bluuebunny/crossref_metadata_2025_split huggingface dataset:
Gut Microbiota’s role in lipoma development: evidence from mendelian randomization
Authors: Li Yuxin , Chen Jiahao , Yao Hang , Xu Xiaogang , Zheng Xianglong , Wang Yu , Wang Wanchun 
Published: November 2024

BackgroundLipoma, a benign tumor derived from mesenchymal tissue, significantly affects patients’ physical and psychological wellbeing. Increasing evidence points to a strong link between the gut microbiome (GM) and lipoma incidence. This study utilizes Mendelian Randomization (MR) to assess the potential causal relationships between the GM and lipoma development.MethodsWe conducted a two-sample MR analysis using genome-wide association study (GWAS) data from MiBioGen and FinnGen to explore the causal relationship between GM and lipoma. The GM dataset included 18,340 participants with 14,587 single nucleotide polymorphisms (SNPs), while the lipoma dataset comprised 412,181 participants with 21,306,349 SNPs. We employed 5 MR methods: Inverse Variance Weighted (IVW), Weighted Median, Simple Mode, MR-Egger, and Weighted Mode. Additional assessments included Cochran’s Q test for result heterogeneity, PRESSO analysis for horizontal pleiotropy, and sensitivity analyses through scatter plots, leave-one-out analyses, funnel plots, and forest plots.ResultsThe IVW method identified 18 gene predictors trans-genus associated with lipoma risk. Protective effects against benign lipoma (BL) were observed in the Eubacterium rectale group, Desulfovibrio, Ruminococcus1, Clostridium sensu stricto1, and Lachnospiraceae UCG001; conversely, Lachnospiraceae UCG008 was linked to increased BL risk. Desulfovibrio provided protection against TS-BL; however, the Family XIII AD3011 group, Eubacterium coprostanoligenes group, Lachnospiraceae NK4A136 group, and Parasutterella were associated with an increased TS-BL risk. The Clostridium innocuum group, Eubacterium rectale group, Anaerotruncus, Ruminiclostridium6, and Lachnospiraceae UCG001 offered protection against LS-BL, while Lachnospiraceae UCG008 was linked to an increased LS-BL risk. The Eubacterium brachy group, Odoribacter, Butyricimonas, Subdoligranulum, and Clostridium sensu stricto1 were protective against HFNS-BL; Ruminococcaceae UCG005 was associated with an increased HFNS-BL risk.ConclusionCompared to malignant tumors, research on lipomas has been relatively limited. This study, through MR analysis, provided new evidence of a causal relationship between specific GM and the development of lipomas. Certain gut bacterial species may act as protective or harmful factors in lipoma formation, offering new avenues for future treatment strategies. However, additional research is required to unravel the complexity of how GM influences the pathogenesis of lipomas.
Global trends in tertiary lymphoid structures: a bibliometric analysis from 2014 to 2023
Authors: Bao Yiwen , Mo Zeming , Wang Shuang , Long Jinhua , Zhang Honghong , Xu Yujun , Jiang Honglian , Qian Tianbao , Zeng Zhu 
Published: November 2024

Aim and backgroundTertiary lymphoid structures (TLS) are increasingly recognized for their role in immunity. Despite growing interest, a systematic bibliometric analysis of TLS-related research has been lacking. To provide a comprehensive overview of current research trends and hotspots, we conducted a bibliometric analysis using data from the Web of Science Core Collection.MethodsWe retrieved TLS-related publications from the Science Citation Index Expanded within the Web of Science Core Collection from January 2014 to December 2023. Co-occurrence analysis with “VOSviewer” identified current status and research hotspots, while “CiteSpace” was used for co-citation analysis to assess knowledge evolution and bursts. Thematic evolution was explored using bibliometrics to identify emerging keyword trends. Additionally, we examined country/region, institutional, and author contributions and collaborations. Tables were created using Microsoft Word.ResultsA total of 785 publications were analyzed, showing a continuous growth trend from 2017 to 2023, indicating escalating interest in TLS among researchers. Leading countries in TLS research were China (231 publications), the United States (212 publications), and France (89 publications). The most productive institution and author were the “Institut national de la santé et de la recherche médicale” (70 publications) and Catherine Sautes-Fridman (21 publications), respectively. Key topics included TLS, B cells, and immunotherapy. Recent research has focused on mechanisms linking TLS with cancers, such as immunotherapy, tumor microenvironment, tumor-infiltrating lymphocytes, prognosis, and immune checkpoint inhibitors, highlighting an expanding area of study. Additionally, TLS’ potential as a biomarker for predicting immunotherapy efficacy across different cancer types remains a burgeoning research direction.ConclusionsThis study provides a comprehensive analysis of global TLS-related publications, revealing key literature metrics and identifying influential articles and emerging research concerns. These findings contribute valuable insights into the role of TLS in immunotherapy and suggest future directions for this dynamic field.
Technical challenges of intracellular flow cytometry-based assays as a functional complement to diagnosis of signaling defects of inborn errors of immunity: PI3K pathway as a case of study
Authors: del Pino Molina Lucía , Reche Yebra Keren , Soto Serrano Yolanda , Clemente Bernal Álvaro , Avendaño-Monje Carmen L. , Ocejo-Vinyals J. Gonzalo , Rodríguez Pena Rebeca , López Granados Eduardo 
Published: November 2024

