is still equivocal. In this study, we performed two-sample Mendelian randomization for declaring the potential causal association between LSBs and these diseases and summarized the causal estimates. In this study, we used GWAS summary statistics from the public database for exposures (LSB: television watching, computer use, and driving) and outcomes (chronic kidney diseases, diabetes mellitus, and related complications). To ensure reliable results for this study, we applied several methods including IVW, MR-Egger, and weighted median for the regression process; MR-Egger intercept test, Cochran’s Q test, ‘leave-one-out’ analysis and MR-PRESSO test were used to detect horizontal pleiotropy and heterogeneity for sensitivity analysis. Television watching was harmful of CKD (OR = 1.26, 95%CI 1.09–1.44; <i>p</i> = 0.0011), T2D (OR = 1.82, 95%CI 1.48–2.24; <i>p</i> = 1.67e − 08) and DM (OR = 2.26, 95%CI 1.75–2.93; <i>p</i> = 6.44e − 10). No horizontal pleiotropy was detected in MR-Egger intercept test (<i>p</i> value &gt; 0.05) and there were no influential SNPs based on ‘leave-one-out’ analysis. Mendelian randomization estimates in our study genetically predicted the causal effect between television watching and CKD, T2D, and DM. However, we cannot get the definitive causal effect of television watching and other related complications, further studies need to be done to explore the mechanism of action of sedentary behavior on the complications of diabetes and chronic kidney disease.
DOI: 10.6084/m9.figshare.28636520.v1
title: The impact of leisure sedentary behaviors on risk of chronic kidney disease, diabetes, and related complications: Mendelian randomization study

description: The causal relationship between leisure sedentary behaviors (LSBs) and chronic kidney disease, diabetes and related complications is still equivocal. In this study, we performed two-sample Mendelian randomization for declaring the potential causal association between LSBs and these diseases and summarized the causal estimates. In this study, we used GWAS summary statistics from the public database for exposures (LSB: television watching, computer use, and driving) and outcomes (chronic kidney diseases, diabetes mellitus, and related complications). To ensure reliable results for this study, we applied several methods including IVW, MR-Egger, and weighted median for the regression process; MR-Egger intercept test, Cochran’s Q test, ‘leave-one-out’ analysis and MR-PRESSO test were used to detect horizontal pleiotropy and heterogeneity for sensitivity analysis. Television watching was harmful of CKD (OR = 1.26, 95%CI 1.09–1.44; <i>p</i> = 0.0011), T2D (OR = 1.82, 95%CI 1.48–2.24; <i>p</i> = 1.67e − 08) and DM (OR = 2.26, 95%CI 1.75–2.93; <i>p</i> = 6.44e − 10). No horizontal pleiotropy was detected in MR-Egger intercept test (<i>p</i> value &gt; 0.05) and there were no influential SNPs based on ‘leave-one-out’ analysis. Mendelian randomization estimates in our study genetically predicted the causal effect between television watching and CKD, T2D, and DM. However, we cannot get the definitive causal effect of television watching and other related complications, further studies need to be done to explore the mechanism of action of sedentary behavior on the complications of diabetes and chronic kidney disease.
DOI: 10.6084/m9.figshare.28652379
title: Analysis of correlation between dietary fiber intake and risk of diabetic kidney disease in adults with type 2 diabetes mellitus: results from the United States National Health and Nutrition Examination Surveys 2009–2018

description: Given the significant impact of diabetic kidney disease (DKD) on morbidity and mortality in patients with type 2 diabetes mellitus (T2DM) and the potential preventive role of dietary factors, particularly dietary fiber, this study aimed to investigate the relationship between dietary fiber intake and the risk of DKD in adults with T2DM. The medical records and other relevant data from patients with T2DM were retrieved from the United States National Health and Nutrition Examination Surveys (U.S. NHANES) from 2009 to 2018. Multivariate logistic regression and restricted cubic spline (RCS) regression were employed to investigate the relationship between dietary fiber intake and the risk of DKD in adult T2DM patients. The study involved 4,520 T2DM patients with a mean age of 59.16 years, consisting of 2,346 male patients (51.9%) and 2,174 female patients (48.1%). The prevalence of T2DM patients with DKD was 37.92% in the overall population. Regression analyses, after adjusting for confounders, showed that dietary fiber intake was negatively correlated with the prevalence of DKD. RCS analysis demonstrated a nonlinear negative correlation between the level of dietary fiber intake and the prevalence of DKD, with a threshold inflection point of 13.96 g/day. Subgroup analyses revealed that age, gender, race, smoking status, body mass index, hypertension, diabetes duration, glycosylated hemoglobin, and ACEI/ARB medication use did not significantly affect the negative correlations (<i>p</i> &gt; 0.05). Dietary fiber intake was negatively correlated with the prevalence of DKD in T2DM patients.
DOI: 10.6084/m9.figshare.28652384
title: Combining mitochondrial proteomes and Mendelian randomization to identify novel therapeutic targets for diabetic nephropathy

