bluuebunny/crossref_metadata_2025_split huggingface dataset:
Association between periodontal disease and atherosclerosis: a bibliometric analysis
Authors: Chang Haoxiang , Wang Yahui , Zhang Ziqi , Mi Zhongqian , Qiu Xinjie , Zhao Miaomiao , Wang Chong , Bai Xue , Ren Xiuyun 
Published: November 2024

BackgroundIn recent years, the relationship between periodontal disease (PD) and atherosclerosis (AS) has garnered significant scholarly attention. Chronic inflammation induced by PD may promote the onset and progression of AS through multiple mechanisms. Given the increasing global incidence of both PD and AS, which adversely affects patients’ quality of life and longevity, further investigation into the interplay between PD and AS is of substantial clinical importance. This study aims to conduct a comprehensive analysis of the association between PD and AS using bibliometric methods.MethodsArticles and reviews on the association between PD and AS were retrieved from the Web of Science Core Collection (WOSCC) on June 1, 2023. Bibliometric and knowledge mapping analyses were conducted using CiteSpace [6.3.R1 (64-bit) Advanced].ResultsThrough a bibliometric analysis of the literature published between 2000 and 2023 on the PD-AS relationship, we identified 1,572 relevant studies. The results show a steadily increasing number of studies on this topic annually, with a significant upward trend after 2002. Keyword analysis reveals “atherosclerosis,” “periodontal disease,” “cardiovascular disease,” “Porphyromonas gingivalis,” and “periodontal pathogens” as research hotspots. Collaboration network analysis highlights the United States as the primary contributor to research in this field. Co-citation analysis shows that J Periodontol, J Clin Periodontol, and Circulation are the most frequently cited journals, reflecting their support for research in this area. Document co-citation analysis identifies several high-impact studies focusing on how systemic inflammation induced by periodontitis promotes AS. This study uncovers development trends and research hotspots in the PD-AS relationship and emphasizes the role of international collaboration and high-impact journals in advancing this field. These insights provide valuable references and guidance for future research.ConclusionPD and AS are global epidemics causing significant distress and imposing a substantial burden. Research on the PD-AS relationship is evolving rapidly and continues to be a critical focus. Elucidating the mechanisms linking PD and AS represents an emerging trend, providing valuable references for future studies.
Metabolomic profiling of infants undergoing cardiopulmonary bypass and association with clinical outcomes: a systematic review
Authors: Meggiolaro Leonardo , Moschino Laura , Stocchero Matteo , Giordano Giuseppe , Vida Vladimiro , Di Salvo Giovanni , Baraldi Eugenio 
Published: November 2024

IntroductionThe incidence of adverse short-term outcomes for infants who undergo complex congenital heart disease (CHD) surgery with cardiopulmonary bypass (CPB) is still high. Early identification and treatment of high-risk patients remain challenging, especially because clinical risk factors often fail to explain the different outcomes of this vulnerable population. Metabolomics offers insight into the phenotype of the patient and the complex interplay between the genetic substrate and the environmental influences at the time of sampling. For these reasons, it may be helpful to identify the mechanisms of physio-pathological disruptions experienced in neonates undergoing congenital heart surgery and to identify potential therapeutic targets.MethodsWe conducted a systematic review (PROSPERO: ID 565112) of studies investigating the association between targeted or untargeted metabolomic analysis of infants undergoing elective surgery with CPB for CHD and clinical outcomes. The PRISMA guidelines were followed. We searched MEDLINE via PubMed, EMBASE via Ovid, the Cochrane Central Register of Controlled Trials, the Cochrane Library, ClinicalTrials.gov and the World Health Organization's International Trials Registry and Platform.ResultsSeven studies involving 509 children (aged 1 day to 21.3 months), all of whom underwent cardiac surgery requiring CPB, were included for qualitative analysis. We found associations between metabolomic profiles and various clinical outcomes, such as mortality, acute kidney injury (AKI), and neurological outcomes. Specific metabolites (mainly amino acids, their metabolic products and fatty acids) were identified as potential biomarkers for these outcomes, demonstrating the utility of metabolomics in predicting certain postoperative complications.ConclusionThe quality of the evidence was limited due to heterogeneity in study designs and small sample sizes, but the findings are promising and suggest that further research is warranted to confirm these associations.Systematic Review Registrationhttps://www.crd.york.ac.uk/prospero/, PROSPERO ID 565112.
Tumor differentiation-dependent conditional survival of patients with operable thyroid cancer
Authors: Yu Ruo-nan , Zhang Zi-qi , Zhang Ping , Zhang Hao , Qu Hui-ling , Dong Wen-wu 
Published: November 2024