BackgroundThe use of next-generation sequencing in inborn errors of immunity (IEI) has considerably increased the identification of novel gene variants, many of which are identified in patients without the described clinical phenotype or with variants of uncertain pathogenic significance in previously described genes. Properly designed functional and cellular assays, many necessarily accomplished by research-based laboratories, reveal the pathogenic consequences of the gene variants and contribute to diagnosis. Activated PI3Kδ syndrome (APDS) is a rare disease that can be divided into APDS1, caused by gain of function (GOF) mutations in PIK3CD gene, and APDS2, with loss of function (LOF) variants in the PIK3R1 gene. Both entities present hyperactivation of the PI3K pathway, which can be analyzed through Akt and S6 phosphorylation status.MethodsOur objective was to perform an accurate, robust, and reproducible functional assay to analyze the phosphorylation status of proteins in the PI3K-Akt-S6 pathway by flow cytometry, to contribute to diagnosis, to monitor treatments, and to establish intra-assay standardization.ResultsWe illustrate the robustness and reproducibility of our experimental procedure in patients with APDS who had high Akt and/or S6 phosphorylation levels at baseline, and after anti-IgM stimulation in B cells. We show the relevance of an appropriate cohort of samples from healthy donors, processed within the same conditions as the suspected samples, in particular the time frame for sample processing once blood is collected.DiscussionWe highlight the importance of B cell stimulation through B cell receptor signaling, which is highly recommended, especially for samples that would be processed more than 24 hours after blood extraction. Also, having a defined experimental procedure is important, including the cytometer setup, which allows cytometer reproducibility for a period of time, enabling the comparison of a sample at different times.
Ocean acidification enhances the tolerance of dinoflagellate Prorocentrum donghaiense to nanoplastic-induced oxidative stress by modulating photosynthetic performance
Authors: Zhu Yue , Lin Qingming , Yang Yao , Xia Yanmei , Cai Huidi , Feng Xucong , Gonçalves Rodrigo J. , Guan Wanchun 
Published: November 2024

IntroductionThe impact of ocean acidification (OA) and nanoplastics (NPs) on harmful algal blooms (HAB) has emerged as a major global concern. However, the combined effects of OA and NPs on the HAB species are poorly understood.MethodsIn this study, dinoflagellate Prorocentrum donghaiense, a typical HAB species, was exposed to varying concentrations of NPs (108.15 ± 8.52 nm) (0, 5, 10, and 15 mg L−1) and CO2 (low CO2: 417 ppm, pH: 8.00 and high CO2: 1045 ppm, pH: 7.73) for seven days to investigate the combined effects of OA and NPs.Results and discussionThe findings revealed that NPs inhibited the growth of P. donghaiense by inducing oxidative stress, as indicated by elevated malondialdehyde (MDA) content and decreased carotenoid/chlorophyll-a ratio, even though photochemical efficiency (φP0, ψ0, and φE0), rETRmax and α were enhanced in response to NPs stress. However, OA promoted the growth and alleviated the adverse effects of NPs on P. donghaiense by increasing photochemical efficiency (φP0, ψ0, and φE0) and energy flux (RC/CS0, TR0/CS0, ET0/CS0) and enhancing the antioxidant ability (increased superoxide dismutase, and decreased MDA). P. donghaiense showed enhanced tolerance to NPs under simulated OA conditions. These findings enhance our knowledge of the HAB species response to NPs pollution under future OA scenarios.
Evaluating the roles of microRNAs associated with nonalcoholic fatty liver disease in hepatocellular carcinoma tumorigenesis: a systematic review and network analysis
Authors: Peng Qinghua , Zhu Xiaoning , Jiang Yuanyuan , Peng Mengyun , Zheng Ding , Wang Xiaodong , Cheah Yoke Kqueen , Wang Jing 
Published: November 2024