description: Diabetic nephropathy (DN) is a common microvascular complication of diabetes. Mitochondrial dysfunction in the kidney caused by diabetes has previously been linked to the pathogenesis of DN. By mass spectrometry, we identified characteristic proteins of DN from the renal mitochondria in mouse model. To identify the core proteins among them, Mendelian randomization (MR) analysis, microarray data validation, and drug–target interaction analysis were employed. MR analysis found that 189 candidate targets had a causal link with DN risk factors (estimated glomerular filtration rate (eGFR), urinary albumin excretion, and serum creatinine). After systematic analysis, we validated that SLC25A16, CTNND1, C2CD2L, ALDH3A2, NEU1, APEH, CORO1A, NUDT19, and NDUFA4L2 are the core proteins with promising druggability in DN. This study suggests the feasibility of using MR analysis for DN drug target screening, and provides potential insights into mitochondrial dysfunction research, which may contribute to further DN pathogenesis exploration.
DOI: 10.6084/m9.figshare.28652384.v1
title: Combining mitochondrial proteomes and Mendelian randomization to identify novel therapeutic targets for diabetic nephropathy

description: Diabetic nephropathy (DN) is a common microvascular complication of diabetes. Mitochondrial dysfunction in the kidney caused by diabetes has previously been linked to the pathogenesis of DN. By mass spectrometry, we identified characteristic proteins of DN from the renal mitochondria in mouse model. To identify the core proteins among them, Mendelian randomization (MR) analysis, microarray data validation, and drug–target interaction analysis were employed. MR analysis found that 189 candidate targets had a causal link with DN risk factors (estimated glomerular filtration rate (eGFR), urinary albumin excretion, and serum creatinine). After systematic analysis, we validated that SLC25A16, CTNND1, C2CD2L, ALDH3A2, NEU1, APEH, CORO1A, NUDT19, and NDUFA4L2 are the core proteins with promising druggability in DN. This study suggests the feasibility of using MR analysis for DN drug target screening, and provides potential insights into mitochondrial dysfunction research, which may contribute to further DN pathogenesis exploration.
DOI: 10.6084/m9.figshare.28942981
title: Study on the regulation of renal tubular cell apoptosis by SIRT1/NF-κB signaling pathway in septic acute kidney injury

description: SIRT1 regulates gene transcription <i>via</i> various signaling pathways, mitigating oxidative stress damage in renal tubular epithelial cells, reducing renal inflammation, and decreasing apoptosis in tubular cells. This study explores the mechanisms of action of SIRT1 in sepsis-induced acute kidney injury (AKI), offering a theoretical foundation for future treatments. Experiments were carried out in a CLP mouse model and an <i>in vitro</i> model using LPS-stimulated HK-2 cells. Immunoblotting and ELISA were employed to assess the expression levels of inflammatory cytokines (<i>p</i> &lt; 0.01), finding that SIRT1 effectively reduces the inflammatory response in sepsis-induced AKI. Moreover, the detection of cell apoptosis <i>via</i> multiple pathways showed that SIRT1 can reduce the rate of cell apoptosis and effectively decrease oxidative stress in the validation reaction. Transmission electron microscopy observations further supported these findings, demonstrating that SIRT1 expression induces the blockade of cell apoptosis processes. The biochemical experiments concluded that SIRT1 ameliorates sepsis-induced AKI. Consequently, SIRT1 may represent a novel therapeutic target for AKI.
DOI: 10.6084/m9.figshare.28652379.v1
title: Analysis of correlation between dietary fiber intake and risk of diabetic kidney disease in adults with type 2 diabetes mellitus: results from the United States National Health and Nutrition Examination Surveys 2009–2018