ObjectiveLittle is known about the changing risk profile of death and conditional survival in patients with operable thyroid cancer. This study aimed to investigate the annual hazard rate of cancer death, actuarial disease-specific survival (DSS), and conditional DSS in patients with thyroid cancer and explore the effects of tumor differentiation.MethodsPatients diagnosed with thyroid cancer (N = 132,354) between 2004 and 2019 were identified from the Surveillance, Epidemiology, and End Results database. The hazard function was used to estimate the annual hazard rate of death. The Kaplan-Meier method and log-rank test were used for the calculation and between-group comparison of actuarial DSS, respectively. The life table was used to estimate the conditional DSS.ResultsA total of 1896 (1.4%) patients died due to thyroid cancer during the follow-up period. Patients with ATC (68.9%, 313/454) were more likely to die than those with PDTC (19.4%, 171/883) or DTC (1.1%, 1412/131017). For the entire cohort, patients with DTC and PDTC had excellent and relatively stable one-year conditional survival, respectively; patients with ATC had the worst one-year conditional survival, but they achieved the greatest improvements. The worst one-year conditional survival and the most obvious improvement were seen in patients with ATC regardless of any SEER Summary Stage.ConclusionPrognosis improved over time in a tumor differentiation-dependent manner in patients with operable thyroid cancer after diagnosis. This information provides more precise dynamic evaluations of the long-term prognosis of thyroid cancer survivors and paramount clinical implications for individualized treatment and surveillance.
Identification and evaluation of BAG (B-cell lymphoma-2 associated athanogene) family gene expression in pigeonpea (Cajanus cajan) under terminal heat stress
Authors: Alekhya Chakravaram , Tejaswi Avuthu , Harika Gadeela , Bomma Naresh , Gangashetty Prakash I. , Tyagi Wricha , Yogendra Kalenahalli 
Published: November 2024

IntroductionHeat stress poses a significant environmental challenge, impacting plant growth, diminishing crop production, and reducing overall productivity. Plants employ various mechanisms to confront heat stress, and their ability to survive hinges on their capacity to perceive and activate appropriate physiological and biochemical responses. One such mechanism involves regulating multiple genes and coordinating their expression through different signaling pathways. The BAG (B-cell lymphoma-2 associated athanogene) gene family plays a multifunctional role by interacting with heat shock proteins, serving as co-chaperones, or regulating chaperones during the response to heat stress and development. While numerous studies have explored BAG proteins in model plants, there still remains a knowledge gap concerning crop plants.MethodsOur study successfully identified nine BAG genes in pigeonpea through genome-wide scanning. A comprehensive in silico analysis was conducted to ascertain their chromosomal location, sub-cellular localization, and the types of regulatory elements present in the putative promoter region. Additionally, an expression analysis was performed on contrasting genotypes exhibiting varying heat stress responses.ResultsThe results revealed eight CcBAG genes with higher expression levels in the tolerant genotype, whereas BAG6 (Cc_02358) exhibited lower expression. Upstream sequence analysis identified BAG members potentially involved in multiple stresses.DiscussionThe functional characterization of these BAG genes is essential to unravel their roles in signaling pathways, facilitating the identification of candidate genes for precise breeding interventions to produce heat-resilient pigeonpea.
Multi-fusion strategy network-guided cancer subtypes discovering based on multi-omics data
Authors: Liu Jian , Xue Xinzheng , Wen Pengbo , Song Qian , Yao Jun , Ge Shuguang 
Published: November 2024