IntroductionNon-alcoholic fatty liver disease (NAFLD) has become the leading cause of chronic liver disease worldwide. Hepatocellular carcinoma (HCC) is the fifth most common malignancy worldwide, with high morbidity and mortality. The rapidly increasing incidence of NAFLD is becoming an essential precursor of HCC globally. MicroRNAs (miRNAs) are involved in the progression of NAFLD and HCC.MethodPotential miRNAs associated with NAFLD in HCC tumorigenesis were identified through a systematic review, and their roles were evaluated by data mining analysis. The biological function of the potential miRNA and its target genes in NAFLD and HCC were evaluated by bioinformatic analysis.ResultMIR122 was identified as the potential miRNA associated with NAFLD and HCC. Then, MIR122 expression was significantly lower in HCC patients, and higher MIR122 levels were associated with significantly better overall survival. Next, the biological functions of MIR122 and target genes were predicted to be involved in inflammation, fibrosis, cell proliferation, invasion, metastasis, and apoptosis. In particular, the FOXO signaling pathway may regulate the above biological functions.ConclusionMIR122 was suggested to be involved in progressing from NAFLD to HCC through the PI3K/AKT/FOXO pathway.Systematic review registrationPROSPERO, identifier: CRD 42024517940.
The negative linear relationship between oxidative balance scores and constipation: a cross-sectional study from NHANES 2005–2010
Authors: Xuan Liqian , Chen Yang , Liu Chang , Dai Yahui 
Published: November 2024

BackgroundThis study aimed to investigate the relationship between oxidation balance score (OBS) and constipation.MethodsAll data was collected from the 2005–2010 cycles of the National health and nutrition examination survey (NHANES) database. The relationship between OBS and constipation was analyzed by logistic regression, restricted cubic spline. Trend analysis was used to explore whether there is a linear relationship between OBS quartiles and constipation, while interaction analysis was conducted to determine whether other factors influence the relationship between OBS and constipation. Subgroup analysis was used to examine the relationship between the two in different subgroups. The three machine learning algorithms including Xgboost, Randomforest, and AdaBoost was used to analyze the important component of OBS in constipation.ResultsA total of 8,074 participants were involved. We found that there was a negative linear relationship between OBS and constipation. The relationship also existed after adjusting for all possible confounders. The trend test showed that the higher the OBS, the lower the likelihood of developing constipation (P for trend&lt;0.05). The interaction analysis showed that marital status and diabetes interact with OBS on constipation. The receiver operating characteristic analysis indicated that OBS had a good prediction efficiency on constipation, especially in participants without diabetes and with the status of married or living with a partner. We also found that the body mass index and magnesium were important OBS components related to constipation.ConclusionOxidation balance score was negatively associated with the occurrence of constipation in adults. Moreover, body mass index and magnesium were important OBS components related to constipation.
Exploring feasibility of fNIRS to assess delayed inhibition effect of prefrontal cortex for acute stress by acupuncture on GV20: a pilot study
Authors: Tamai Hideaki , Komine Shoichi , Kikuchi Senichiro , Waki Hideaki 
Published: November 2024