description: Given the significant impact of diabetic kidney disease (DKD) on morbidity and mortality in patients with type 2 diabetes mellitus (T2DM) and the potential preventive role of dietary factors, particularly dietary fiber, this study aimed to investigate the relationship between dietary fiber intake and the risk of DKD in adults with T2DM. The medical records and other relevant data from patients with T2DM were retrieved from the United States National Health and Nutrition Examination Surveys (U.S. NHANES) from 2009 to 2018. Multivariate logistic regression and restricted cubic spline (RCS) regression were employed to investigate the relationship between dietary fiber intake and the risk of DKD in adult T2DM patients. The study involved 4,520 T2DM patients with a mean age of 59.16 years, consisting of 2,346 male patients (51.9%) and 2,174 female patients (48.1%). The prevalence of T2DM patients with DKD was 37.92% in the overall population. Regression analyses, after adjusting for confounders, showed that dietary fiber intake was negatively correlated with the prevalence of DKD. RCS analysis demonstrated a nonlinear negative correlation between the level of dietary fiber intake and the prevalence of DKD, with a threshold inflection point of 13.96 g/day. Subgroup analyses revealed that age, gender, race, smoking status, body mass index, hypertension, diabetes duration, glycosylated hemoglobin, and ACEI/ARB medication use did not significantly affect the negative correlations (<i>p</i> &gt; 0.05). Dietary fiber intake was negatively correlated with the prevalence of DKD in T2DM patients.
DOI: 10.6084/m9.figshare.28935564
title: METTL3 promotes podocyte pyroptosis in diabetic nephropathy through N<sup>6</sup>-methyladenosine modification of TRIM29 mRNA

description: Multiple studies have revealed the critical roles of epigenetic modifications in the development of diabetic nephropathy (DN). Methyltransferase-like 3 (METTL3)-mediated N<sup>6</sup>-methyladenosine (m6A) RNA modification in podocytes represents a new disease mechanism in DN. The tripartite motif-containing (TRIM) family member TRIM29 was reported to promote podocyte pyroptosis by activating the nuclear factor-κB/NLR family pyrin domain containing 3 (NLRP3) inflammasome pathway. However, whether METTL3-mediated m6A modification of TRIM29 mRNA is involved in podocyte injury remain unknown. Here, we found that METTL3 upregulated the m6A content in mRNA from kidney tissues of mice with streptozotocin-induced DN and in hyperglycemia-induced MPC-5 murine podocytes. METTL3 expression in high glucose-treated MPC-5 cells resulted in elevated release of interleukin (IL)-1β, IL-18, and lactate dehydrogenase and upregulated expression of pyroptosis-associated molecules. Mechanistically, METTL3 was found to directly target TRIM29 for m6A modification and activate TRIM29 transcription. Moreover, the m6A reader YT521-B homology (YTH) domain family member YTHDF1 was recruited by METTL3 to maintain the stability of TRIM29 mRNA, which contributed significantly to increased podocyte pyroptosis. Furthermore, the potent METTL3-specific inhibitor STM2457 prominently alleviated podocyte injury through attenuating activation of the NLRP3 inflammasome/pyroptosis pathway in the DN mouse model. Our results suggest that METTL3 plays a critical role in hyperglycemia-induced podocyte injury through m6A modification of TRIM29 mRNA, which provides new insight for the development of METTL3- and pyroptosis-targeted strategies to treat DN and other diabetic kidney diseases.
DOI: 10.6084/m9.figshare.28148735
title: Investigation of the connection between triglyceride-glucose (TyG) index and the risk of acute kidney injury in septic patients - a retrospective analysis utilizing the MIMIC-IV database

description: The TyG index serves as a valuable tool for evaluating insulin resistance. An elevated TyG has shown a strong association with the occurrence of acute kidney injury (AKI). Nevertheless, existing literature does not address the relationship between the TyG index and acute kidney injury in patients with sepsis. Sepsis patients were identified from the MIMIC-IV database and categorized into four groups according to quadrilles of their TyG index values. The primary outcome of this study was the incidence of AKI. The relationship between the TyG index and the risk of AKI in septic patients was evaluated using Cox proportional hazards and restricted cubic spline models. Subgroup analyses were conducted to investigate the prognostic value of the TyG index in different subgroups. A total of 2,616 patients with sepsis (57% of whom were male) were included in this study. The incidence of AKI was found to be 78%. Cox proportional hazards analysis revealed a significant correlation between the TyG index and the occurrence of AKI in septic patients. Furthermore, a restricted cubic spline model revealed an approximately linear relationship between a higher TyG index and an elevated risk of AKI in septic patients. The trend of the hazard ratio (HR) remained consistent across various subgroups. These findings emphasize the reliability of the TyG index as an independent predictor for the occurrence of AKI and unfavorable renal outcomes in sepsis patients. Nevertheless, establishing a causal relationship between the two requires demonstration through larger prospective studies.
DOI: 10.6084/m9.figshare.28148735.v2
title: Investigation of the connection between triglyceride-glucose (TyG) index and the risk of acute kidney injury in septic patients - a retrospective analysis utilizing the MIMIC-IV database