IntroductionThe combination of next-generation sequencing technology and Cancer Genome Atlas (TCGA) data provides unprecedented opportunities for the discovery of cancer subtypes. Through comprehensive analysis and in-depth analysis of the genomic data of a large number of cancer patients, researchers can more accurately identify different cancer subtypes and reveal their molecular heterogeneity.MethodsIn this paper, we propose the SMMSN (Self-supervised Multi-fusion Strategy Network) model for the discovery of cancer subtypes. SMMSN can not only fuse multi-level data representations of single omics data by Graph Convolutional Network (GCN) and Stacked Autoencoder Network (SAE), but also achieve the organic fusion of multi- -omics data through multiple fusion strategies. In response to the problem of lack label information in multi-omics data, SMMSN propose to use dual self-supervise method to cluster cancer subtypes from the integrated data.ResultsWe conducted experiments on three labeled and five unlabeled multi-omics datasets to distinguish potential cancer subtypes. Kaplan Meier survival curves and other results showed that SMMSN can obtain cancer subtypes with significant differences.DiscussionIn the case analysis of Glioblastoma Multiforme (GBM) and Breast Invasive Carcinoma (BIC), we conducted survival time and age distribution analysis, drug response analysis, differential expression analysis, functional enrichment analysis on the predicted cancer subtypes. The research results showed that SMMSN can discover clinically meaningful cancer subtypes.
Effectiveness, quality of life, and safety of secukinumab versus conventional systemic therapy in patients with erythrodermic psoriasis: a comparative study
Authors: Zhou Ying , Chen Weiquan , Fang Linglu , Qiu Fang , Wu Jiayuan , Li Jing 
Published: November 2024

BackgroundErythrodermic psoriasis (EP) is a rare but life-threatening variant of psoriasis less responsive to conventional systemic therapies (CST). Limited research exists on the management of EP with secukinumab.ObjectivesTo compare the effectiveness, quality-of-life effects and safety of secukinumab versus CST in patients with EP.MethodsEP patients treated with either secukinumab or CST between August 2020 and October 2022 were identified using the National Clinical Research Center for Dermatologic and Immunologic Diseases (NCRC-DID) database encompassing 962 healthcare organizations. Propensity score matching (PSM) was performed to balance the cohorts based on demographic and clinical characteristics. The primary outcomes assessed were Psoriasis Area and Severity Index (PASI), Body Surface Area (BSA), and Dermatology Life Quality Index (DLQI) scales at 4 weeks, 10–14 weeks, and 22–24 weeks.ResultsThe study included 311 patients (160 receiving secukinumab and 151 receiving CST), among them, 101 matched pairs were generated by propensity score matching (PSM). Secukinumab recipients displayed a notably accelerated response compared to those receiving CST, evidenced by significantly higher rates of achieving PASI50 (before PSM: 73.8% vs. 61.6%, after PSM: 76.2% vs. 63.4%), PASI90 (before PSM: 36.9% vs. 25.8%, after PSM: 40.6% vs. 25.7%), and BSA50 (before PSM: 64.4% vs. 50.3%, after PSM: 68.3% vs. 51.5%) at week 4 (p &lt; 0.05). However, before PSM, secukinumab showed significantly higher DLQI0/1 rates at weeks 4 (41.3% vs. 29.8%) and 12 (63.8% vs. 44.8%). After PSM, statistically significant differences were observed at week 12 for PASI and BSA scores, and at week 4 for DLQI scores (p &lt; 0.05). Similar efficacy trends were observed in other outcomes at week 0 up to week 24, but no statistical differences were noted.ConclusionCompared to the CST, secukinumab tend to offer a more rapid response and achieve greater improvements in clinical symptoms and quality of life for EP patients.
Reduced bacillary load in elderly patients with active extrapulmonary and pulmonary tuberculosis in Peru: analysis of confirmatory culture after acid-fast bacilli test
Authors: Moya-Salazar Jeel , Samán Jonathan , Pasco Israel A. , Moya-Salazar Marcia M. , Rojas-Zumaran Víctor , Contreras-Pulache Hans 
Published: November 2024