IntroductionAcupuncture on the acupuncture point GV20 has been considered effective for managing psychoneurological disorders since ancient times, and GV20 is now regularly used to treat stress-related diseases (SRDs), including psychoneurological disorders. Although reports indicating that acupuncture stimulation of GV20 alone regulates cerebral blood flow (CBF) in brain regions associated with SRDs have been scattered, from the perspective of the need for earlier action, the effects on subjective stress as self-reported in the stress state of healthy individuals and CBF changes in related prefrontal cortex (PFC) subregions, which is based as underlying mechanism, remain unclear. Therefore, there is a need to explore effective methods for analyzing such effects.MethodsMultiple consecutive mental arithmetic tasks were performed to induce sufficient stress in healthy university students. Real acupuncture or sham acupuncture was performed on GV20, and subjective stress and CBF changes in PFC subregions were observed before and after acupuncture using functional near-infrared spectroscopy, which were analyzed based on the general linear model method and correlation analysis.ResultsSubjective stress was suppressed and recovered significantly faster in the true acupuncture group than in the sham acupuncture group. Furthermore, significant negative correlations were found between subjective stress and CBF in several PFC subregions during and after the tasks, with more correlated regions on the left side than on the right side of the PFC. Among them, the CBF of the left ventrolateral PFC (vl-PFC) was suggested to be maintained in the true acupuncture group under repeated tasks load, which was inferred to be correlated with delayed decreases in subjective stress after acupuncture.DiscussionThis pilot study showed that fNIRS is feasible for assessing delayed PFC inhibition in acute stress by acupuncture on GV20. Acupuncture treatment on GV20 resulted in early suppression of subjective stress and early recovery. The neuroscientific rationale for this finding may lie in its effect on maintaining CBF in the left vl-PFC related to delayed inhibition of subjective stress, and would make it reasonable to apply acupuncture to GV20 in healthy individuals. Larger studies are needed to corroborate these findings and obtain reliable conclusions.
Case report: The role and value of radiotherapy in treatment of inflammatory myofibroblastic tumor
Authors: Guo Haiwei , Jiang Mingyun , Cai Juanjuan , Liu Ruiqi , Yao Weiping , Liang Xiaodong , Zhang Haibo 
Published: November 2024

BackgroundInflammatory myofibroblastic tumors (IMTs) are rare soft-tissue neoplasms. Accordingly, there is no standardized therapy for unresectable or advanced IMT. Chemotherapy, radiotherapy, and targeted molecular therapy play an important role in unresectable or advanced IMT.Case presentationWe present a 54-year-old man with a cough and chest distress case report. The thoracic surgeon performed the right upper pulmonary occupying lesion wedge resection and enlarged lymph node excision biopsy. Pathologic diagnosis revealed that the morphology of “right upper lung mass” was considered as Inflammatory Myofibroblastic Tumor (IMT). Radiotherapy was indicated at a high dose: 5400cGy in 27 fractions of 2Gy over 5 weeks were delivered combined with cisplatin. The patient was given a CT/MRI and hematological index every 3 months and experienced no more adverse events. The patient survives with no tumor recurrence as of the last follow-up. Progression-free survival (PFS) exceeded 5 years.ConclusionsWe have reviewed the literature and summarized and discussed the radiotherapy treatment options and challenges for IMT. We first reported high-dose radiotherapy combined with chemotherapy treatment for unresectable IMT. Concurrent radiochemotherapy may be considered an intensive treatment for local progress, local recurrence, and nonresectable IMT patients.
A pooled analysis of pancreatic resection for metastatic renal cell carcinoma
Authors: Zhou Yanming , Wang Xiao , Chen Shi , Wang Shijie 
Published: November 2024

BackgroundPancreatic metastasis from renal cell carcinoma (PMRCC) is unusual and there is no consensus on its treatment. The present study aims to evaluate the clinical outcomes of surgical resection for PMRCC.MethodsPubMed and Web of Science were searched for Eligible studies from January 1980 to January 2024. Individual-patient data were pooled.ResultsA total of 436 participants were identified. The morbidity and 90-day mortality were 38.1% and 3.4%, respectively. Post-pancreatectomy recurrence occurred in 44.1% of the patients. The overall median survival was 116 months, with a 3-, 5- and 10-year survival rate of 85.3%, 76.6%, and 46.5% respectively. On univariate analysis, repeat metastasectomy was associated with a significantly better prognosis (P =0.003).ConclusionThese data suggest that surgical resection is a safe and effective therapeutic option for PMRCC. Repeat metastasectomy is positively suggested for recurrent disease provided all metastases can be removed curatively. Systematic review registrationhttps://www.crd.york.ac.uk/prospero/, identifier CRD42024525218.
Outcomes within 100 days of hematopoietic cell transplantation in pediatric patients: insights from an intensive care unit in Colombia
Authors: Lasso-Palomino Rubén E. , Medina Diego , Franco Alexis Antonio , Soto-Aparicio María José , Manzi Tarapues Eliana , Muñoz Diana Marcela , Salazar Edgar , López Jhon , Devia Angela , Martínez-Betancur Sofía , Sierra Jimena , Arias Anita V. , Gómez Inés Elvira 
Published: November 2024