description: The TyG index serves as a valuable tool for evaluating insulin resistance. An elevated TyG has shown a strong association with the occurrence of acute kidney injury (AKI). Nevertheless, existing literature does not address the relationship between the TyG index and acute kidney injury in patients with sepsis. Sepsis patients were identified from the MIMIC-IV database and categorized into four groups according to quadrilles of their TyG index values. The primary outcome of this study was the incidence of AKI. The relationship between the TyG index and the risk of AKI in septic patients was evaluated using Cox proportional hazards and restricted cubic spline models. Subgroup analyses were conducted to investigate the prognostic value of the TyG index in different subgroups. A total of 2,616 patients with sepsis (57% of whom were male) were included in this study. The incidence of AKI was found to be 78%. Cox proportional hazards analysis revealed a significant correlation between the TyG index and the occurrence of AKI in septic patients. Furthermore, a restricted cubic spline model revealed an approximately linear relationship between a higher TyG index and an elevated risk of AKI in septic patients. The trend of the hazard ratio (HR) remained consistent across various subgroups. These findings emphasize the reliability of the TyG index as an independent predictor for the occurrence of AKI and unfavorable renal outcomes in sepsis patients. Nevertheless, establishing a causal relationship between the two requires demonstration through larger prospective studies.
DOI: 10.6084/m9.figshare.28148735.v1
title: Investigation of the connection between triglyceride-glucose (TyG) index and the risk of acute kidney injury in septic patients - a retrospective analysis utilizing the MIMIC-IV database

description: The TyG index serves as a valuable tool for evaluating insulin resistance. An elevated TyG has shown a strong association with the occurrence of acute kidney injury (AKI). Nevertheless, existing literature does not address the relationship between the TyG index and acute kidney injury in patients with sepsis. Sepsis patients were identified from the MIMIC-IV database and categorized into four groups according to quadrilles of their TyG index values. The primary outcome of this study was the incidence of AKI. The relationship between the TyG index and the risk of AKI in septic patients was evaluated using Cox proportional hazards and restricted cubic spline models. Subgroup analyses were conducted to investigate the prognostic value of the TyG index in different subgroups. A total of 2,616 patients with sepsis (57% of whom were male) were included in this study. The incidence of AKI was found to be 78%. Cox proportional hazards analysis revealed a significant correlation between the TyG index and the occurrence of AKI in septic patients. Furthermore, a restricted cubic spline model revealed an approximately linear relationship between a higher TyG index and an elevated risk of AKI in septic patients. The trend of the hazard ratio (HR) remained consistent across various subgroups. These findings emphasize the reliability of the TyG index as an independent predictor for the occurrence of AKI and unfavorable renal outcomes in sepsis patients. Nevertheless, establishing a causal relationship between the two requires demonstration through larger prospective studies.
DOI: 10.6084/m9.figshare.28594455
title: Deciphering the causal link between gut microbiota and membranous nephropathy: insights into potential inflammatory mechanisms