BackgroundOlder adults with tuberculosis (TB) present unusual clinical features and can be challenging to diagnose. Culture after evaluation of sputum smear (AFB) may result in improved diagnosis performance, however it has not yet been evaluated in Peruvian older adults. We aimed to evaluate the diagnostic relation of TB culture after the AFB in patients aged ≥ 65 years derived for the diagnosis of pulmonary (PTB) and extra-pulmonary (EPTB) in Lima, Peru.MethodsA cross-sectional study was developed in Lima, Peru, in order to evaluate the relationship of TB culture after AFB test in older adults (≥ 65 years) during the PTB and EPTB diagnosis. The frequency of contaminated cultures and the discrepancies between the conventional AFB test and Ogawa-Kudoh culture were analyzed.ResultsOf the 10,461 sputum and 2,536 extrapulmonary samples analyzed during 2015–2017, PTB was diagnosed in 282 (2.7%) and EPTB in 88 (3.5%), respectively. The performance of AFB in the diagnosis of PTB had a sensitivity of 78.2% and specificity of 99.8%. The performance of AFB in EPTB had a sensitivity of 45.5% and specificity of 99.9%. Negative AFB with positive culture was more frequent in ≥ 82 years (p = 0.031). We determined a good agreement in the diagnosis of PTB (κ = 0.84) and moderate for EPTB (κ = 0.55).ConclusionOur findings suggest that diagnosis through culture should be performed after the AFB smear evaluation due to the moderate performance of AFB, especially in patients ≥ 82 years old.
Changes in gut flora in patients with epilepsy: a systematic review and meta-analysis
Authors: He Xingyan , Zhang Yuxin 
Published: November 2024

BackgroundEpilepsy is a prevalent chronic neurological disorder that is strongly associated with a wide range of psychological, cognitive and social problems. It affects a significant proportion of the global population and has a number of complex etiologies. A growing body of research indicates that there is a strong association between epilepsy and the gut microbiota. Indeed, a substantial body of research has investigated the potential role of epilepsy in relation to the gut microbiota, examining alterations in the abundance, diversity, and relative abundance of the gut microbiota in patients with epilepsy.MethodsThis study was conducted in accordance with the PRISMA guidelines and included multiple studies that met specific criteria. A keyword search was conducted in the following databases: PubMed, Embase, and Web of Science. The data extraction and quality assessment were conducted by two independent researchers. A systematic review and meta-analysis of the relationship between patients with epilepsy and gut flora was conducted using the R 4.3.4 software.ResultsThe results of the analyses indicated that the intestinal flora of patients with epilepsy did not differ significantly in alpha diversity compared to healthy controls. However, the relative abundance of specific flora, such as Verrucomicrobia and Ackermannia was significantly increased in patients, whereas Lactobacillus was significantly decreased.ConclusionThe relationship between epilepsy and gut flora is reciprocal. The present meta-analysis demonstrated that there were no statistically significant alterations in the overall characteristics of the intestinal flora of the patients. However, significant changes were observed in the relative abundance of certain phyla and genera. Consequently, it is hypothesized that epilepsy can cause changes in the relative abundance of specific flora in patients. Furthermore, in conjunction with previous studies, it is believed that changes in intestinal flora can also have an effect on seizures. For example, Lactobacillus may be a beneficial genus that potentially reduces seizures. Conversely, the effect of Akkermansia is two-sided.
Identification of altered immune cell types and molecular mechanisms in Alzheimer’s disease progression by single-cell RNA sequencing
Authors: Lin Hua , Su Li , Mao Daniel , Yang Grace , Huang Qi , Lan Yating , Zeng Jingyi , Song Wenyi , Liang Guining , Wei Qingyan , Zou Donghua , Li Rongjie , Zou Chanhua 
Published: November 2024