IntroductionHematopoietic cell transplantation (HCT) has become an essential therapeutic modality for pediatric patients with malignant and non-malignant conditions. Despite its effectiveness, many patients experience post-transplant complications often leading into life-threatening conditions requiring specialized care in a Pediatric Intensive Care Unit (PICU). This study aims to describe clinical characteristics associated with mortality in pediatric HCT patients who needed PICU care within 100 days post-transplant in a resource-limited country.MethodsA retrospective cohort study was conducted involving pediatric HCT patients (&lt;18 years old) admitted to our PICU from January 2012 to December 2021. Variables were characterized according to their nature, employing appropriate measures of central tendency and dispersion. The relationship between mortality and patient clinical characteristics was assessed using the Chi-square test or the Mann-Whitney U test, as applicable. A p-value of &lt;0.05 was considered statistically significant. A Kaplan Meier survival curve was performed considering the days from HCT to death during PICU admission and a Cox regression analysis was conducted to analyze the association between PRISM III score and risk of death. Data analysis was executed utilizing the STATA SE v18 statistical software package. Of 316 HCTs, 69 patients required admission to the PICU. Haploidentical transplants from related donors were performed in 72.5% of these patients. The primary cause of PICU admission was infection, accounting for 68.1% (n = 47) of cases. Factors significantly associated with mortality included a PRISM III score &gt; 20 (p &lt; 0.002), mechanical ventilation (p &lt; 0.007), renal replacement therapy (p &lt; 0.002) and vasoactive support (p &lt; 0.001). A total of 27 patients succumbed during their PICU stay. Kaplan Meier curve showed a survival rate of 51.6% at100-days post-transplant. A PRISM III score higher than 20 points was related with mortality (Hazard ratio 5.71 CI 95% 2.09-15.5).DiscussionThis study examines critical factors associated with mortality in pediatric HCT recipients who required admission to our PICU within the first 100 days post-transplant. Our findings indicate that infectious complications, alongside the need for advanced cardiovascular, respiratory, and renal support are strongly correlated with mortality. These results underscore the importance of early risk factor identification and targeted interventions to optimize patient outcomes.
Focus on podocytes: diabetic kidney disease and renal fibrosis — a global bibliometric analysis (2000–2024)
Authors: An Dong-Yang , Tan Jun , Lu Yan-Dan , Wen Ze-Huai , Bao Yi-Ni , Yao Zhou-Hui , Chen Zi-Yan , Wang Ping-Ping , Zhou Wei , Yang Qiao , Hao Min 
Published: November 2024

BackgroundDiabetic kidney disease (DKD) is a common pathway to End-stage renal disease (ESRD). Podocytes are crucial due to their dual barrier functions in kidney diseases. Their role in renal fibrosis and DKD regulatory mechanisms is increasingly studied. However, bibliometric research in this field has not been explored.Methods1,250 publications from Jan. 1, 2000, to Feb. 16, 2024, were retrieved from the WoSCC database and analyzed by the Web of Science results analysis tool, VOSviewer, and CiteSpace.ResultsOur scrutiny reveals that authors Liu Youhua, Fogo Agnes B, and Zhao Yingyong have made substantial contributions to this domain. Notably, “Kidney International” has the highest volume of publications in this area. Furthermore, our analysis identifies ten co-citation clusters: DKD, IncRNA, reactive oxygen species, glomerulosclerosis, Poria cocos, glomerular diseases, fibroblasts, connective tissue growth factor, coagulation, and Wnt. Recent research accentuates keywords such as autophagy, TRPC6, ERS, epigenetics, and NLRP3 inflammasome as frequently occurring terms in this field. The prevailing research hotspot keywords include autophagy, biomarker, and exosomes.ConclusionThrough the utilization of bibliometric tools and knowledge graph analysis, we have undertaken a comprehensive review of the intricate nexus between podocytes in DKD and renal fibrosis. This study imparts valuable insights to scholars regarding the dynamic evolution of this association and delineates prospective research avenues in this pivotal realm.