description: Membranous nephropathy (MN), a leading cause of adult nephrotic syndrome and renal failure, has been linked to gut microbiota (GM) and their metabolites. However, direct causal relationships and therapeutic implications remain unclear. We utilized a comprehensive GWAS dataset that encompasses GM, metabolites, and MN through two-sample Mendelian randomization (MR) analyses, bidirectional MR evaluations, and detailed sensitivity tests. We identified strong causal associations between nine specific types of GM, including class <i>Clostridia</i> (OR = 1.816, 95%CI: 1.021–3.236, <i>p</i> = .042), class <i>Melainabacteria</i> (OR = 0.661, 95%CI: 0.439–0.996, <i>p</i> = .048), order <i>Gastranaerophilales</i> (OR = 0.689, 95%CI: 0.480–0.996, <i>p</i> = .044), genus <i>Alistipes</i> (OR = 0.480, 95%CI: 0.223–0.998, <i>p</i> = .049), genus <i>Butyricicoccus</i> (OR = 0.464, 95%CI: 0.216–0.995, <i>p</i> = .048), genus <i>Butyrivibrio</i> (OR = 0.799, 95%CI: 0.639–0.998, <i>p</i> = .048), genus <i>Ruminococcaceae UCG003</i> (OR = 0.563, 95%CI: 0.362–0.877, <i>p</i> = .011), genus <i>Streptococcus</i> (OR = 0.619, 95%CI: 0.393–0.973, <i>p</i> = .038), and genus <i>Oscillibacter</i> (OR = 1.90, 95%CI: 1.06–3.40, <i>p</i> = .031). Additionally, the metabolite tryptophan also exhibited a significant causal influence on MN (OR = 0.852, 95%CI: 0.754–0.963, <i>p</i> = .010). Sensitivity and reverse MR analyses confirmed the robustness of these findings. Further exploration using gutMGene database suggests that GM may influence MN by affecting the release of inflammatory factors and modulating inflammatory pathways. This study offers a comprehensive understanding of the causal links between GM, their metabolites, and MN, which highlight potential pathways for developing new preventive and therapeutic strategies for this condition.
DOI: 10.6084/m9.figshare.28594455.v1
title: Deciphering the causal link between gut microbiota and membranous nephropathy: insights into potential inflammatory mechanisms

description: Membranous nephropathy (MN), a leading cause of adult nephrotic syndrome and renal failure, has been linked to gut microbiota (GM) and their metabolites. However, direct causal relationships and therapeutic implications remain unclear. We utilized a comprehensive GWAS dataset that encompasses GM, metabolites, and MN through two-sample Mendelian randomization (MR) analyses, bidirectional MR evaluations, and detailed sensitivity tests. We identified strong causal associations between nine specific types of GM, including class <i>Clostridia</i> (OR = 1.816, 95%CI: 1.021–3.236, <i>p</i> = .042), class <i>Melainabacteria</i> (OR = 0.661, 95%CI: 0.439–0.996, <i>p</i> = .048), order <i>Gastranaerophilales</i> (OR = 0.689, 95%CI: 0.480–0.996, <i>p</i> = .044), genus <i>Alistipes</i> (OR = 0.480, 95%CI: 0.223–0.998, <i>p</i> = .049), genus <i>Butyricicoccus</i> (OR = 0.464, 95%CI: 0.216–0.995, <i>p</i> = .048), genus <i>Butyrivibrio</i> (OR = 0.799, 95%CI: 0.639–0.998, <i>p</i> = .048), genus <i>Ruminococcaceae UCG003</i> (OR = 0.563, 95%CI: 0.362–0.877, <i>p</i> = .011), genus <i>Streptococcus</i> (OR = 0.619, 95%CI: 0.393–0.973, <i>p</i> = .038), and genus <i>Oscillibacter</i> (OR = 1.90, 95%CI: 1.06–3.40, <i>p</i> = .031). Additionally, the metabolite tryptophan also exhibited a significant causal influence on MN (OR = 0.852, 95%CI: 0.754–0.963, <i>p</i> = .010). Sensitivity and reverse MR analyses confirmed the robustness of these findings. Further exploration using gutMGene database suggests that GM may influence MN by affecting the release of inflammatory factors and modulating inflammatory pathways. This study offers a comprehensive understanding of the causal links between GM, their metabolites, and MN, which highlight potential pathways for developing new preventive and therapeutic strategies for this condition.
DOI: 10.15468/dl.8kr883
title: Occurrence Download

description: A dataset containing 38782 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Continent is Asia",
 "Country is one of (Türkiye, Israel, Cyprus, Kazakhstan, Armenia, Azerbaijan, Russian Federation, Georgia, Kyrgyzstan, Tajikistan, Turkmenistan, Uzbekistan)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "TaxonKey is Fulica atra Linnaeus, 1758",
 "Year 2020-2024"
 ]
}

 The dataset includes 38782 records from 10 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0029649-250426092105405/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.wscnjc
title: Occurrence Download

description: A dataset containing 248 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Peru",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Herpsilochmus parkeri Davis & O'Neill, 1986"
 ]
}

 The dataset includes 248 records from 6 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0029648-250426092105405/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.