IntroductionAlzheimer’s disease (AD) is a progressive neurodegenerative disorder characterized by gradual loss of cognitive function. Understanding the molecular mechanisms is crucial for developing effective therapies.MethodsData from single-cell RNA sequencing (scRNA-seq) in the GSE181279 dataset and gene chips in the GSE63060 and GSE63061 datasets were collected and analyzed to identify immune cell types and differentially expressed genes. Cell communication, pseudotime trajectory, enrichment analysis, co- expression network, and short time-series expression miner were analyzed to identify disease-specific molecular and cellular mechanisms.ResultsWe identified eight cell types (B cells, monocytes, natural killer cells, gamma-delta T cells, CD8+ T cells, Tem/Temra cytotoxic T cells, Tem/Trm cytotoxic T cells, and mucosal-associated invariant T cells) using scRNA-seq. AD samples were enriched in monocytes, CD8+ T cells, Tem/Temra cytotoxic T cells, and Tem/Trm cytotoxic T cells, whereas samples from healthy controls were enriched in natural killer and mucosal-associated invariant T cells. Five co-expression modules that were identified through weighted gene correlation network analysis were enriched in immune- inflammatory pathways. Candidate genes with higher area under the receiver operating characteristic curve values were screened, and the expression trend of Ubiquitin-Fold Modifier Conjugating Enzyme 1 (UFC1) gradually decreased from healthy controls to mild cognitive impairment and then to AD.ConclusionOur study suggests that peripheral immune cells may be a potential therapeutic target for AD. Candidate genes, particularly UFC1, may serve as potential biomarkers for progression of AD.
Cerebral venous sinus thrombosis and exploration of prognostic factors: a case series
Authors: Liu Jiahui , Yang Junfeng , Fan Yu , Jiang Changchun 
Published: November 2024

BackgroundThis study examined the etiology, treatment response, and prognosis of patients with cerebral venous sinus thrombosis (CVST) at a single institution.MethodsThis retrospective study included patients diagnosed with CVST between January 2016 and December 2020 at Baotou Central Hospital. The data were collected from patient charts, including sex, age, comorbidities, pregnancy, smoking, alcohol drinking, symptoms at onset, radiological location, examinations, Glasgow coma scale (GCS) at admission, National Institutes of Health stroke scale (NIHSS) at admission, modified Rankin scale (mRS) at admission, and treatments.ResultsThe study included 31 patients (13 males and 18 females) aged 39.0 (interquartile range, 30.0–53.0) years. Three (9.7%) patients had a history of hypertension, one (3.2%) had a history of stroke, four (12.9%) had thrombotic disorders, six (19.4%) were pregnant (including three who delivered), four (12.9%) were smoking, and four (12.9%) were drinking alcohol. The GCS at admission was 15.0 (IQR, 15.0–15.0), the NIHSS at admission was 0.0 (IQR, 0.0–2.0), and the mRS at admission was 0.0 (IQR, 0.0–0.0). The patients were grouped according to their mRS (&gt;0 vs. 0); there were no significant differences between the two groups regarding the patient characteristics (all p &gt; 0.05). Only an NIHSS of &gt;0 at follow-up was associated with a 3-month mRS &gt;0 (p &lt; 0.001).ConclusionThe median age of the patients with CVST was 39 years. The majority were female (58%), 13% had thrombotic disorders, and 19% were or were recently pregnant. Only a NIHSS of &gt;0 at follow-up was associated with a 3-month mRS &gt;0.
Modification of the active centre of nattokinase to enhance its thermostability using a strategy based on molecular dynamics simulation, steered dynamics simulation, and conservative prediction
Authors: Li Yuan , Zhu Wenhui , Chen Liangqi , Tang Xiyu , Ma Aixia , Ma Yuwei , Li Tongli , Li Xingrui , Ma Ye , Li Jinyao 
Published: November 2024

IntroductionThe poor thermostability of nattokinase represents a significant limitation in its potential applications. Additionally, there is a notable absence of studies focused on modifying residues within the active site region of nattokinase with the aim of enhancing its catalytic properties. Furthermore, the direct utilisation of directed evolution often yields unfavourable outcomes, with a considerable workload being a common consequence.MethodsIn order to solve the above problems, a new method based on molecular dynamics simulation, steered dynamics simulation and conservative analysis with site-directed mutagenesis was proposed to screen nattokinase mutants with improved thermal stability. Molecular dynamics simulation was used to explain the mechanism of catalytic performance improvement of positive mutants. Finally, the fermentation process of the positive mutant was optimized.Results and discussionBased on these findings, the mutant A216K was selected for a 5.7-fold increase in half-life at 55°C with a small increase in activity, which further enhanced the mutation library of the thermal stability enhancement site in the enzyme’s active centre. The results of the molecular dynamics simulation indicated that the enhancement of the number of hydrogen bonds within the protein and between the protein and the solvent, as well as the augmentation of the rigidity around the calcium ion binding site and the mutation site, were the primary factors contributing to the improvement of the thermal stability of A216K. It is anticipated that this strategy will provide novel insights into enzyme engineering research.